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 compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Reference for composition-based statistics starting in round 2: 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 Results from round 1 >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 = 696 bits (1796), Expect = 0.0, Method: Compositional matrix adjust. 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|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 = 625 bits (1611), Expect = e-177, Method: Compositional matrix adjust. 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|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 = 495 bits (1274), Expect = e-138, Method: Compositional matrix adjust. Identities = 238/339 (70%), Positives = 285/339 (84%), Gaps = 4/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E+ G+ + ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVEFTSSGR---TKATLVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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|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 = 494 bits (1273), Expect = e-138, Method: Compositional matrix adjust. Identities = 238/339 (70%), Positives = 283/339 (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 TEEEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 297 KSLNEIKEVLASMGLHLGMEVPAWPPENIEDLAKRYEDQ 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 = 494 bits (1271), Expect = e-137, Method: Compositional matrix adjust. Identities = 237/339 (69%), Positives = 284/339 (83%), Gaps = 4/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP+ IE+ G+ + N ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPSKIEFTSKGRTQTN---LVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 VPAE-QVTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +PDWPP++IEELAK+YED+ Sbjct: 297 KSLNEIKEVLASMGLHLGMEVPDWPPDNIEELAKRYEDQ 335 >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 = 491 bits (1265), Expect = e-137, Method: Compositional matrix adjust. Identities = 237/339 (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 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 VAAEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +PDWPPE+IE+LAK+YED+ Sbjct: 297 KSLNEIKEVLAAMGLHLGMEVPDWPPENIEDLAKRYEDQ 335 >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 = 491 bits (1264), Expect = e-137, Method: Compositional matrix adjust. Identities = 236/339 (69%), Positives = 282/339 (83%), 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 VAAEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +PDWPPE+IE+LAK+YED+ Sbjct: 297 KSLNEIKEVLAAMGLHLGMEVPDWPPENIEDLAKRYEDQ 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 = 490 bits (1262), Expect = e-136, Method: Compositional matrix adjust. Identities = 234/339 (69%), Positives = 284/339 (83%), Gaps = 4/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E+ G+ + ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVEFASSGR---TKATLVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 = 490 bits (1261), Expect = e-136, Method: Compositional matrix adjust. Identities = 233/339 (68%), Positives = 285/339 (84%), Gaps = 4/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +++ G+ + ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVDFTSSGR---TKATLVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 AEEEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 297 KSLNEIKEVLASMGLHLGMEVPSWPPENIEDLAKRYEDQ 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 = 488 bits (1257), Expect = e-136, Method: Compositional matrix adjust. Identities = 234/339 (69%), Positives = 282/339 (83%), 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 AEEE-SVTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 297 KSLNEIKEVLASMGLHLGMEVPAWPPENIEDLAKRYEDQ 335 >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 = 487 bits (1254), Expect = e-136, Method: Compositional matrix adjust. Identities = 234/339 (69%), Positives = 282/339 (83%), Gaps = 4/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E+ G+ + ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVEFSSSGR---TKATLVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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|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 = 478 bits (1229), Expect = e-133, Method: Compositional matrix adjust. 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 MIQKNWQELIKPNKVDFITHGSR--THATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 APQE-QVAELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 298 KSLNEIKEVLASMGLHLGMEIPAWPPENIEDLAKRYEDQ 336 >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 = 478 bits (1229), Expect = e-133, Method: Compositional matrix adjust. Identities = 226/339 (66%), Positives = 279/339 (82%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +++I G ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVDFITNGSR--THATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 APQE-QVAELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 298 KSLNEIKEVLASMGLHLGMEIPSWPPENIEDLAKRYEDQ 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 = 478 bits (1229), Expect = e-133, Method: Compositional matrix adjust. 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 MIQKNWQELIKPNKVDFITHGSR--THATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 APQE-QVAELAFNPALLKKVDELELSVRSANCLKTDNIVYIGDLIQKTEAEMLRTPNFGR 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 = 477 bits (1228), Expect = e-132, Method: Compositional matrix adjust. 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 MIQKNWQELIKPNKVDFITHGSR--THATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 APQE-QVAELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 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 = 477 bits (1227), Expect = e-132, Method: Compositional matrix adjust. 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 MIQKNWQELIKPNKVDFITHGSR--THATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 APQE-QVAELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 298 KSLNEIKEVLASMGLHLGMEIPAWPPENIEDLAKRYEDQ 336 >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 = 477 bits (1227), Expect = e-132, Method: Compositional matrix adjust. Identities = 227/339 (66%), Positives = 280/339 (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 E+ V L FNP+LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 238 VHEE-TVAELAFNPSLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 297 KSLNEIKEVLASMGLHLGMEVPSWPPENIEDLAKRYEDQ 335 >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 = 476 bits (1226), Expect = e-132, Method: Compositional matrix adjust. 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 MIQKNWQELIKPNKVDFITHGSR--THATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 APQE-QVAELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 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 = 476 bits (1224), Expect = e-132, Method: Compositional matrix adjust. 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 MIQKNWQELIKPNKVDFITHGSR--THATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 APQE-QVAELAFNPVLLKKVDELELSVRSANCLKTDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 298 KSLNEIKEVLASMGLHLGMEIPAWPPENIEDLAKRYEDQ 336 >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 = 474 bits (1221), Expect = e-132, Method: Compositional matrix adjust. 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 MIQKNWQELIKPNKVDFITHGSR--THATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 APQE-QVAELAFNAALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 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 = 473 bits (1218), Expect = e-131, Method: Compositional matrix adjust. 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 MIQKNWQELIKPNKVDFITHGSR--THATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 APQE-QVAELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 298 KSLNEIKEVLASMGLHLGMEIPAWPPENIEDLAKRYEDQ 336 >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 = 473 bits (1216), Expect = e-131, Method: Compositional matrix adjust. 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 APQE-QVAELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 298 KSLNEIKEVLASMGLHLGMEIPAWPPENIEDLAKRYEDQ 336 >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 = 461 bits (1186), Expect = e-128, Method: Compositional matrix adjust. Identities = 228/339 (67%), Positives = 273/339 (80%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E + N +IAEPL RGF TLGNALRRVL+SSLRGAAI Sbjct: 1 MIQKNWQELIKPNKVES--CAHDNPNVISVIAEPLERGFGLTLGNALRRVLLSSLRGAAI 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 PVEEAD-SELSFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPAWPPENIDDLAKRYEDQ 336 >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 = 461 bits (1186), Expect = e-128, Method: Compositional matrix adjust. Identities = 220/338 (65%), Positives = 278/338 (82%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP +E + +G + + ++AEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 1 MIQKNWQELIKPEKLE-VAVGSDPKRLATVVAEPLERGFGQTLGNALRRILLSSLQGAAV 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 E ++ LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 T-ESPAMQELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL +MGL LGM +P WPPE+IE+LAK++ED Sbjct: 299 KSLNEIKEVLASMGLHLGMEVPGWPPENIEDLAKRFED 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 = 459 bits (1182), Expect = e-127, Method: Compositional matrix adjust. 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 MIQKNWQELIKPNKVESFT--HDNSNIISVIAEPLERGFGLTLGNALRRVLLSSLRGAAI 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 PVEEAD-SELSFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPAWPPENIDDLAKRYEDQ 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 = 458 bits (1179), Expect = e-127, Method: Compositional matrix adjust. 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 QED-TVAELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM + +WPPE+I+ELAK+YED Sbjct: 301 SLNEIKEVLAQMGLHLGMEVANWPPENIDELAKRYED 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 = 457 bits (1177), Expect = e-127, Method: Compositional matrix adjust. Identities = 221/337 (65%), Positives = 278/337 (82%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELIKP ++ + G++ ++AEPL RG+ TLGNALRR+L+SSL+GAA+T Sbjct: 16 IQKNWQELIKPTKLD-VKPGEDPRFVATVVAEPLERGYGLTLGNALRRILLSSLQGAAVT 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|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 = 456 bits (1174), Expect = e-126, Method: Compositional matrix adjust. Identities = 222/339 (65%), Positives = 272/339 (80%), Gaps = 5/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI +NWQELIKP ++ G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIHRNWQELIKPTKLDVSSNG----TKGTLVAEPLERGFGLTLGNALRRVLLSSLQGAAV 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 VVQE-QVTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEGEMLRTPNFGR 295 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL TMGL LGM +P WPPE+I++LAK+YED+ Sbjct: 296 KSLNEIKEVLATMGLHLGMEIPAWPPENIDDLAKRYEDQ 334 >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 = 456 bits (1173), Expect = e-126, Method: Compositional matrix adjust. Identities = 218/337 (64%), Positives = 275/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ + G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQ-VSPGSDATRFATLVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 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|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 = 455 bits (1171), Expect = e-126, Method: Compositional matrix adjust. Identities = 217/337 (64%), Positives = 275/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ + G + ++AEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 7 IQKNWQELIRPNKLQ-VTPGSDPARFATIVAEPLERGFGQTLGNALRRILLSSLQGAAVQ 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 = 455 bits (1170), Expect = e-126, Method: Compositional matrix adjust. Identities = 219/337 (64%), Positives = 273/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ + G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQ-VTAGSDATRFATLVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 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|319405874|emb|CBI79506.1| DNA-directed RNA polymerase alpha subunit [Bartonella sp. AR 15-3] Length = 337 Score = 455 bits (1170), Expect = e-126, Method: Compositional matrix adjust. 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 MIQKNWQELIKPNKVEF--HAHNDPNIVSVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 LIEEPD-PELSFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPAWPPENIDDLAKRYEDQ 336 >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 = 455 bits (1170), Expect = e-126, Method: Compositional matrix adjust. Identities = 217/337 (64%), Positives = 274/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ + G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQ-VTAGSDATRFATLVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 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|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 = 453 bits (1166), Expect = e-125, Method: Compositional matrix adjust. 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|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 = 453 bits (1166), Expect = e-125, Method: Compositional matrix adjust. Identities = 220/337 (65%), Positives = 274/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELIKP +E + G + ++AEPL RG+ TLGNALRR+L+SSL+GAA+T Sbjct: 3 IQKNWQELIKPTKLE-VKPGDDPRFLATVVAEPLERGYGLTLGNALRRILLSSLQGAAVT 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 AED-TVPELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM + +WPPE+I++LAK+YED Sbjct: 301 SLNEIKEVLAQMGLHLGMEVANWPPENIDDLAKRYED 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 = 453 bits (1166), Expect = e-125, Method: Compositional matrix adjust. Identities = 216/337 (64%), Positives = 274/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ + G + ++AEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 7 IQKNWQELIRPNKLQ-VTPGSDATRFATVVAEPLERGFGQTLGNALRRILLSSLQGAAVQ 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|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 = 453 bits (1165), Expect = e-125, Method: Compositional matrix adjust. Identities = 218/338 (64%), Positives = 272/338 (80%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKP ++ + G + + ++AEPL RGF TLGN+LRR+L+SSL+GAA+ Sbjct: 4 VIQKNWQELIKPEKLQ-VTAGADPKRLATVVAEPLERGFGMTLGNSLRRILLSSLQGAAV 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 E ++ LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ++E +MLR NFGR Sbjct: 243 -SETAAIQELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSETEMLRTPNFGR 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL +MGL LGM +P WPPE+IEELAK++ED Sbjct: 302 KSLNEIKEVLASMGLHLGMEVPGWPPENIEELAKRFED 339 >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 = 453 bits (1165), Expect = e-125, Method: Compositional matrix adjust. Identities = 221/339 (65%), Positives = 273/339 (80%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E+ + N + +I EPL RGF TLGNALRRVL+SSLRGAAI Sbjct: 1 MIQKNWQELIKPNKVEFCT--HDNPNISSVIVEPLERGFGLTLGNALRRVLLSSLRGAAI 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 IVDESD-SELTFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPTWPPENIDDLAKRYEDQ 336 >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 = 453 bits (1165), Expect = e-125, Method: Compositional matrix adjust. Identities = 219/339 (64%), Positives = 275/339 (81%), 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 + E+ L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 239 LIEE-PASELTFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPAWPPENIDDLAKRYEDQ 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 = 452 bits (1164), Expect = e-125, Method: Compositional matrix adjust. 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 AED-TVPELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM + +WPPE+I++LAK+YED Sbjct: 301 SLNEIKEVLAQMGLHLGMEVANWPPENIDDLAKRYED 337 >gi|319404401|emb|CBI78004.1| DNA-directed RNA polymerase alpha subunit [Bartonella rochalimae ATCC BAA-1498] Length = 337 Score = 452 bits (1163), Expect = e-125, Method: Compositional matrix adjust. 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 MIQKNWQELIKPSKVEF--HAHNDPNIVSVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 LVEEPD-SELSFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPP++I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPAWPPDNIDDLAKRYEDQ 336 >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 = 452 bits (1163), Expect = e-125, Method: Compositional matrix adjust. 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 MIQKNWQELIKPNKVEFS--KHDNPNISSVIVEPLERGFGLTLGNALRRVLLSSLRGAAI 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 TVEESN-SELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEVPTWPPENIDDLAKRYEDQ 336 >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 = 452 bits (1163), Expect = e-125, Method: Compositional matrix adjust. Identities = 216/337 (64%), Positives = 273/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ + G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQ-VTPGSDATRFATLVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 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|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 = 451 bits (1160), Expect = e-125, Method: Compositional matrix adjust. Identities = 216/337 (64%), Positives = 271/337 (80%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ +V G + ++AEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 7 IQKNWQELIRPNKLQ-VVPGSDPSRFATLVAEPLERGFGQTLGNALRRILLSSLQGAAVQ 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|319407401|emb|CBI81052.1| DNA-directed RNA polymerase alpha subunit [Bartonella sp. 1-1C] Length = 337 Score = 451 bits (1159), Expect = e-125, Method: Compositional matrix adjust. 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 MIQKNWQELIKPSKVEF--HAHNDPNIVSVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 LVEEPD-SELSFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPP++I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPAWPPDNIDDLAKRYEDQ 336 >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 = 451 bits (1159), Expect = e-124, Method: Compositional matrix adjust. Identities = 216/337 (64%), Positives = 271/337 (80%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ +V G + +IAEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQ-VVPGSDPSRFATLIAEPLERGFGQTLGNALRRILLSSLQGAAVQ 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|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 = 449 bits (1156), Expect = e-124, Method: Compositional matrix adjust. Identities = 216/337 (64%), Positives = 273/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ + G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQ-VTPGSDSGRFATLVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 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|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 = 449 bits (1155), Expect = e-124, Method: Compositional matrix adjust. Identities = 216/337 (64%), Positives = 270/337 (80%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN + ++V G + +IAEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKL-HVVPGSDPSRFATLIAEPLERGFGQTLGNALRRILLSSLQGAAVQ 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|319408741|emb|CBI82398.1| DNA-directed RNA polymerase alpha subunit [Bartonella schoenbuchensis R1] Length = 337 Score = 448 bits (1152), Expect = e-124, Method: Compositional matrix adjust. 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 MIQKNWQELIKPNKVEFHADGNS--NVVSVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 LVEE-PASELSFNLALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPAWPPENIDDLAKRYEDQ 336 >gi|9837272|gb|AAG00506.1|AF285111_1 RNA polymerase alpha subunit [Bartonella henselae] Length = 337 Score = 447 bits (1150), Expect = e-124, Method: Compositional matrix adjust. Identities = 219/339 (64%), Positives = 270/339 (79%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELI PN +E+ + N + +I EPL RGF TLGNALRRVL+S LRGAAI Sbjct: 1 MIQKNWQELINPNKVEFS--KHDNPNISSVIVEPLERGFGLTLGNALRRVLLSYLRGAAI 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 TVEESN-SELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEVPTWPPENIDDLAKRYEDQ 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 = 447 bits (1150), Expect = e-123, Method: Compositional matrix adjust. Identities = 217/343 (63%), Positives = 272/343 (79%), Gaps = 6/343 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI NWQ+L KPN + + G ++ + AEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIASNWQDLTKPNQVVFKNGGSR--SKASLTAEPLERGFGLTLGNALRRVLLSSLQGAAI 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 VK----EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 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|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 = 447 bits (1149), Expect = e-123, Method: Compositional matrix adjust. 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|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 = 446 bits (1146), Expect = e-123, Method: Compositional matrix adjust. Identities = 215/337 (63%), Positives = 270/337 (80%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELIKPN +E + G + +AEPL RGF TLGNALRR+L+SSL+GAAIT Sbjct: 3 IQKNWQELIKPNKLE-VTAGDDPRRVATAVAEPLERGFGVTLGNALRRILLSSLQGAAIT 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|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 = 445 bits (1145), Expect = e-123, Method: Compositional matrix adjust. Identities = 213/338 (63%), Positives = 273/338 (80%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN +E + G + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 2 VIQKNWQELIKPNKLE-VAPGHDPKRIATVVAEPLERGFGTTLGNALRRVLLSSLQGAAV 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 EAAPL-APQLPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++P WPPE+IE+LAK++E+ Sbjct: 300 KSLNEIKEVLAAMGLHLGMDVPGWPPENIEDLAKRFEE 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 = 445 bits (1144), Expect = e-123, Method: Compositional matrix adjust. Identities = 213/338 (63%), Positives = 274/338 (81%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN +E +V G + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 2 VIQKNWQELIKPNKLE-VVPGHDPKRVATVVAEPLERGFGTTLGNALRRVLLSSLQGAAV 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 EAAPL-APQLPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++P WPPE+IE+LAK++E+ Sbjct: 300 KSLNEIKEVLAAMGLHLGMDVPGWPPENIEDLAKRFEE 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 = 445 bits (1144), Expect = e-123, Method: Compositional matrix adjust. Identities = 213/337 (63%), Positives = 272/337 (80%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ + G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQ-VTPGSDPSRFATLVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 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|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 = 443 bits (1139), Expect = e-122, Method: Compositional matrix adjust. 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 MIQKNWQELIKPNKIEF--HAHSNPNVLSVVAEPLERGFGLTLGNALRRILLSSLRGAAI 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 LVEE-QTSELSFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM + WPPE+I++LAK YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEISAWPPENIDDLAKHYEDQ 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 = 443 bits (1139), Expect = e-122, Method: Compositional matrix adjust. Identities = 219/352 (62%), Positives = 271/352 (76%), Gaps = 16/352 (4%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI NWQ+L KPN + + G+ + + AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIASNWQDLSKPNQVVFKGSGR---TKASLTAEPLERGFGLTLGNALRRVLLSSLQGAAV 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 VKEDIN-------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 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|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 = 442 bits (1137), Expect = e-122, Method: Compositional matrix adjust. Identities = 211/337 (62%), Positives = 273/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ + G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQ-VTPGADATRFATVVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 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|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 = 441 bits (1134), Expect = e-122, Method: Compositional matrix adjust. 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|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 = 441 bits (1134), Expect = e-122, Method: Compositional matrix adjust. Identities = 218/339 (64%), Positives = 273/339 (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 E+ + L FN ALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TE++MLR NFGR Sbjct: 240 HVEE-SRPELEFNAALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P+WPPE+IEELAK+YED+ Sbjct: 299 KSLNEIKEVLAQMGLHLGMEVPNWPPENIEELAKRYEDQ 337 >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 = 440 bits (1131), Expect = e-121, Method: Compositional matrix adjust. Identities = 212/338 (62%), Positives = 271/338 (80%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN ++ + G + + ++AEPL RGF TLGN+LRRVL+SSL+GAA+ Sbjct: 28 VIQKNWQELIKPNKLQ-VTAGDDPKRVATVVAEPLERGFGTTLGNSLRRVLLSSLQGAAV 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 EAAPL-APQLPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSEGEMLRTPNFGR 325 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++P WPPE+IE+LAK++E+ Sbjct: 326 KSLNEIKEVLAGMGLHLGMDVPGWPPENIEDLAKRFEE 363 >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 = 440 bits (1131), Expect = e-121, Method: Compositional matrix adjust. Identities = 217/339 (64%), Positives = 273/339 (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 E+ + L FN ALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TE++MLR NFGR Sbjct: 259 HVEE-SRPELEFNAALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 317 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P+WPPE+IEELAK+YED+ Sbjct: 318 KSLNEIKEVLAQMGLHLGMEVPNWPPENIEELAKRYEDQ 356 >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 = 440 bits (1131), Expect = e-121, Method: Compositional matrix adjust. Identities = 211/338 (62%), Positives = 273/338 (80%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN ++ + G + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 2 VIQKNWQELIKPNKLQ-VTTGDDPKRVATVVAEPLERGFGTTLGNALRRVLLSSLQGAAV 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 EAAPL-APQLPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSEGEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++P WPPE+IE+LAK++E+ Sbjct: 300 KSLNEIKEVLAGMGLHLGMDIPGWPPENIEDLAKRFEE 337 >gi|23010819|ref|ZP_00051380.1| COG0202: DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Magnetospirillum magnetotacticum MS-1] Length = 339 Score = 440 bits (1131), Expect = e-121, Method: Compositional matrix adjust. Identities = 212/338 (62%), Positives = 271/338 (80%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN ++ + G + + ++AEPL RGF TLGN+LRRVL+SSL+GAA+ Sbjct: 2 VIQKNWQELIKPNKLQ-VTAGDDPKRVATVVAEPLERGFGTTLGNSLRRVLLSSLQGAAV 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 EAAPL-APQLPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSEGEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++P WPPE+IE+LAK++E+ Sbjct: 300 KSLNEIKEVLAGMGLHLGMDVPGWPPENIEDLAKRFEE 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 = 439 bits (1130), Expect = e-121, Method: Compositional matrix adjust. Identities = 212/338 (62%), Positives = 271/338 (80%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN ++ + G + + ++AEPL RGF TLGN+LRRVL+SSL+GAA+ Sbjct: 2 VIQKNWQELIKPNKLQ-VTAGDDPKRVATVVAEPLERGFGTTLGNSLRRVLLSSLQGAAV 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 EAAPL-APQLPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSEGEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++P WPPE+IE+LAK++E+ Sbjct: 300 KSLNEIKEVLAGMGLHLGMDVPGWPPENIEDLAKRFEE 337 >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 = 438 bits (1126), Expect = e-121, Method: Compositional matrix adjust. 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|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 = 438 bits (1126), Expect = e-121, Method: Compositional matrix adjust. Identities = 211/338 (62%), Positives = 270/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP ++ + G + + +IAEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 1 MIQKNWQELIKPEKLQ-VNPGHDPKRFATVIAEPLERGFGMTLGNALRRILLSSLQGAAV 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 E +++LPF+PALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ++E +MLR NFGR Sbjct: 240 -SETTAIQTLPFSPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSETEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL ++GL LGM +P WPPE+IEELAK++E+ Sbjct: 299 KSLNEIKEVLASLGLHLGMEVPGWPPENIEELAKRFEE 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 = 437 bits (1125), Expect = e-121, Method: Compositional matrix adjust. Identities = 211/338 (62%), Positives = 271/338 (80%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN ++ + G + + ++AEPL RGF TLGN+LRRVL+SSL+GAA+ Sbjct: 2 VIQKNWQELIKPNKLQ-VTAGDDPKRVATVVAEPLERGFGTTLGNSLRRVLLSSLQGAAV 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 EAAPL-APQLPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSEGEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++P WPPE+IE+LAK++E+ Sbjct: 300 KSLNEIKEVLAGMGLHLGMDVPGWPPENIEDLAKRFEE 337 >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 = 437 bits (1125), Expect = e-121, Method: Compositional matrix adjust. 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 VIQKNWQELIKPNKLQ-VSAGDDPKRVATVVAEPLERGFGTTLGNSLRRVLLSSLQGAAV 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 EAAPL-APQLPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSEGEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++P WPPE+IE+LAK++E+ Sbjct: 300 KSLNEIKEVLAGMGLHLGMDVPGWPPENIEDLAKRFEE 337 >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 = 437 bits (1123), Expect = e-120, Method: Compositional matrix adjust. Identities = 214/339 (63%), Positives = 270/339 (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 KKVSYKVENTREGQILDYDKLTMVVETDGSVRPEDAVALAARILQDQLAVFINFEEPKK- 240 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +E+ L FN ALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 241 AQEEQRHPELAFNAALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 300 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL TMGL LGM +P+WPP++I+ELAK++ED+ Sbjct: 301 KSLNEIKEVLATMGLHLGMEVPNWPPDNIDELAKRFEDQ 339 >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 = 436 bits (1122), Expect = e-120, Method: Compositional matrix adjust. Identities = 212/337 (62%), Positives = 270/337 (80%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELIKP+ +E + G + + +AEPL RGF TLGNALRR+L+SSL+G+AIT Sbjct: 3 IQKNWQELIKPSKLE-VTAGDDPRRVAVAVAEPLERGFGVTLGNALRRILLSSLQGSAIT 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|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 = 436 bits (1122), Expect = e-120, Method: Compositional matrix adjust. 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|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 = 436 bits (1120), Expect = e-120, Method: Compositional matrix adjust. Identities = 207/339 (61%), Positives = 276/339 (81%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M++KNWQELIKP +E +V + + + ++A+PL RGF TLGN+LRR+LMSSL+GAA+ Sbjct: 1 MLEKNWQELIKPQKLE-VVSSYDPQRKATIVAQPLERGFGLTLGNSLRRILMSSLQGAAV 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 DQGGAD-EELLFNAALLRKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL T+GL LGM++PDWPP++IEELA+K+ED+ Sbjct: 299 KSLNEIKEVLATLGLHLGMDVPDWPPDNIEELARKFEDQ 337 >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 = 436 bits (1120), Expect = e-120, Method: Compositional matrix adjust. Identities = 209/339 (61%), Positives = 269/339 (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 ++ LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 TADEAK-PELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++P+WPPE+IE+LAKK+ED+ Sbjct: 299 KSLNEIKEVLAGMGLHLGMDVPNWPPENIEDLAKKFEDQ 337 >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 = 435 bits (1118), Expect = e-120, Method: Compositional matrix adjust. Identities = 215/338 (63%), Positives = 269/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ + G + + ++AEPL RGF T+GNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPQQLD-VKPGNDPARQATVVAEPLERGFGLTMGNALRRVLMSSLQGAAI 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|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 = 434 bits (1117), Expect = e-120, Method: Compositional matrix adjust. Identities = 214/338 (63%), Positives = 270/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ + G + + +IAEPL RGF T+GNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPQQLD-VKPGNDPARQATVIAEPLERGFGLTMGNALRRVLMSSLQGAAI 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|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 = 434 bits (1117), Expect = e-120, Method: Compositional matrix adjust. 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|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 = 434 bits (1117), Expect = e-120, Method: Compositional matrix adjust. Identities = 212/338 (62%), Positives = 270/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP+ ++ + G + + +IAEPL RGF TLGNALRR+L+SSL+GAAI Sbjct: 1 MIQKNWQELIKPSKLD-VTPGDDSKRFATIIAEPLERGFGLTLGNALRRILLSSLQGAAI 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|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 = 434 bits (1115), Expect = e-119, Method: Compositional matrix adjust. Identities = 216/338 (63%), Positives = 269/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ + G + + ++AEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPQQLD-VKPGNDPARQATVMAEPLERGFGLTLGNALRRVLMSSLQGAAI 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|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 = 433 bits (1113), Expect = e-119, Method: Compositional matrix adjust. 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|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 = 432 bits (1112), Expect = e-119, Method: Compositional matrix adjust. Identities = 214/338 (63%), Positives = 269/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ + G + + + AEPL RGF T+GNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPQQLD-VKPGNDPARQATVTAEPLERGFGLTMGNALRRVLMSSLQGAAI 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|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 = 432 bits (1112), Expect = e-119, Method: Compositional matrix adjust. 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|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 = 432 bits (1111), Expect = e-119, Method: Compositional matrix adjust. 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|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 = 432 bits (1111), Expect = e-119, Method: Compositional matrix adjust. 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|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 = 431 bits (1109), Expect = e-119, Method: Compositional matrix adjust. Identities = 213/338 (63%), Positives = 269/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ + G + + + AEPL RGF T+GNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPQQLD-VKPGNDPARQATVTAEPLERGFGLTMGNALRRVLMSSLQGAAI 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 = 431 bits (1109), Expect = e-119, Method: Compositional matrix adjust. Identities = 213/338 (63%), Positives = 269/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ + G + + + AEPL RGF T+GNALRRVLMSSL+GAAI Sbjct: 5 MIHKNWAELIKPQQLD-VKPGNDPARQATVTAEPLERGFGLTMGNALRRVLMSSLQGAAI 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|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 = 429 bits (1103), Expect = e-118, Method: Compositional matrix adjust. 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|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 = 429 bits (1103), Expect = e-118, Method: Compositional matrix adjust. Identities = 215/338 (63%), Positives = 267/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E + G + + ++AEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPAQLE-VKPGNDPARQATVVAEPLERGFGLTLGNALRRVLMSSLQGAAI 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|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 = 429 bits (1102), Expect = e-118, Method: Compositional matrix adjust. Identities = 213/338 (63%), Positives = 268/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ + G + + ++IAEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLD-VKPGNDPLRQAVLIAEPLERGFGLTLGNALRRVLLSSLQGAAI 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|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 = 429 bits (1102), Expect = e-118, Method: Compositional matrix adjust. Identities = 213/338 (63%), Positives = 268/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E + G + + ++IAEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLE-VKPGNDPLRQAVLIAEPLERGFGLTLGNALRRVLLSSLQGAAI 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|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 = 428 bits (1101), Expect = e-118, Method: Compositional matrix adjust. Identities = 210/339 (61%), Positives = 264/339 (77%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI++NWQ+LI+P + I GQ+ + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIERNWQQLIRPEKPQ-IESGQDSQRKMRLVAEPLERGFGVTLGNALRRVLLSSLQGAAV 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 + E+ LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TE++MLR NFGR Sbjct: 240 IVEE-GKPELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM++P+WPPE++E+LAKK+ED+ Sbjct: 299 KSLNEIKEVLQSMGLSLGMDVPNWPPENVEDLAKKFEDQ 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 = 428 bits (1101), Expect = e-118, Method: Compositional matrix adjust. 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: 1 MIHKNWAELIKPTQLD-VKPGNDPARQATVVAEPLERGFGLTLGNALRRVLMSSLQGAAI 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|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 = 428 bits (1101), Expect = e-118, Method: Compositional matrix adjust. Identities = 212/339 (62%), Positives = 269/339 (79%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ + G + + ++AEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLD-VKPGFDPSRQATVVAEPLERGFGLTLGNALRRVLMSSLQGAAI 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|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 = 428 bits (1100), Expect = e-118, Method: Compositional matrix adjust. Identities = 207/339 (61%), Positives = 266/339 (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 VEGEAK-PELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++P+WPPE+IEELAKK+ED+ Sbjct: 299 KSLNEIKEVLAGMGLHLGMDVPNWPPENIEELAKKFEDQ 337 >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 = 428 bits (1100), Expect = e-118, Method: Compositional matrix adjust. 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|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 = 428 bits (1100), Expect = e-118, Method: Compositional matrix adjust. Identities = 213/338 (63%), Positives = 267/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E + G + + ++AEPL RGF TLGNALRR+LMSSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLE-VKPGNDPARQATLVAEPLERGFGLTLGNALRRILMSSLQGAAI 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|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 = 427 bits (1099), Expect = e-118, Method: Compositional matrix adjust. Identities = 205/338 (60%), Positives = 267/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++ KNWQ+LIKP I +V G + ++AEPL RGF TLGNALRRVL+SSL+G A+ Sbjct: 9 VLNKNWQDLIKPGKIN-VVPGANPKYVASIVAEPLERGFGLTLGNALRRVLLSSLQGGAV 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 VAEE-RIPQLEFNAALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 306 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM +P+WPPE+IEELAK++ED Sbjct: 307 KSLNEIKEVLAGMGLHLGMEVPNWPPENIEELAKRFED 344 >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 = 427 bits (1099), Expect = e-118, Method: Compositional matrix adjust. 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 QRQD-EEDDLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ DWPPE+IEELAKK+ED+ Sbjct: 299 KSLNEIKEVLTVMGLHLGMDIVDWPPENIEELAKKFEDQ 337 >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 = 427 bits (1099), Expect = e-118, Method: Compositional matrix adjust. Identities = 206/339 (60%), Positives = 267/339 (78%), Gaps = 1/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI++NWQELI+P + + G + +++ +IAEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIERNWQELIRPEKPQ-VEGGSDPQHKARLIAEPLERGFGVTLGNALRRVLLSSLQGAAV 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|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 = 427 bits (1099), Expect = e-118, Method: Compositional matrix adjust. 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 MIHKNWAELIKPTQLEAKP-GNDPARQATIIAEPLERGFGLTLGNALRRVLMSSLQGAAI 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|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 = 427 bits (1098), Expect = e-117, Method: Compositional matrix adjust. Identities = 212/338 (62%), Positives = 268/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ + G + + ++AEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 5 MIHKNWAELIKPTQLD-VKPGNDAGRQATVVAEPLERGFGLTLGNALRRVLMSSLQGAAI 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|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 = 427 bits (1098), Expect = e-117, Method: Compositional matrix adjust. 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 MIHKNWAELIKPTQLE-VKPGNDPARQATLVAEPLERGFGLTLGNALRRILMSSLQGAAI 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|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 = 427 bits (1098), Expect = e-117, Method: Compositional matrix adjust. 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 MIHKNWAELIKPTQLDGKP-GNDPARQATLVAEPLERGFGLTLGNALRRVLMSSLQGAAI 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|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 = 426 bits (1095), Expect = e-117, Method: Compositional matrix adjust. Identities = 213/338 (63%), Positives = 266/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E + G + + +IAEPL RGF TLGNALRR+LMSSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLE-VKPGNDPARQATVIAEPLERGFGLTLGNALRRILMSSLQGAAI 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|163796895|ref|ZP_02190852.1| lipoyltransferase [alpha proteobacterium BAL199] gi|159177884|gb|EDP62433.1| lipoyltransferase [alpha proteobacterium BAL199] Length = 338 Score = 426 bits (1095), Expect = e-117, Method: Compositional matrix adjust. Identities = 206/338 (60%), Positives = 264/338 (78%), 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 AEAE-EAHDLPFNKNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKTEPEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL +MGL LGM + +WPPE+IEELAK+ E+ Sbjct: 299 KSLNEIKEVLASMGLSLGMEITNWPPENIEELAKRLEE 336 >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 = 426 bits (1094), Expect = e-117, Method: Compositional matrix adjust. Identities = 213/338 (63%), Positives = 267/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ + G + + ++AEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLD-VKPGNDPARQATVVAEPLERGFGLTLGNALRRVLMSSLQGAAI 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|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 = 426 bits (1094), Expect = e-117, Method: Compositional matrix adjust. 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 MIHKNWAELIKPTQLEAKP-GNDPARQATIIAEPLERGFGLTLGNALRRVLMSSLQGAAI 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|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 = 426 bits (1094), Expect = e-117, Method: Compositional matrix adjust. Identities = 209/339 (61%), Positives = 268/339 (79%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E + G + ++AEPL RGF T+GNALRR+L+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLE-VRPGADPSRVATVVAEPLERGFGLTMGNALRRILLSSLQGAAI 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|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 = 425 bits (1092), Expect = e-117, Method: Compositional matrix adjust. Identities = 212/339 (62%), Positives = 268/339 (79%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ + G + + +IAEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLD-VKPGNDPMRQATVIAEPLERGFGLTLGNALRRVLLSSLQGAAI 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 GRESED-EGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED+ Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFEDQ 337 >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 = 424 bits (1091), Expect = e-117, Method: Compositional matrix adjust. 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|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 = 424 bits (1091), Expect = e-117, Method: Compositional matrix adjust. Identities = 210/339 (61%), Positives = 265/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI +NW ELIKP ++ + G + + ++AEPL RGF TLGNALRR+L+SSL+GAAI Sbjct: 1 MIHRNWSELIKPTQLD-VRPGADAARQATIVAEPLERGFGLTLGNALRRILLSSLQGAAI 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|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 = 424 bits (1091), Expect = e-117, Method: Compositional matrix adjust. Identities = 209/339 (61%), Positives = 268/339 (79%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ + G + + +IAEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLD-VKPGNDPSRQATVIAEPLERGFGLTLGNALRRVLMSSLQGAAI 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|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 = 424 bits (1091), Expect = e-117, Method: Compositional matrix adjust. Identities = 208/339 (61%), Positives = 266/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E + G + + +IAEPL RGF TLGNALRR+LMSSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLE-VKPGNDPARQATVIAEPLERGFGLTLGNALRRILMSSLQGAAI 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|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 = 424 bits (1091), Expect = e-117, Method: Compositional matrix adjust. Identities = 209/339 (61%), Positives = 265/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E + G + + +IAEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLE-VKPGNDPMRQATVIAEPLERGFGLTLGNALRRVLLSSLQGAAI 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|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 = 424 bits (1090), Expect = e-117, Method: Compositional matrix adjust. Identities = 208/338 (61%), Positives = 265/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ + G + + +IAEPL RGF TLGNALRR+LMSSL+GAAI Sbjct: 5 MIHKNWAELIKPTQLD-VQPGNDPSRQATVIAEPLERGFGLTLGNALRRILMSSLQGAAI 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|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 = 424 bits (1090), Expect = e-116, Method: Compositional matrix adjust. Identities = 209/341 (61%), Positives = 269/341 (78%), Gaps = 6/341 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ + G + + ++AEPL RGF T+GNALRRVLMSSL+GAAI Sbjct: 5 MIHKNWAELIKPTQLD-VKPGNDPSRQATVVAEPLERGFGLTMGNALRRVLMSSLQGAAI 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 KKVSYDVQPTREGQVLDYDKLTMKVETDGSITPDDAVAFAARILQDQLSIFVNFDEPESA 243 Query: 241 --VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +ED L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NF Sbjct: 244 STAQED---DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNF 300 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 GRKSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED+ Sbjct: 301 GRKSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFEDQ 341 >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 = 424 bits (1089), Expect = e-116, Method: Compositional matrix adjust. Identities = 209/338 (61%), Positives = 266/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNWQELIKPN ++ + G + + +IAEPL RGF T+GNALRR+LMSSL+GAAI Sbjct: 1 MIHKNWQELIKPNQLK-VQPGNDPSRQATVIAEPLERGFGLTMGNALRRILMSSLQGAAI 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 SRAD-EEDELEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK +D Sbjct: 299 KSLNEIKEVLSGMGLHLGMDIVDWPPDNIEDLAKKLDD 336 >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 = 423 bits (1088), Expect = e-116, Method: Compositional matrix adjust. Identities = 214/342 (62%), Positives = 266/342 (77%), Gaps = 8/342 (2%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNWQELIKP +E + G E + ++AEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 6 MIHKNWQELIKPTQLE-VKPGNEPARQATVVAEPLERGFGLTLGNALRRVLMSSLQGAAI 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 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP--- 237 KKVSY V+ REGQVLDYDKL++ ++TDGS+T +D+VA A+RILQDQL +F+NF+EP Sbjct: 185 KKVSYDVQPTREGQVLDYDKLTLKLETDGSVTPDDAVAYAARILQDQLSVFVNFDEPEAA 244 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + + +ED L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR N Sbjct: 245 RSQSEED----DLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPN 300 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 FGRKSL EIK VL MGL LGM++ DWPPE+IE+LAKK+ED+ Sbjct: 301 FGRKSLNEIKEVLSGMGLHLGMDILDWPPENIEDLAKKFEDQ 342 >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 = 423 bits (1087), Expect = e-116, Method: Compositional matrix adjust. Identities = 209/339 (61%), Positives = 266/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E + G + ++AEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLE-VRPGADPSRVATVVAEPLERGFGLTLGNALRRVLLSSLQGAAI 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|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 = 422 bits (1086), Expect = e-116, Method: Compositional matrix adjust. Identities = 207/338 (61%), Positives = 267/338 (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 VEEE-KKDELPFNKNLLRKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM + +WPPE+IEELAKK E+ Sbjct: 299 KSLNEIKEVLAQMGLHLGMEIANWPPENIEELAKKLEE 336 >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 = 422 bits (1086), Expect = e-116, Method: Compositional matrix adjust. 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 MIHKNWAELIKPTQLDGKP-GNDPARQATIVAEPLERGFGLTLGNALRRVLMSSLQGAAI 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|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 = 422 bits (1086), Expect = e-116, Method: Compositional matrix adjust. Identities = 208/338 (61%), Positives = 267/338 (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 VSEEKH-EEVPFNKNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM +P+WPPE+IEELAK+ E+ Sbjct: 299 KSLNEIKEVLSQMGLHLGMEIPNWPPENIEELAKRLEE 336 >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 = 422 bits (1085), Expect = e-116, Method: Compositional matrix adjust. 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|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 = 422 bits (1084), Expect = e-116, Method: Compositional matrix adjust. Identities = 208/338 (61%), Positives = 264/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQEL KPN +E ++ G + + ++A PL GF TLGN+LRR+L+SSL+GAAI Sbjct: 1 MIQKNWQELTKPNKLE-VISGDDPKRFATIVAGPLELGFGLTLGNSLRRILLSSLQGAAI 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|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 = 422 bits (1084), Expect = e-116, Method: Compositional matrix adjust. Identities = 208/338 (61%), Positives = 266/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ + G + + ++AEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLD-VKPGNDPLRQATVVAEPLERGFGLTLGNALRRVLLSSLQGAAI 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|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 = 419 bits (1078), Expect = e-115, Method: Compositional matrix adjust. Identities = 206/339 (60%), Positives = 264/339 (77%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ + G + + M+AEPL RGF TLGNALRR+LMSSL+GAAI Sbjct: 1 MIHKNWAELIKPMQLD-VKPGNDPMRQATMVAEPLERGFGLTLGNALRRILMSSLQGAAI 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|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 = 419 bits (1078), Expect = e-115, Method: Compositional matrix adjust. Identities = 206/339 (60%), Positives = 259/339 (76%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI++NWQ+LI+P + + G + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIERNWQQLIRPEKPQ-VEAGTDASRKMRLVAEPLERGFGVTLGNALRRVLLSSLQGAAV 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 E+ LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLI +TE++MLR NFGR Sbjct: 240 VVEE-GKPELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLILKTESEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +M L LGM++P+WPPE++E+LAKK+ED+ Sbjct: 299 KSLNEIKEVLASMNLSLGMDIPNWPPENVEDLAKKFEDQ 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 = 418 bits (1075), Expect = e-115, Method: Compositional matrix adjust. Identities = 207/338 (61%), Positives = 264/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN + ++G ++ T+ +AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 VIQKNWQELIKPNKLMIELVGGSKKVATV-VAEPLERGFGLTLGNALRRVLLSSLQGAAV 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 TKVSYRVENSRVGQVTDYDKLSMVVETDGSVGPEDAVALAARILQDQLQLFINFEEPQA- 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|144900908|emb|CAM77772.1| DNA-directed RNA polymerase alpha chain (RNAP alpha subunit) [Magnetospirillum gryphiswaldense MSR-1] Length = 338 Score = 417 bits (1073), Expect = e-115, Method: Compositional matrix adjust. Identities = 204/338 (60%), Positives = 265/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP+ ++ + G + +IAEPL RGF TLGN+LRR+L+SSL+GAA+ Sbjct: 1 MIQKNWQELIKPSKLQ-VEPGADAARVATVIAEPLERGFGMTLGNSLRRILLSSLQGAAV 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 VEEE-KKDELPFNKNLLRKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM +P+WPPE+IE+LAKK E+ Sbjct: 299 KSLNEIKEVLSHMGLHLGMEIPNWPPENIEDLAKKLEE 336 >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 = 416 bits (1070), Expect = e-114, Method: Compositional matrix adjust. Identities = 205/338 (60%), 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 VLQKNWQSLIKPEKLE-VEPGAEPSRTATVVAEPLERGFGMTLGNAIRRVLLSSLQGAAV 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 RRVSYKVEQTRVGQVTDYDRLLLTVETNGAVTPEDSVALAARILQDQLQLFINFDEPRA- 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|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 = 415 bits (1066), Expect = e-114, Method: Compositional matrix adjust. Identities = 202/337 (59%), Positives = 262/337 (77%), Gaps = 6/337 (1%) Query: 4 KNWQELIKPNN--IEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 KNW+ELI+P+ +E+ + + +I EPL RGF TLG++LRR+L+SSL+GAAIT Sbjct: 9 KNWKELIRPSRPVVEHDF---DAGRKASLIVEPLERGFGTTLGSSLRRILLSSLQGAAIT 65 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 VQIDGV+HE SSI GV ED+TDI+LN+K + + M ++ KR+T+ GPGVVTAG I+ Sbjct: 66 GVQIDGVVHEFSSIPGVREDVTDIVLNLKRVAISMVSETSKRMTLSASGPGVVTAGQIEL 125 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 D+E+LNPDHVIC LD A +RME TV+ G GYVPA +R ++ P+G I +DA++SP++ Sbjct: 126 PGDMEILNPDHVICTLDDGANIRMEFTVASGKGYVPADRNRPDDAPLGFIPVDAIFSPVE 185 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +V + V+ REGQVLDYDKL++T++TDGS+T ED+VA A+RILQDQL + INF+EP E Sbjct: 186 RVGFKVDDTREGQVLDYDKLTLTVETDGSVTPEDAVAYAARILQDQLQLLINFDEPVVE- 244 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +E L FNP LLKKV+ELELSVRS NCLR +NIVY+GDLIQ++EA+MLR NFGRK Sbjct: 245 QEAEQEPDLGFNPVLLKKVDELELSVRSANCLRNDNIVYIGDLIQKSEAEMLRTPNFGRK 304 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL TMGL LGM++P WPPE+IE+LAKKYED Sbjct: 305 SLNEIKEVLATMGLHLGMDVPSWPPENIEDLAKKYED 341 >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 = 414 bits (1063), Expect = e-113, Method: Compositional matrix adjust. Identities = 203/338 (60%), 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 VLQKNWQSLIKPEKLE-VEPGAEPSRIATVVAEPLERGFGMTLGNAIRRVLLSSLQGAAV 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 RRVSYKVEQTRVGQVTDYDRLLLTVETNGAVTPEDAVALAARILQDQLQLFINFDEPRT- 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|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 = 414 bits (1063), Expect = e-113, Method: Compositional matrix adjust. Identities = 203/338 (60%), Positives = 261/338 (77%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQ+NWQ LIKP ++ + G E ++AEPL RGF TLGNA+RR+L+SSL+GAA+ Sbjct: 2 VIQRNWQSLIKPEKLD-VEPGNEPSRIATIVAEPLERGFGMTLGNAIRRILLSSLQGAAV 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|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 = 412 bits (1058), Expect = e-113, Method: Compositional matrix adjust. Identities = 202/338 (59%), Positives = 261/338 (77%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++QKNWQ LIKP +E + G E ++AEPL RGF TLGNA+RRVL+SSL+GAA+ Sbjct: 2 VLQKNWQSLIKPEKLE-VEPGGEPLRTATVVAEPLERGFGMTLGNAIRRVLLSSLQGAAV 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|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 = 411 bits (1056), Expect = e-113, Method: Compositional matrix adjust. 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|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 (1055), Expect = e-112, Method: Compositional matrix adjust. Identities = 205/337 (60%), Positives = 259/337 (76%), 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 RVSYRVEPTRVGQVTDYDRLILNIETNGAVTPEDAVALAARILQDQLGMFINFEEPQRLR 247 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ LPFNP LL+KV+ELELSVRS NCL+ +NIVY+GDL+Q++E +MLR NFGRK Sbjct: 248 AEEPR-PELPFNPNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKSEQEMLRTPNFGRK 306 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM + DWPPE+IEEL K+ ++ Sbjct: 307 SLNEIKEVLSAMGLGLGMVVQDWPPENIEELVKRSDN 343 >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 = 409 bits (1052), Expect = e-112, Method: Compositional matrix adjust. Identities = 203/338 (60%), Positives = 260/338 (76%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++QKNWQ LIKP +E + G E ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 2 VLQKNWQSLIKPEKLE-VESGVEPARIATVVAEPLERGFGMTLGNALRRVLLSSLQGAAV 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 KRVSYKVEPTRVGQVTDYDKLLLTVETNGAVTPEDAVALAARILQDQLQLFINFDEPRP- 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V+ + LPFN LL+KV+ELELSVRS NCL+ +NI+Y+GDL+Q++E +MLR NFGR Sbjct: 240 VQAEEPEDDLPFNRNLLRKVDELELSVRSANCLKNDNIIYIGDLVQKSEQEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL +MGL LGMN+P WPPE+IEELAK+ ++ Sbjct: 300 KSLNEIKEVLTSMGLSLGMNVPAWPPENIEELAKRLDE 337 >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 = 409 bits (1051), Expect = e-112, Method: Compositional matrix adjust. Identities = 204/337 (60%), Positives = 259/337 (76%), 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 RVSYRVEPTRVGQVTDYDRLILNIETNGAVTPEDAVALAARILQDQLGMFINFEEPQRLR 241 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ LPFNP LL+KV+ELELSVRS NCL+ +NIVY+GDL+Q++E +MLR NFGRK Sbjct: 242 AEEPR-PELPFNPNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKSEQEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM + DWPPE+IEEL K+ ++ Sbjct: 301 SLNEIKEVLSAMGLGLGMVVQDWPPENIEELVKRSDN 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 = 408 bits (1049), Expect = e-112, Method: Compositional matrix adjust. 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 RNWKVLIRPNR-PVVQAGYDAKRKAKLVVEPLERGYGTTLGNALRRVLLSSLQGAAIIGV 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|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 = 408 bits (1049), Expect = e-112, Method: Compositional matrix adjust. Identities = 195/338 (57%), Positives = 260/338 (76%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M+++NW+ LI+P ++ + G + +++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MLERNWRSLIRPEKLD-VEPGADPSRVAVVVAEPLERGFGMTLGNALRRVLLSSLQGAAV 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++ Sbjct: 180 RRVAYQVQPTRVGQRTDYDKLVLTVETDGTVAPEDAVALAARILQDQLQLFINFDEPRER 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E++ LPFN LL+KV+ELELSVRS NCL+ +NIVY+GDL+Q+TE +MLR NFGR Sbjct: 240 KVEEVQ-DDLPFNRNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKTEQEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL +MGL LGM +P WPPE+IE+LAKK E+ Sbjct: 299 KSLNEIKEVLASMGLSLGMTVPGWPPENIEDLAKKIEE 336 >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 = 407 bits (1046), Expect = e-111, Method: Compositional matrix adjust. Identities = 202/338 (59%), Positives = 259/338 (76%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++QKNWQ LIKP +E + G E ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 2 VLQKNWQSLIKPEKLE-VESGVEPARIATVVAEPLERGFGMTLGNALRRVLLSSLQGAAV 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 KRVSYKVEPTRVGQVTDYDKLLLTVETNGAVTPEDAVALAARILQDQLQLFINFDEPRP- 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V+ + PFN LL+KV+ELELSVRS NCL+ +NI+Y+GDL+Q++E +MLR NFGR Sbjct: 240 VQAEEPEDDQPFNRNLLRKVDELELSVRSANCLKNDNIIYIGDLVQKSEQEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL +MGL LGMN+P WPPE+IEELAK+ ++ Sbjct: 300 KSLNEIKEVLTSMGLSLGMNVPAWPPENIEELAKRLDE 337 >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 = 407 bits (1045), Expect = e-111, Method: Compositional matrix adjust. Identities = 197/318 (61%), Positives = 252/318 (79%), Gaps = 1/318 (0%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 G + + ++AEPL RGF TLGNALRR+LMSSL+GAAITAVQID VLHE SSI GV E Sbjct: 4 GNDPSRQATVVAEPLERGFGLTLGNALRRILMSSLQGAAITAVQIDNVLHEFSSISGVRE 63 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 D+TD++LN+KG+ ++M + KR+ + +GPGVVTAGDI IE+LN DHV+C+LD Sbjct: 64 DVTDVVLNLKGVAIRMEVEGPKRLQVQAKGPGVVTAGDISESAGIEILNKDHVLCHLDEG 123 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 A + MELTV+ G GYV A+ ++ E+ PIG++ IDA+YSP+KKVSY V+ REGQVLDYDK Sbjct: 124 AELYMELTVNTGKGYVAAEKNKPEDAPIGMMAIDAIYSPVKKVSYDVQPTREGQVLDYDK 183 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L+M ++TDGSIT +D+VA A+RILQDQL +F+NF+EP+ + + L FNP LLKKV Sbjct: 184 LTMKVETDGSITPDDAVAFAARILQDQLSIFVNFDEPESAQAANDD-DGLEFNPLLLKKV 242 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 +ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGRKSL EIK VL MGL LGM+ Sbjct: 243 DELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGRKSLNEIKEVLSGMGLHLGMD 302 Query: 321 LPDWPPESIEELAKKYED 338 + DWPP++IE+LAKK+ED Sbjct: 303 VEDWPPDNIEDLAKKFED 320 >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 = 402 bits (1033), Expect = e-110, Method: Compositional matrix adjust. Identities = 197/338 (58%), Positives = 259/338 (76%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++QKNWQ LIKP +E + G ++AEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 2 VLQKNWQSLIKPEKLE-VEPGPVASRIATVVAEPLERGFGMTLGNALRRILLSSLQGAAV 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|296282607|ref|ZP_06860605.1| DNA-directed RNA polymerase subunit alpha [Citromicrobium bathyomarinum JL354] Length = 352 Score = 399 bits (1026), Expect = e-109, Method: Compositional matrix adjust. Identities = 200/342 (58%), Positives = 254/342 (74%), Gaps = 8/342 (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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE--PKKE- 240 SY VE+AR GQ LDYDKL++TI+TDG++T ED+VA A+RILQDQL +F++FE+ P+ 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 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 NFGRKSL EIK VL +MGL LGM++P WPPE+IEE+AKK E Sbjct: 306 PNFGRKSLNEIKEVLSSMGLRLGMDIPGWPPENIEEMAKKLE 347 >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 = 398 bits (1022), Expect = e-109, Method: Compositional matrix adjust. Identities = 189/340 (55%), Positives = 262/340 (77%), Gaps = 5/340 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI+KNW+EL+KP+ ++ V ++++ + EPL +GFA TLGNALRR+L+SS++G A+ Sbjct: 1 MIEKNWKELVKPSKLD--VQTNDDKSYAKITIEPLEKGFALTLGNALRRILLSSIQGTAV 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 VKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V + KS P FN LL++V+ELELSVRS NCL+ +NI+Y+GDL+Q+TE +MLR NFG Sbjct: 239 VAQ--QTKSEPEFNKNLLRRVDELELSVRSMNCLKNDNIIYIGDLVQKTEGEMLRTPNFG 296 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 RKSL EIK VL M L+LG+ +P+WPPE+I EL+KK E++ Sbjct: 297 RKSLNEIKEVLSGMSLYLGIEIPNWPPENIAELSKKLEEE 336 >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 = 396 bits (1017), Expect = e-108, Method: Compositional matrix adjust. Identities = 201/345 (58%), Positives = 258/345 (74%), Gaps = 15/345 (4%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN +E I G +++ +T +AEPL RGF TLGNALRRVL+SSL+GAAIT++ Sbjct: 6 KNWQELKKPNALE-IKEGGDKQRKTTFVAEPLERGFGLTLGNALRRVLLSSLQGAAITSI 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKK 239 SY VE+AR GQ LDYDKLS+TI+TDG++T ED+VA A+RILQDQL +F++FE +P+ Sbjct: 185 SYKVENARVGQELDYDKLSLTIETDGTVTPEDAVAYAARILQDQLTLFVHFEDGIPQPQS 244 Query: 240 EVKEDINVKSLP-------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + I + P N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+M Sbjct: 245 AM---IGQAATPQEDDANQLNRYLLKKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEM 301 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 LR NFGRKSL EIK VL +MGL LGM++P WPPE+IEE+AKK E Sbjct: 302 LRTPNFGRKSLNEIKEVLSSMGLRLGMDIPGWPPENIEEMAKKLE 346 >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 = 395 bits (1016), Expect = e-108, Method: Compositional matrix adjust. Identities = 201/347 (57%), Positives = 258/347 (74%), Gaps = 13/347 (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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VE+AR GQ LDYDKL++T++TDG++T ED+VA A+RILQDQL +F++F++ + V Sbjct: 185 SYKVENARIGQELDYDKLNLTVETDGTVTPEDAVAYAARILQDQLALFVHFDD-QVPVGH 243 Query: 244 DINVKSLP-----------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 V +P N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+M Sbjct: 244 VPMVAGVPAHAPEESDANQLNRYLLKKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEM 303 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 LR NFGRKSL EIK VL +MGL LGM++P WPPE+IEE+AKK E + Sbjct: 304 LRTPNFGRKSLNEIKEVLSSMGLRLGMDIPGWPPENIEEMAKKLEQE 350 >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 = 394 bits (1013), Expect = e-108, Method: Compositional matrix adjust. Identities = 200/349 (57%), Positives = 255/349 (73%), Gaps = 20/349 (5%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN++E G + T +AEPL RGF TLGNALRRVL+SSL+GAA+T++ Sbjct: 2 KNWQELKKPNSLEIKASGDGKRKATF-VAEPLERGFGLTLGNALRRVLLSSLQGAAVTSI 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP------ 237 +Y V++ R GQ LDYDKLS+T++TDG++T ED+VA A+RILQDQL +F++FE+ Sbjct: 181 AYKVDNTRVGQELDYDKLSLTLETDGTVTPEDAVAYAARILQDQLQLFVHFEDALPAAAP 240 Query: 238 ---------KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 E + D N N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+Q+T Sbjct: 241 ATGHAAGAAASEGESDAN----QINRYLLKKVDELELSVRSANCLKNDNIIYIGDLVQKT 296 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 EA+MLR NFGRKSL EIK VL +MGL LGM++P WPPE+IEE+AKK E Sbjct: 297 EAEMLRTPNFGRKSLNEIKEVLSSMGLRLGMDIPGWPPENIEEMAKKLE 345 >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 = 394 bits (1012), Expect = e-107, Method: Compositional matrix adjust. Identities = 190/338 (56%), Positives = 260/338 (76%), Gaps = 7/338 (2%) 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP-KKEVK 242 SY++ +AREG+ LDYDKL M ++T+GSI+ ED+VA ++RI QDQL MF+NF+EP + VK Sbjct: 187 SYSISTAREGKALDYDKLIMEVETNGSISAEDAVAYSARIFQDQLNMFVNFDEPVEVPVK 246 Query: 243 EDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E V S P FN LL+KV+ELELSVRS NCL+ +NI+Y+GDL+Q++E +MLR NFGRK Sbjct: 247 E---VSSEPEFNKNLLRKVDELELSVRSMNCLKNDNIIYIGDLVQKSEGEMLRTPNFGRK 303 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 SL EIK VL M L+LGM +P+WPPE+I E++KK E++ Sbjct: 304 SLNEIKEVLTGMSLYLGMEIPNWPPENIAEMSKKLEEQ 341 >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 = 394 bits (1011), Expect = e-107, Method: Compositional matrix adjust. Identities = 190/340 (55%), Positives = 260/340 (76%), Gaps = 5/340 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW+ELIKP+ I+ + E++ ++ EPL RGFA TLGNALRRVL+SS++G A+ Sbjct: 1 MIDKNWKELIKPSKID--IQASEDKKFAKIVVEPLERGFALTLGNALRRVLLSSIQGTAV 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+ Sbjct: 179 KRVSYNVSNTREGLSIDYDKLTMEIETNGSVASDDCLAFAARILQDQLSLFVNFDEPKEV 238 Query: 241 VKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V + +S P FN LL++V+ELELSVRS NCL+ +NI+Y+GDL+Q+TE +MLR NFG Sbjct: 239 VVQP--TQSEPEFNKNLLRRVDELELSVRSMNCLKNDNIIYIGDLVQKTEGEMLRTPNFG 296 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 RKSL EIK V+ M L+LG+ +P+WPPE+I EL+KK ED+ Sbjct: 297 RKSLNEIKEVISGMSLYLGIEIPNWPPENISELSKKLEDE 336 >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 = 393 bits (1010), Expect = e-107, Method: Compositional matrix adjust. Identities = 198/345 (57%), Positives = 253/345 (73%), Gaps = 12/345 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN++E V G T +AEPL RGF TLGNALRRVL+SSL+GAA+T++ Sbjct: 6 KNWQELKKPNSLEIKVAGDGRRKATF-VAEPLERGFGLTLGNALRRVLLSSLQGAAVTSI 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP------ 237 +Y V++ R GQ LDYDKLS+T++TDG++T ED+VA A+RILQDQL +F++FE+ Sbjct: 185 AYKVDNTRVGQELDYDKLSLTVETDGTVTPEDAVAYAARILQDQLQLFVHFEDALPAAAP 244 Query: 238 -----KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + + N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+M Sbjct: 245 AAGAAAGGSASEGESDANQINRYLLKKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEM 304 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 LR NFGRKSL EIK VL +MGL LGM++P WPPE+IEE+AKK E Sbjct: 305 LRTPNFGRKSLNEIKEVLSSMGLRLGMDIPGWPPENIEEMAKKLE 349 >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 = 393 bits (1009), Expect = e-107, Method: Compositional matrix adjust. Identities = 197/347 (56%), Positives = 257/347 (74%), Gaps = 18/347 (5%) 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE------- 236 +Y V++AR GQ LDYDKL++T++TDG++T ED+VA A+RILQDQL +F++FEE Sbjct: 185 AYKVDNARIGQELDYDKLNLTVETDGTVTPEDAVAYAARILQDQLQVFVHFEEAMSDSGL 244 Query: 237 -----PKKEVKE-DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 P E D+N N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA Sbjct: 245 IGMAAPSAASDESDVN----QLNRFLLKKVDELELSVRSANCLKNDNIIYIGDLVQKTEA 300 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 +MLR NFGRKSL EIK VL +MGL LGM++P WPPE+IEE+AKK E Sbjct: 301 EMLRTPNFGRKSLNEIKEVLSSMGLRLGMDIPGWPPENIEEMAKKLE 347 >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 = 393 bits (1009), Expect = e-107, Method: Compositional matrix adjust. Identities = 198/345 (57%), Positives = 253/345 (73%), Gaps = 12/345 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN++E V G T +AEPL RGF TLGNALRRVL+SSL+GAA+T++ Sbjct: 6 KNWQELKKPNSLEIKVSGDGRRKATF-VAEPLERGFGLTLGNALRRVLLSSLQGAAVTSI 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP------ 237 +Y V++ R GQ LDYDKLS+T++TDG++T ED+VA A+RILQDQL +F++FE+ Sbjct: 185 AYKVDNTRVGQELDYDKLSLTVETDGTVTPEDAVAYAARILQDQLQLFVHFEDALPAAAP 244 Query: 238 -----KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + + N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+M Sbjct: 245 AAGAAAGGSASEGESDANQINRYLLKKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEM 304 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 LR NFGRKSL EIK VL +MGL LGM++P WPPE+IEE+AKK E Sbjct: 305 LRTPNFGRKSLNEIKEVLSSMGLRLGMDIPGWPPENIEEMAKKLE 349 >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 = 391 bits (1005), Expect = e-107, Method: Compositional matrix adjust. Identities = 200/348 (57%), Positives = 258/348 (74%), Gaps = 15/348 (4%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN++E + G + + R IAEPL RGF TLGNALRRVL+SSL+GAA+T++ Sbjct: 6 KNWQELKKPNSLE-VKPGNDPQRRATFIAEPLERGFGLTLGNALRRVLLSSLQGAAVTSI 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE--PKKEV 241 SY V++AR GQ LDYDKL++T++TDG++T ED+VA A+RILQDQL +F++F++ P V Sbjct: 185 SYKVDNARIGQELDYDKLNLTVETDGTVTPEDAVAYAARILQDQLSLFVHFDDQLPTGHV 244 Query: 242 K----------EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 E+ + L N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+ Sbjct: 245 AVVSGLATHAPEESDANQL--NRYLLKKVDELELSVRSANCLKNDNIIYIGDLVQKTEAE 302 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 MLR NFGRKSL EIK VL +MGL LGM++P WPPE+IEE+AKK E + Sbjct: 303 MLRTPNFGRKSLNEIKEVLSSMGLRLGMDIPGWPPENIEEMAKKLEQE 350 >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 = 390 bits (1003), Expect = e-106, Method: Compositional matrix adjust. Identities = 199/342 (58%), Positives = 255/342 (74%), Gaps = 9/342 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN ++ I G ++ + +AEPL RGF TLGNALRRVL+SSL+GAAIT++ Sbjct: 6 KNWQELKKPNTLD-IKDGGDKGRKATFVAEPLERGFGLTLGNALRRVLLSSLQGAAITSI 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE--PKK-- 239 SY VE+AR GQ LDYDKLS+TI+TDG++T ED+VA A+RILQDQL +F++FE+ P+ 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 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 NFGRKSL EIK VL +MGL LGM++P WPPE+IEE+AKK E Sbjct: 305 PNFGRKSLNEIKEVLSSMGLRLGMDIPGWPPENIEEMAKKLE 346 >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 = 389 bits (999), Expect = e-106, Method: Compositional matrix adjust. Identities = 185/337 (54%), Positives = 259/337 (76%), Gaps = 7/337 (2%) 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP-KKEVK 242 SY++ +AREG+ LDYDKL+M ++T+G+I+ ED+VA ++RI QDQL MF+NF+EP + VK Sbjct: 187 SYSISTAREGKALDYDKLTMEVETNGAISAEDAVAYSARIFQDQLKMFVNFDEPVEAPVK 246 Query: 243 EDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E V + P FN LL+KV+ELELSVRS NCL+ +NI+Y+GDL+Q++E +MLR NFGRK Sbjct: 247 E---VSTEPEFNKNLLRKVDELELSVRSMNCLKNDNIIYIGDLVQKSEGEMLRTPNFGRK 303 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL M L+LGM +P+WPP++I E++KK E+ Sbjct: 304 SLNEIKEVLTGMSLYLGMEIPNWPPDNIAEMSKKLEE 340 >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 = 389 bits (999), Expect = e-106, Method: Compositional matrix adjust. Identities = 199/348 (57%), Positives = 255/348 (73%), Gaps = 13/348 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN +E G + T +AEPL RGF TLGNALRRVL+SSL+GAAITA+ Sbjct: 6 KNWQELKKPNALEKKASGNGKCKATF-VAEPLERGFGLTLGNALRRVLLSSLQGAAITAI 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----PKK 239 +Y VE+AR GQ LDYDKL +TI+TDG+I+ ED++A ++RILQDQL +F++F++ P Sbjct: 185 AYKVENARVGQELDYDKLLLTIETDGTISPEDAIAYSARILQDQLQLFVHFDDGLAPPTS 244 Query: 240 EVKE--------DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 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|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 = 387 bits (994), Expect = e-105, Method: Compositional matrix adjust. Identities = 197/345 (57%), Positives = 254/345 (73%), Gaps = 15/345 (4%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KP ++ + ++ + IAEPL RG+ TLGNALRRVL++SL+GAAIT++ Sbjct: 6 KNWQELKKPTQLD-VKESSDKARKATFIAEPLERGYGLTLGNALRRVLLASLQGAAITSI 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKK 239 SY VE AR GQ LD+DKLS+TI+TDG++T ED+VA A+RILQDQL +F++FE +P+ Sbjct: 185 SYKVEKARVGQELDFDKLSLTIETDGTVTPEDAVAYAARILQDQLTLFVHFEDGIPQPQS 244 Query: 240 EVKEDINVKSLP-------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + I V + P N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+M Sbjct: 245 AM---IGVAAEPQQDDANQLNRYLLKKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEM 301 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 LR NFGRKSL EIK VL +MGL LGM++P WPPE+IEE+AKK E Sbjct: 302 LRTPNFGRKSLNEIKEVLSSMGLRLGMDIPGWPPENIEEMAKKLE 346 >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 = 381 bits (978), Expect = e-103, Method: Compositional matrix adjust. Identities = 188/346 (54%), Positives = 249/346 (71%), Gaps = 14/346 (4%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN +E G + + + +AEPL RGF TLGNALRRVL+SSL+GAA+T++ Sbjct: 6 KNWQELKKPNALEK--KGGDGKRKATFVAEPLERGFGLTLGNALRRVLLSSLQGAAVTSI 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY V+ R GQ LDYDKL+++++TDG++T ED+VA A+RILQDQL +F++F++ Sbjct: 184 SYKVDPTRVGQDLDYDKLTLSVETDGTVTPEDAVAYAARILQDQLALFVHFDDSALTRAA 243 Query: 244 DINVKSLP------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 + ++P N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+ +TEA+ Sbjct: 244 PVGQAAIPAAGGEPQSDAQQINRYLLKKVDELELSVRSANCLKNDNIIYIGDLVGKTEAE 303 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 MLR NFGRKSL EIK VL +MGL LGM +P WPPE+IEE+AKK E Sbjct: 304 MLRTPNFGRKSLNEIKEVLSSMGLRLGMEIPGWPPENIEEMAKKLE 349 >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 = 380 bits (975), Expect = e-103, Method: Compositional matrix adjust. 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|254701949|ref|ZP_05163777.1| DNA-directed RNA polymerase subunit alpha [Brucella suis bv. 5 str. 513] Length = 267 Score = 378 bits (971), Expect = e-103, Method: Compositional matrix adjust. 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 GQVLDYDKLTLNIETNGSVTGEDAVAYAARILQDQLSIFVNFEEPQKEAPQE-QVAELAF 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|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 = 377 bits (968), Expect = e-102, Method: Compositional matrix adjust. Identities = 187/339 (55%), Positives = 252/339 (74%), Gaps = 7/339 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y + E N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNALIKPNKVAYENVS-ETNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK--K 239 V+Y VE+ R GQV DYDKL M ++T+G + E +V LA+RILQ+QL +FI+FEE + K Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDLLPEMAVGLAARILQEQLQLFISFEEQEEDK 242 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +VK D +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTEADMLR NFG Sbjct: 243 QVKTD----ALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTEADMLRTPNFG 298 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 RKSL EIK +L + L GM++PDWPPE+I+EL+K+YED Sbjct: 299 RKSLNEIKEILAKLNLRFGMDVPDWPPENIQELSKRYED 337 >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 = 377 bits (967), Expect = e-102, Method: Compositional matrix adjust. Identities = 187/339 (55%), Positives = 252/339 (74%), Gaps = 7/339 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y E N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNKVAYENF-PETNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK--K 239 V+Y VE+ R GQV DYDKL M ++T+G++ E +V LA+RILQ+QL +FI+FEE + K Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGAVLPEMAVGLAARILQEQLQLFISFEEQEEDK 242 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +VK D +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTEADMLR NFG Sbjct: 243 QVKTD----ALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTEADMLRTPNFG 298 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 RKSL EIK +L L GM++PDWPPE+++EL+K+YED Sbjct: 299 RKSLNEIKEILAKFNLRFGMDVPDWPPENMQELSKRYED 337 >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 = 377 bits (967), Expect = e-102, Method: Compositional matrix adjust. Identities = 189/339 (55%), Positives = 248/339 (73%), Gaps = 7/339 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y E N+ +I EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNRVTYENF-PETNNKAKIIVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK--K 239 V+Y VE+ R GQV DYDKL M ++T+G + E +V LA+RILQ+QL +FI FEE + K Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDVLPEMAVGLAARILQEQLQLFIAFEEQEEDK 242 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +VK D SLPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFG Sbjct: 243 QVKTD----SLPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFG 298 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 RKSL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 299 RKSLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 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 = 375 bits (964), Expect = e-102, Method: Compositional matrix adjust. Identities = 187/339 (55%), Positives = 251/339 (74%), Gaps = 7/339 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y + E N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNKVAYENV-PETNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK--K 239 V+Y VE+ R GQV DYDKL M ++T+G + E +V LA+RILQ+QL +FI+FEE + K Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDVLPEMAVGLAARILQEQLQLFISFEEQEEDK 242 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +VK D +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFG Sbjct: 243 QVKTD----ALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFG 298 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 RKSL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 299 RKSLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >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 = 375 bits (963), Expect = e-102, Method: Compositional matrix adjust. Identities = 187/339 (55%), Positives = 250/339 (73%), Gaps = 7/339 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y E N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNKVAYENF-PETNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK--K 239 V+Y VE+ R GQV DYDKL M ++T+G + E +V LA+RILQ+QL +FI+FEE + K Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDVLPEMAVGLAARILQEQLQLFISFEEQEEDK 242 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +VK D +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFG Sbjct: 243 QVKTD----TLPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFG 298 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 RKSL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 299 RKSLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 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 = 374 bits (960), Expect = e-101, Method: Compositional matrix adjust. Identities = 189/346 (54%), Positives = 248/346 (71%), Gaps = 13/346 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN +E G + + + +AEPL RGF TLGN+LRRVL+SSL+GAA+T++ Sbjct: 6 KNWQELKKPNGLEKKS-GGDGKRKATFVAEPLERGFGLTLGNSLRRVLLSSLQGAAVTSI 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 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 MLR NFGRKSL EIK VL +MGL LGM +P WPPE+IEE+AKK E Sbjct: 305 MLRTPNFGRKSLNEIKEVLASMGLRLGMEIPGWPPENIEEMAKKLE 350 >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 = 373 bits (957), Expect = e-101, Method: Compositional matrix adjust. Identities = 187/339 (55%), Positives = 248/339 (73%), Gaps = 7/339 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y E N+ +I EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNRVTYENF-PETNNKAKIIVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK--K 239 V+Y VE+ R GQV DYDKL + ++T+G + E +V LA+RILQ+QL +FI FEE + K Sbjct: 183 SVTYKVENTRVGQVTDYDKLIIFVETNGDVLPEMAVGLAARILQEQLQLFIAFEEQEEDK 242 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +VK D SLPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFG Sbjct: 243 QVKTD----SLPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFG 298 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 RKSL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 299 RKSLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >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 = 372 bits (956), Expect = e-101, Method: Compositional matrix adjust. Identities = 185/339 (54%), Positives = 249/339 (73%), Gaps = 7/339 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y E N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNKVAYENF-PETNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK--K 239 V+Y VE+ R GQV DYDKL M ++T+G + E +V LA+RILQ+QL +FI+FEE + K Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDLLPEMAVGLAARILQEQLQLFISFEEQEEDK 242 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +VK D +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFG Sbjct: 243 QVKTD----ALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFG 298 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 RKSL EIK +L L GM++PDWPPE+I+EL+ +YED Sbjct: 299 RKSLNEIKEILAKFNLRFGMDVPDWPPENIQELSNRYED 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 = 372 bits (955), Expect = e-101, Method: Compositional matrix adjust. Identities = 186/339 (54%), Positives = 248/339 (73%), Gaps = 7/339 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y E N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNKVAYENF-PETNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK--K 239 V+Y VE+ R GQV DYDKL M ++T+G + E +V LA+RILQ+QL +FI+FEE + K Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDVLPEMAVGLAARILQEQLQLFISFEEQEEDK 242 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +VK D +LPF P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFG Sbjct: 243 QVKTD----ALPFAPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFG 298 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 RKSL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 299 RKSLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >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 = 371 bits (953), Expect = e-101, Method: Compositional matrix adjust. Identities = 185/340 (54%), Positives = 249/340 (73%), Gaps = 8/340 (2%) 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 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK-- 238 K V+Y VE+ R GQV DYDKL M ++T+G I E +V LA+RILQ+QL +FI+FEE + Sbjct: 183 KSVTYKVENTRIGQVTDYDKLIMFVETNGDILPEMAVGLAARILQEQLQLFISFEEQEED 242 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 K+VK D +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTEADMLR NF Sbjct: 243 KQVKTD----ALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTEADMLRTPNF 298 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 GRKSL EIK +L L GM++PDWPPE+I EL+K+YED Sbjct: 299 GRKSLNEIKEILAKFSLRFGMDVPDWPPENIHELSKRYED 338 >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 = 371 bits (953), Expect = e-101, Method: Compositional matrix adjust. Identities = 185/339 (54%), Positives = 249/339 (73%), Gaps = 7/339 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y E N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNKVAYENF-PETNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK--K 239 V+Y VE+ R GQV DYDKL M ++T+G + E +V LA+RILQ+QL +FI+FEE + K Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDLLPEMAVGLAARILQEQLRLFISFEEQEEDK 242 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +VK D +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFG Sbjct: 243 QVKTD----ALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFG 298 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 RKSL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 299 RKSLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >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 = 371 bits (952), Expect = e-101, Method: Compositional matrix adjust. Identities = 186/339 (54%), Positives = 249/339 (73%), Gaps = 7/339 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y E N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNKVAYENF-PETNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK--K 239 V+Y VE+ R GQV DYDKL M ++T+G + E +V LA+RILQ+QL +FI+FEE + K Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDVLPEMAVGLAARILQEQLQLFISFEEQEEDK 242 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +VK D +L F+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFG Sbjct: 243 QVKTD----ALLFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFG 298 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 RKSL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 299 RKSLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >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 = 371 bits (952), Expect = e-101, Method: Compositional matrix adjust. Identities = 189/340 (55%), Positives = 250/340 (73%), Gaps = 9/340 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y E N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNALIKPNKVAYENF-PETNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 62 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQ 120 +++I + HE SSI GV ED++++ILNIKGI +KM + KR+ K GP VVTAG I Sbjct: 63 SIKIPAIEHEFSSIPGVKEDVSEVILNIKGIEVKMHV-AEKRIMKLKVTGPCVVTAGMID 121 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T +D+E+LNPDHVIC+L D + M LT G GYV + + +N PIG I IDAL++P+ Sbjct: 122 TGHDVEILNPDHVICDLAKDKQLEMALTCKVGKGYVLSTNSYEDNLPIGEIAIDALFNPV 181 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK-- 238 K V+Y VE+ R GQV DYDKL M ++T+G + E +V LA+RILQ+QL +FI+FEE + Sbjct: 182 KSVTYKVENTRVGQVTDYDKLIMFVETNGDLLPEMAVGLAARILQEQLQLFISFEEQEED 241 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 K+VK D +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NF Sbjct: 242 KQVKTD----ALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNF 297 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 GRKSL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 298 GRKSLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >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 = 370 bits (951), Expect = e-100, Method: Compositional matrix adjust. Identities = 185/340 (54%), Positives = 249/340 (73%), Gaps = 8/340 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIK + + Y E N++ +I EPL RGF TLGNA+RRVL+SSL+GAA+T Sbjct: 4 LSKNWNALIKTDKVSYESF-PETNNKSKIIVEPLERGFGLTLGNAMRRVLLSSLQGAAVT 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 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK-- 238 K V+Y VE+ R GQV DYDKL M ++T+G I E +V LA+RILQ+QL +FI+FEE + Sbjct: 183 KSVTYKVENTRIGQVTDYDKLIMFVETNGDILPEMAVGLAARILQEQLQLFISFEEQEED 242 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 K+VK D +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTEADMLR NF Sbjct: 243 KQVKTD----ALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTEADMLRTPNF 298 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 GRKSL EIK +L L GM++PDWPPE+I EL+K+YED Sbjct: 299 GRKSLNEIKEILAKFSLRFGMDVPDWPPENIHELSKRYED 338 >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 = 369 bits (947), Expect = e-100, Method: Compositional matrix adjust. Identities = 184/339 (54%), Positives = 249/339 (73%), Gaps = 7/339 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y E N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNRVAYENF-PEINNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK--K 239 V+Y VE+ R GQV DYDKL M ++T+G + E +V LA+RILQ+QL +FI+FEE + K Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGGLLPEMAVGLAARILQEQLQLFISFEEHEEDK 242 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +VK D +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFG Sbjct: 243 QVKTD----TLPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFG 298 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 RKSL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 299 RKSLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >gi|218462761|ref|ZP_03502852.1| DNA-directed RNA polymerase subunit alpha [Rhizobium etli Kim 5] Length = 247 Score = 365 bits (938), Expect = 4e-99, Method: Compositional matrix adjust. Identities = 173/246 (70%), Positives = 210/246 (85%), 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 EDAVAFAARILQDQLGVFVNFDEPQKETEEEA-VTELAFNPALLKKVDELELSVRSANCL 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|297717806|gb|ADI50046.1| DNA-directed RNA polymerase alpha subunit [Candidatus Odyssella thessalonicensis L13] Length = 338 Score = 360 bits (924), Expect = 2e-97, Method: Compositional matrix adjust. Identities = 188/338 (55%), Positives = 250/338 (73%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++Q NW+ LIKPN ++ + G + +I EPL RG+ TLGNALRR+L+SSL+GAA Sbjct: 1 VLQNNWEALIKPNKLD-VRYGTPDLRHADIIVEPLERGYGLTLGNALRRILLSSLQGAAF 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 KRVSYKIEQTRVGQRTDFDKLIMSISTDGSLKPDDAVALAARIMQDQLYSFINFDEPKTI 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 K++ ++ LPFNP LL+KV+ELELSVRS NCL+ ENI+Y+GDL+Q++E +MLR NFGR Sbjct: 240 DKKESKIE-LPFNPNLLRKVDELELSVRSANCLKNENIIYIGDLVQKSEHEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EI+ VL TMGL LGM +P+WPPE+IEEL KK ED Sbjct: 299 KSLNEIREVLETMGLTLGMIIPNWPPENIEELTKKLED 336 >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 = 350 bits (897), Expect = 2e-94, Method: Compositional matrix adjust. 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 AVAYAARILQDQLSIFVNFEEPQKEAPQE-QVAELAFNPALLKKVDELELSVRSANCLKN 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|218674111|ref|ZP_03523780.1| DNA-directed RNA polymerase subunit alpha [Rhizobium etli GR56] Length = 237 Score = 348 bits (893), Expect = 6e-94, Method: Compositional matrix adjust. Identities = 166/235 (70%), Positives = 195/235 (82%), Gaps = 3/235 (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 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 KKVSY VE+ REGQVLDYDKL+MTI+TDGSITGED+VA A+RILQDQLG+F+NFE Sbjct: 178 KKVSYKVENTREGQVLDYDKLNMTIETDGSITGEDAVAFAARILQDQLGVFVNFE 232 >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 = 341 bits (874), Expect = 9e-92, Method: Compositional matrix adjust. Identities = 182/341 (53%), Positives = 247/341 (72%), Gaps = 10/341 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEE---ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +NW ELIKP+ IE LG +E + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 RNWTELIKPHTIE---LGGDETEIQRKATLVAEPLERGFGTTLGNALRRVLLSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 + V+I+GVLHE SS+ GV ED+TDIILNIKG+ L+M K + + G VTAG I+ Sbjct: 60 STVRIEGVLHEFSSVPGVIEDVTDIILNIKGLALRMESTGIKNIYLRVDKEGPVTAGMIE 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT-ENDPIGLITIDALYSP 179 IE+LNPDH I L+ + + +TV+ G GYV A+ +R E+ IG I IDA Y+P Sbjct: 120 CETGIEILNPDHHIATLNKSGTLDITMTVTTGKGYVRAQLNREDESYAIGDIPIDASYNP 179 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +KKV+Y VE+AR GQ DYDKL M I+T+G +T ED++ALA++ILQDQL FINF++ Sbjct: 180 VKKVAYRVENARVGQQTDYDKLIMDIETNGVVTPEDALALAAKILQDQLNPFINFDDVP- 238 Query: 240 EVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 D ++ P +NP L +KV+ELELSVRS NCL+ ++IVY+GDL+Q++E++ML+ NF Sbjct: 239 -TAHDHEMEDRPQWNPNLFRKVDELELSVRSANCLKNDDIVYIGDLVQKSESEMLKTPNF 297 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 GRKSL EIK VL MGL LGM L WPPE+I++L+K++E++ Sbjct: 298 GRKSLNEIKEVLDEMGLSLGMTLDTWPPENIDDLSKQFEEE 338 >gi|239787588|emb|CAX84056.1| DNA-directed RNA polymerase subunit alpha [uncultured bacterium] Length = 339 Score = 340 bits (873), Expect = 1e-91, Method: Compositional matrix adjust. Identities = 178/342 (52%), Positives = 249/342 (72%), Gaps = 9/342 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +NW ELIKP +E + G + TL +AEPL RGF TLGNALRRVL+SSL+GAA++ Sbjct: 1 MYRNWTELIKPRKVELVGEGDSQYKATL-VAEPLERGFGTTLGNALRRVLLSSLQGAAVS 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 AV+I+GVLHE SSI GV ED+TDIILN+KG+ ++M + +T+ GVVTAGDI Sbjct: 60 AVRIEGVLHEFSSIPGVLEDVTDIILNLKGVAIRMRSGVTRTMTLVADKEGVVTAGDIDC 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP--IGLITIDALYSP 179 +DIE+LNP H I L+ + M +TV+ G GYV A ++ P IG I +D Y+P Sbjct: 120 GHDIEILNPGHHIATLNKSGKLNMTMTVTTGKGYVRATTG-ADDQPTNIGDIPLDCSYNP 178 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE-PK 238 +K+VSY V +AR GQ DYD+L + I+T+G ++ ED++ALA++ILQDQL +FINF++ P Sbjct: 179 VKRVSYKVSNARVGQQTDYDRLVLDIETNGVVSPEDALALAAKILQDQLSLFINFDDIPI 238 Query: 239 KEVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 E ++D + P +NP L +KV+ELELSVRS NCL+ ++IVY+GDL+Q+TE++ML+ N Sbjct: 239 HEGRDD---NATPKWNPNLFRKVDELELSVRSANCLKNDDIVYIGDLVQKTESEMLKTPN 295 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 FGRKSL EIK VL M L LGM+L WPPE++E+LA++++++ Sbjct: 296 FGRKSLNEIKEVLEEMDLSLGMHLDGWPPENLEDLARQFDEE 337 >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 = 337 bits (864), Expect = 2e-90, Method: Compositional matrix adjust. Identities = 181/337 (53%), Positives = 239/337 (70%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q+NW+ELIKP +E G EPL RGF TLGNALRRVL+SSL+GAAIT Sbjct: 1 MQRNWRELIKPKRLEVETKGLPNTYGKFE-CEPLERGFGITLGNALRRVLLSSLQGAAIT 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 EEEVRAEPV-FNDHLFRSVDELELSVRSANCLKNADIRYIGELVQKTEAEMLKTKNFGRK 298 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPP-ESIEELAKKYE 337 SL EIK +L MGL LGM L ++P + IE K+ E Sbjct: 299 SLNEIKEILTEMGLSLGMKLENFPSRDDIENRRKEQE 335 >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 = 337 bits (864), Expect = 2e-90, Method: Compositional matrix adjust. 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 MSDHWSKLTKPSSIKVESNGASP-NKADLIVEPLESGFALTLGNALRRVMMSSLRGFAVY 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|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 = 336 bits (862), Expect = 3e-90, Method: Compositional matrix adjust. 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 MSDHWSKLTKPSSIKVVPSGASP-NKADLIIEPLESGFALTLGNALRRVMMSSLRGFAVY 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|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 = 336 bits (862), Expect = 3e-90, Method: Compositional matrix adjust. 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 MSDHWSKLTKPSSIKVVPSGASP-NKADLIIEPLESGFALTLGNALRRVMMSSLRGFAVY 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|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 = 336 bits (861), Expect = 3e-90, Method: Compositional matrix adjust. Identities = 174/345 (50%), Positives = 239/345 (69%), Gaps = 9/345 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +W +L KP++I+ + G N+ +I EPL GFA TLGNALRRV+MSSLRG A+ Sbjct: 32 MSDHWNKLTKPSSIKVVNHGNAL-NKADLIIEPLESGFALTLGNALRRVMMSSLRGFAVY 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND------PIGLITIDA 175 D +LN D +IC LD D +++ V+ G GYVPA ++ N 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 EPKKEVKEDINVKS-LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 E E + ++ K LP++ LL+KV+ELELSVRS NCL+ +NI Y+GDL+Q+TE+DMLR Sbjct: 271 E-TDEPHQKVDTKDVLPYDSNLLRKVDELELSVRSYNCLKNDNITYIGDLVQKTESDMLR 329 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 NFGRKSL EI +L +M L LGM + +WPPESIE L+K+Y ++ Sbjct: 330 TPNFGRKSLNEINELLASMNLHLGMKIANWPPESIESLSKQYSEE 374 >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 = 336 bits (861), Expect = 4e-90, Method: Compositional matrix adjust. Identities = 174/345 (50%), Positives = 239/345 (69%), Gaps = 9/345 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +W +L KP++I+ + G N+ +I EPL GFA TLGNALRRV+MSSLRG A+ Sbjct: 32 MSDHWNKLTKPSSIKVVNHGNAL-NKADLIIEPLESGFALTLGNALRRVMMSSLRGFAVY 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND------PIGLITIDA 175 D +LN D +IC LD D +++ V+ G GYVPA ++ N 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 EPKKEVKEDINVKS-LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 E E + ++ K LP++ LL+KV+ELELSVRS NCL+ +NI Y+GDL+Q+TE+DMLR Sbjct: 271 E-TDEPHQKVDTKDVLPYDSNLLRKVDELELSVRSYNCLKNDNITYIGDLVQKTESDMLR 329 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 NFGRKSL EI +L +M L LGM + +WPPESIE L+K+Y ++ Sbjct: 330 TPNFGRKSLNEINELLASMNLHLGMKIANWPPESIESLSKQYSEE 374 >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 = 335 bits (860), Expect = 5e-90, Method: Compositional matrix adjust. Identities = 174/345 (50%), Positives = 239/345 (69%), Gaps = 9/345 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +W +L KP++I+ + G N+ +I EPL GFA TLGNALRRV+MSSLRG A+ Sbjct: 16 MSDHWNKLTKPSSIKVVNHGNAL-NKADLIIEPLESGFALTLGNALRRVMMSSLRGFAVY 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND------PIGLITIDA 175 D +LN D +IC LD D +++ V+ G GYVPA ++ N 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 EPKKEVKEDINVKS-LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 E E + ++ K LP++ LL+KV+ELELSVRS NCL+ +NI Y+GDL+Q+TE+DMLR Sbjct: 255 E-TDEPHQKVDTKDVLPYDSNLLRKVDELELSVRSYNCLKNDNITYIGDLVQKTESDMLR 313 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 NFGRKSL EI +L +M L LGM + +WPPESIE L+K+Y ++ Sbjct: 314 TPNFGRKSLNEINELLASMNLHLGMKIANWPPESIESLSKQYSEE 358 >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 = 330 bits (845), Expect = 3e-88, Method: Compositional matrix adjust. Identities = 166/329 (50%), Positives = 228/329 (69%), Gaps = 5/329 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGA 58 + KNW++LIKP +E + Q+ T +AEPL RGF TLGN+LRRVL+SSL+GA Sbjct: 5 FVAKNWRDLIKPRRME---VDQDSATPTYGKFVAEPLERGFGTTLGNSLRRVLLSSLQGA 61 Query: 59 AITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGD 118 AIT V+I+GV HE ++I V ED+TD++LN+K + L+M + K + I GP V AGD Sbjct: 62 AITTVKIEGVDHEFTTIPEVSEDVTDVVLNLKEVLLRMHTNETKTLRIEAEGPKEVKAGD 121 Query: 119 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYS 178 I T D E+LNP H IC + +RMELT +G GY PA ++ PIG I ID+L+S Sbjct: 122 IITDPDTEILNPGHHICTISEGGKLRMELTCRRGRGYTPANVNKVAGSPIGTIPIDSLFS 181 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI+KV+Y V +AR GQV D+DKLS+ + TDGS++ +D+VA A++I+++QL +F+NF+E + Sbjct: 182 PIRKVNYQVTNARVGQVTDFDKLSLEVWTDGSVSPQDAVAYAAKIIKEQLTVFVNFDETE 241 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V + + N L + V+ELELSVRS NCL+ NI +GDL+QRTEA+ML+ NF Sbjct: 242 EPVVAEAPKEEAKLNENLFRSVDELELSVRSANCLQQANIKSIGDLVQRTEAEMLKTKNF 301 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 GRKSL EIK +L MGL LGM L +WPP+ Sbjct: 302 GRKSLKEIKEILAEMGLSLGMKLENWPPK 330 >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 = 329 bits (843), Expect = 4e-88, Method: Compositional matrix adjust. Identities = 167/329 (50%), Positives = 228/329 (69%), Gaps = 9/329 (2%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIA----EPLPRGFAHTLGNALRRVLMSSLR 56 MI +NW++LI+P I + E+ T A EPL RGF T+GN+LRRVL+SSL+ Sbjct: 10 MIARNWRDLIRPKGISI-----DAESGTQFYAKFTCEPLERGFGITIGNSLRRVLLSSLQ 64 Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAA TA++I+G LHE +++ V ED++DIILN+K + K + V I + GPG V A Sbjct: 65 GAAATAIRIEGALHEFTTVPDVVEDVSDIILNVKEVVFKAATPKTYSVRIDREGPGPVYA 124 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 DIQ V + VLNPDH+I LD + MELTV+ G GYVPA+ ++T PIG I IDAL Sbjct: 125 RDIQLVEGLSVLNPDHLIAVLDKKGPLSMELTVNVGRGYVPAERNKTPTMPIGTIPIDAL 184 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 +SPI+KV+YTV++AR GQV DYDKL++ + T+GS++ D+VA A++IL++QL +++NFEE Sbjct: 185 FSPIRKVNYTVQNARVGQVTDYDKLTLEVWTNGSVSPADAVAFAAKILKEQLSIWVNFEE 244 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ + + P N L + VEELELSVRS NCL+ NI +G+L+QRTE DML+ Sbjct: 245 SEETSYQAVMSDDEPLNENLFRSVEELELSVRSANCLQNANITLIGELVQRTEQDMLKTK 304 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 NFGRKSL EIK +L MGL LGM + +WP Sbjct: 305 NFGRKSLKEIKEILANMGLSLGMKIDNWP 333 >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 = 328 bits (842), Expect = 6e-88, Method: Compositional matrix adjust. Identities = 172/341 (50%), Positives = 234/341 (68%), Gaps = 5/341 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 + KNW LIKP ++Y + +T M+ EPL RG TLGN+LRRVL+SSLRGAAI Sbjct: 4 FLAKNWSSLIKPTKVQYEAVDNNPNIKT-MVVEPLERGLGLTLGNSLRRVLLSSLRGAAI 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+E + Sbjct: 183 PVRRVSYKVENSMVGQMTNYDKLIITVETNGVVNPDAALGLAARILLDQLQVFINFQEVE 242 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +E E + ++++ NP LLKKV ELELSVRS NCL+ ENIVY+GDL+ RTE ML+ ANF Sbjct: 243 EEKPEKLELQTI--NPVLLKKVYELELSVRSQNCLKNENIVYVGDLVARTETQMLKTANF 300 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 GRKSL E+K VL L GM WPPE++E LAKK+ED+ Sbjct: 301 GRKSLNELKKVLANFNLEFGMKDIGWPPENLESLAKKHEDQ 341 >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 = 328 bits (841), Expect = 6e-88, Method: Compositional matrix adjust. Identities = 174/336 (51%), Positives = 239/336 (71%), Gaps = 2/336 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNW+ELIKP ++ + M AEP RGF TLGN+LRRVL+SSL+GAAIT+V Sbjct: 3 KNWRELIKPKRLQVDADSLSDTYGKFM-AEPFERGFGTTLGNSLRRVLLSSLQGAAITSV 61 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I GVLHE S+I GV ED+TDIILN+KG+ LK+ G + + I K+G GV+TA DI T + Sbjct: 62 RIKGVLHEFSNIPGVTEDVTDIILNLKGVLLKLHGSDSRNIRIVKKGAGVITAADIITDS 121 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 ++VLNPDH I DA + +++ V+ G GYVPA+ +R + P+G I ID+L+SP+KKV Sbjct: 122 HVDVLNPDHHILTCGKDADIELDMVVAMGKGYVPAERNRDDKAPVGTIPIDSLFSPVKKV 181 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 ++TV +AR GQ+ DYDKL + + TDGS+ +D VA A++IL++QL +FINF+E + V E Sbjct: 182 NFTVTNARVGQITDYDKLILEVLTDGSVRPDDGVAYAAKILKEQLQIFINFDEETETVVE 241 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + +S N L + VEELELSVRS NCL+ NI +GDL+QR+EA+ML+ NFGRKSL Sbjct: 242 EESEESRKINENLYRSVEELELSVRSANCLKNANIHLIGDLVQRSEAEMLKTQNFGRKSL 301 Query: 304 VEIKGVLGTMGLFLGMNLPDWP-PESIEELAKKYED 338 EIK +L MGL LGM L ++P PE ++ + + ED Sbjct: 302 NEIKDILAEMGLSLGMMLENFPDPEYLKMIQEGKED 337 >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 = 328 bits (840), Expect = 1e-87, Method: Compositional matrix adjust. Identities = 173/346 (50%), Positives = 235/346 (67%), Gaps = 15/346 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTL------MIAEPLPRGFAHTLGNALRRVLMSSL 55 + +NW++LI P ++ E+ TL AEP RGF TLGN+LRRVL+SSL Sbjct: 1 MYRNWRDLISPKKLQV-------ESETLTNKYGKFYAEPFERGFGTTLGNSLRRVLLSSL 53 Query: 56 RGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVT 115 +GA IT+V+I GVLHE SSI GV ED+T+IILN+KG++LKM G K V I +G G++T Sbjct: 54 QGAGITSVRIKGVLHEFSSIPGVTEDVTNIILNLKGVSLKMYGTEPKTVRIIHKGDGIIT 113 Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDA 175 AGDI T +E+LNP+H I DA + ME+ V G GYVPA +R E P+G I IDA Sbjct: 114 AGDIITDPQVEILNPEHHIATCSKDANLEMEMVVKVGKGYVPADRNRDEKAPVGTIPIDA 173 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 L+SPI+KV++TV +AR GQ+ DYDKL++ + T+GS+ ED+VA A++IL++QL +FINF+ Sbjct: 174 LFSPIRKVNFTVSNARVGQMTDYDKLTLEVWTNGSVIPEDAVAFAAKILKEQLSIFINFD 233 Query: 236 EPKKEVKE-DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 E + E ++ P N L + V+ELELSVRS NCL+ I +G+L+ RTEA+ML+ Sbjct: 234 EEAEPSGEAEVGEGESPINENLYRSVDELELSVRSANCLKNAGIKLIGELVSRTEAEMLK 293 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWP-PESIEELAKKYEDK 339 NFGRKSL EIK +L MGL LGM L +P PE + L + +D+ Sbjct: 294 TQNFGRKSLNEIKDILAEMGLTLGMKLEGFPDPEVMRRLRGERKDE 339 >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 = 327 bits (838), Expect = 2e-87, Method: Compositional matrix adjust. Identities = 171/341 (50%), Positives = 234/341 (68%), Gaps = 5/341 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 + KNW LIKP ++Y + +T M+ EPL RG TLGN+LRRVL+SSLRGAAI Sbjct: 4 FLAKNWSSLIKPTKVQYEAVDNNPNIKT-MVVEPLERGLGLTLGNSLRRVLLSSLRGAAI 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+E + Sbjct: 183 PVRRVSYKVENSMVGQMTNYDKLIITVETNGVVNPDAALGLAARILLDQLQVFINFQEVE 242 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +E E + ++++ NP LLKKV ELELSVRS NCL+ ENIVY+GDL+ RTE ML+ ANF Sbjct: 243 EEKPEKLELQTI--NPVLLKKVYELELSVRSQNCLKNENIVYVGDLVARTETQMLKTANF 300 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 GRKSL E+K VL L GM WPP+++E LAKK+ED+ Sbjct: 301 GRKSLNELKKVLANFNLEFGMKDIGWPPDNLESLAKKHEDQ 341 >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 = 323 bits (827), Expect = 3e-86, Method: Compositional matrix adjust. Identities = 169/337 (50%), Positives = 231/337 (68%), Gaps = 5/337 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGA 58 ++ KNW++LIKP + V+ QE + T +AEPL RGF TLGN+LRRVL+SSL+GA Sbjct: 5 IVTKNWRDLIKPRGL---VVDQESLSNTYGKFVAEPLERGFGITLGNSLRRVLLSSLQGA 61 Query: 59 AITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGD 118 AIT+V+I+GV HE +I V ED+TDIILN+K + L++ + K + I GP + AGD Sbjct: 62 AITSVKIEGVEHEFMTIPEVAEDVTDIILNLKEVLLQIHTNEVKTLRIEADGPREIKAGD 121 Query: 119 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYS 178 I +E+LNP H I + VRME+T +G GYVPA ++ PIG I IDAL+S Sbjct: 122 IIADGQVEILNPGHHILTISEGGRVRMEMTARRGRGYVPADKNKVPGQPIGTIPIDALFS 181 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI+KV+Y V +AR GQ DYDKLS+ + TDGS+ D+VA A++I+++QL +FINF+E + Sbjct: 182 PIRKVNYQVTNARVGQQTDYDKLSLEVWTDGSVAPNDAVAYAAKIVKEQLSIFINFDEAE 241 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + +E V+ N L + V+ELELSVRS NCL+ NI +GDL+Q+TEA+ML+ NF Sbjct: 242 EPAEEVKPVEEQKLNENLFRSVDELELSVRSANCLQNANIKTIGDLVQKTEAEMLKTKNF 301 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 GRKSL EIK +L MGL LGM L +WPP++ + A K Sbjct: 302 GRKSLKEIKEILAEMGLSLGMKLENWPPKAAPQGAPK 338 >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 = 322 bits (825), Expect = 5e-86, Method: Compositional matrix adjust. Identities = 166/342 (48%), Positives = 236/342 (69%), Gaps = 14/342 (4%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTL------MIAEPLPRGFAHTLGNALRRVLMSSLRG 57 KNW++LIKP ++ ++R+L AEP RGF T+GN+LRR+L+SSL+G Sbjct: 3 KNWRDLIKPKRLQV-------DSRSLTANYGKFFAEPFERGFGTTIGNSLRRILLSSLQG 55 Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 AAIT+V+I GVLHE S++ GV ED+TDIILN+K + L++ G + + I K+G GV+TAG Sbjct: 56 AAITSVRIKGVLHEFSTVPGVTEDVTDIILNLKSVLLRLEGQESRNIRIVKKGAGVITAG 115 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 DI T +++E+LNPD I +A V +++ VS G GYV A+ +R + P+G I ID+++ Sbjct: 116 DIVTDSNVEILNPDLYIATCTKEADVEIDMVVSMGKGYVTAERNRDDKAPVGTIPIDSIF 175 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SPIKKV+Y V +AR GQ+ DYDKL++ + TD S+ ED+VA +++IL++ L MFINF+E Sbjct: 176 SPIKKVNYAVTNARVGQITDYDKLTLEVWTDASVKPEDAVAYSAKILKEHLQMFINFDEE 235 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + +E + N L + VEELELSVRS NCL+ I +GDL+Q+TEA+ML+ N Sbjct: 236 QIPEEEPEEEEVQKINENLYRSVEELELSVRSANCLKNARISLIGDLVQKTEAEMLKTQN 295 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWP-PESIEELAKKYED 338 FGRKSL EIK +L MGL LGM L ++P PE ++ L K E+ Sbjct: 296 FGRKSLNEIKDILAEMGLTLGMKLENFPDPEYLKVLQKSREE 337 >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 = 322 bits (825), Expect = 6e-86, Method: Compositional matrix adjust. Identities = 167/350 (47%), Positives = 239/350 (68%), Gaps = 16/350 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTL-MIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 I +W L +P++I+ V+G + +R+ +I EPL GFA TLGNALRRV+MSSLRG A+ Sbjct: 21 ISDHWDRLTRPSSIK--VVGDGDVSRSAELIVEPLESGFALTLGNALRRVMMSSLRGFAV 78 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 ++++GV HE++S+ GV ED+ D++LN+ + +K+ + + + +GPG VTA I Sbjct: 79 YGIEVEGVSHELTSLSGVREDVADLVLNLSMLRVKLLTSESRVLRLVAKGPGEVTAAAIG 138 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--------TENDPIGLIT 172 +LN D IC L DA M++ V+ G GYVPA +R +E P G I Sbjct: 139 DSEGCVILNKDLHICTLGKDANFSMKIYVNSGKGYVPASEYRAASRSGATSEAGP-GFIA 197 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 +ALYSP+KKV++ +ES+R GQ DYDKL ++++TDGSI+ +++VA+++R+LQDQL FI Sbjct: 198 TNALYSPVKKVAFRIESSRIGQFTDYDKLVISVETDGSISPDEAVAVSARVLQDQLQAFI 257 Query: 233 NFEEPKKEV----KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 EE + E K D +LP++ LL+KV+ELELSVRS NCL+ +NI Y+GDL+Q+T Sbjct: 258 GSEEVEGESPVRKKVDKEEGALPYDHNLLRKVDELELSVRSHNCLKNDNITYIGDLVQKT 317 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 E+DMLR NFGRKSL EI VL +M L LGM +P+WPPESIE L+K+Y + Sbjct: 318 ESDMLRTPNFGRKSLNEINEVLASMNLHLGMKVPNWPPESIENLSKQYSE 367 >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 = 320 bits (821), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 163/348 (46%), Positives = 242/348 (69%), Gaps = 14/348 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTL-MIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 I +W +L +P++I+ V+G + +R+ +I EPL GFA TLGNALRRV+MSSLRG A+ Sbjct: 21 ISDHWDKLTRPSSIK--VVGDGDLSRSAELIVEPLESGFALTLGNALRRVMMSSLRGFAV 78 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 ++++GV HE++S+ GV ED+ D++LN+ + +K+ + + + +GPG +TA I Sbjct: 79 YGIEVEGVSHELTSLSGVREDVADLVLNLSMLRVKLLTSESRVLRLVAKGPGEITAAAIG 138 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--------TENDPIGLIT 172 VLN D IC L D M++ V+ G GYVPA +R +E P G I Sbjct: 139 DSEGCVVLNKDLHICTLGKDVDFSMKIYVNSGKGYVPASEYRAASRSGATSEVGP-GFIA 197 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 +ALYSP+KKV++ +ES+R GQ DYD+L ++++TDGSI+ +++VA+++R+LQDQL FI Sbjct: 198 TNALYSPVKKVAFRIESSRIGQFTDYDRLVISVETDGSISPDEAVAVSARVLQDQLQSFI 257 Query: 233 NFEEPKKEVKEDINVK--SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 EE + E ++ ++ + +LP++ LL+KV+ELELSVRS NCL+ +NI Y+GDL+Q+TE+ Sbjct: 258 GSEEVEGESRKKVDKEEGALPYDHNLLRKVDELELSVRSHNCLKNDNITYIGDLVQKTES 317 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 DMLR NFGRKSL EI VL +M L LGM +P+WPPESIE L+K+Y + Sbjct: 318 DMLRTPNFGRKSLNEINEVLASMNLHLGMKVPNWPPESIENLSKQYSE 365 >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 = 320 bits (820), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 161/326 (49%), Positives = 227/326 (69%), Gaps = 5/326 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGA 58 I KNW++LIKP +E + Q+ + T +AEPL RGF TLGN+LRRVL+SSL+G+ Sbjct: 5 FIAKNWRDLIKPRRLE---VDQDSLSTTYGKFVAEPLERGFGTTLGNSLRRVLLSSLQGS 61 Query: 59 AITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGD 118 AIT+V+I+ V HE +++ V ED+TDI+LN+K + L+M + K + I GP + AGD Sbjct: 62 AITSVKIENVDHEFTTLPEVAEDVTDIVLNLKEVLLRMHTNETKTLRIEAEGPKEIKAGD 121 Query: 119 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYS 178 I D+E+LNP H IC + VRMEL+ +G GYVPA ++ P+G I ID+L++ Sbjct: 122 IIADQDVEILNPGHHICTVSEGGKVRMELSCRRGRGYVPASVNKVAGAPLGTIPIDSLFA 181 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI+KV+Y V +AR GQV DYDKL++ + TDGS+T +D+VA A++I+++QL +F+NF+E + Sbjct: 182 PIRKVNYQVTNARVGQVTDYDKLTLEVWTDGSVTPQDAVAYAAKIIKEQLTVFVNFDETE 241 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V + + N L + V+ELELSVRS NCL+ NI +GDL+QRTEA+ML+ NF Sbjct: 242 EPVVAEAPKEEAKLNENLFRSVDELELSVRSANCLQQANIKSIGDLVQRTEAEMLKTKNF 301 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDW 324 GRKSL EIK +L MGL LGM L +W Sbjct: 302 GRKSLKEIKEILAEMGLSLGMKLENW 327 >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 = 320 bits (820), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 162/345 (46%), Positives = 239/345 (69%), Gaps = 12/345 (3%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 N +LIKP++++ V+ + ++ ++ EPL GFA TLGNALRRV++SSL+G+A+ ++ Sbjct: 12 NLDKLIKPSSVK--VISDDSSEKSDIVLEPLESGFALTLGNALRRVMLSSLKGSAVYGIK 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 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--------TENDPIGLITIDAL 176 ++N D +IC L + + M + V+ G GY+P ++ +E D IG I ++AL Sbjct: 130 CSIVNKDLLICTLGQNVELNMTIYVASGKGYLPVTKYKENELLKLMSEQDLIGFIPVNAL 189 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI--NF 234 YSP+ +VSY VE++R GQV D DKL ++I+TDG+I+ +V A+RILQ+QL FI + Sbjct: 190 YSPVNRVSYRVENSRVGQVTDKDKLILSIETDGTISPSQAVDSAARILQEQLQPFISSDV 249 Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 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|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 = 320 bits (820), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 162/345 (46%), Positives = 239/345 (69%), Gaps = 12/345 (3%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 N +LIKP++++ V+ + ++ ++ EPL GFA TLGNALRRV++SSL+G+A+ ++ Sbjct: 12 NLDKLIKPSSVK--VVSDDSSEKSDIVLEPLESGFALTLGNALRRVMLSSLKGSAVYGIK 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 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--------TENDPIGLITIDAL 176 ++N D +IC L + + M + V+ G GY+P ++ +E D IG I ++AL Sbjct: 130 CSIVNKDLLICTLGQNVELNMTIYVASGKGYLPVTKYKENELLKLMSEQDLIGFIPVNAL 189 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI--NF 234 YSP+ +VSY VE++R GQV D DKL ++I+TDG+I+ +V A+RILQ+QL FI + Sbjct: 190 YSPVNRVSYRVENSRVGQVTDKDKLILSIETDGTISPSQAVDSAARILQEQLQPFISSDV 249 Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 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|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 = 320 bits (820), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 164/325 (50%), Positives = 225/325 (69%), Gaps = 4/325 (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 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL EIK +L MGL LGM L +WP Sbjct: 313 KSLKEIKEILAEMGLSLGMKLDNWP 337 >gi|193795085|gb|ACF21672.1| RpoA [Rhizobium tropici] gi|193795087|gb|ACF21673.1| RpoA [Rhizobium tropici] Length = 212 Score = 318 bits (816), Expect = 5e-85, Method: Compositional matrix adjust. Identities = 152/213 (71%), Positives = 183/213 (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 NFGRKSL EIK VL +MG Sbjct: 180 GDLIQKTEAEMLRTPNFGRKSLNEIKEVLASMG 212 >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 = 318 bits (815), Expect = 7e-85, Method: Compositional matrix adjust. 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|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 = 318 bits (814), Expect = 9e-85, Method: Compositional matrix adjust. Identities = 161/342 (47%), Positives = 236/342 (69%), Gaps = 12/342 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 +L KPN+++ V+ + + ++ EPL GFA TLGNALRRV++SSL G+A+ ++IDG Sbjct: 15 KLTKPNSMK--VVSSDSSEKGDIVLEPLESGFALTLGNALRRVMLSSLIGSAVYGIKIDG 72 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 + HE +SI+GV ED+TDI+LN+ + K++G S+K +++ +GP V AG I+T + + Sbjct: 73 ITHEFTSIQGVREDVTDIVLNMGMLRCKLNGTSNKCLSLSAKGPCQVLAGMIETDDQCSI 132 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--------TENDPIGLITIDALYSP 179 +N D +IC L D + M + V+ G GY+P ++ E D I I ++ALYSP Sbjct: 133 VNKDLLICTLGQDVELNMTIYVASGKGYLPVTKYKENEFLKPMNEQDLISFIPVNALYSP 192 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI--NFEEP 237 I +VSY VE++R GQV D DKL ++++TDG+I+ +V A+RILQ+QL FI + Sbjct: 193 INRVSYRVENSRVGQVTDKDKLILSVETDGTISPSQAVDSAARILQEQLQPFISSDISYK 252 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 K +V K L ++P LL+KV+E+ELSVRS NCL+ ENI Y+GDL+Q+TE++MLR AN Sbjct: 253 KSQVSSPSGYKDLGYDPILLRKVDEMELSVRSHNCLKNENITYIGDLVQKTESEMLRTAN 312 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 FGRKSL EIK VL GL LGM++PDWPP+ I+ELA+++ D+ Sbjct: 313 FGRKSLNEIKAVLNNFGLSLGMDIPDWPPKDIDELARQHTDE 354 >gi|193795067|gb|ACF21665.1| RpoA [Rhizobium tropici] Length = 212 Score = 317 bits (811), Expect = 2e-84, Method: Compositional matrix adjust. 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 NFGRKSL EIK VL +M Sbjct: 180 GDLIQKTEAEMLRTPNFGRKSLNEIKEVLASMA 212 >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 = 317 bits (811), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 168/344 (48%), Positives = 236/344 (68%), Gaps = 11/344 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRT----LMIAEPLPRGFAHTLGNALRRVLMSSLRG 57 + +NW++LI P ++ E E+ T AEP RGF TLGN+LRRVL+SSL+G Sbjct: 1 MYRNWRDLISPKKLQV-----ESESLTNTYGKFFAEPFERGFGTTLGNSLRRVLLSSLQG 55 Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 AAI++V+I GVLHE SSI GV ED+T+IILN+KG++LKM G+ + V I +G G+V AG Sbjct: 56 AAISSVKIKGVLHEFSSIPGVTEDVTNIILNLKGVSLKMHGNEARTVRIIHKGDGIVKAG 115 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 DI T ++E+LNPDH I DA + ME+ V G GYVP+ +R E P+G + IDA++ Sbjct: 116 DIVTDANVEILNPDHHIATCSKDANLEMEMVVKLGKGYVPSDRNRDEKAPVGTMPIDAIF 175 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SPIKKV++TV +AR GQ+ DYDKL++ + T+GS+ ED+VA A++IL++QL +FINF+E Sbjct: 176 SPIKKVNFTVSNARVGQMTDYDKLTLEVWTNGSVVPEDAVAFAAKILKEQLSIFINFDEE 235 Query: 238 KKEVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + +E + N L + V+ELELSVRS NCL+ I +G+L+ R+EA+ML+ Sbjct: 236 AEPAEEAETEEERERVNENLYRSVDELELSVRSANCLKNAGIKMIGELVSRSEAEMLKTQ 295 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWP-PESIEELAKKYEDK 339 NFGRKSL EIK +L MGL LGM L +P PE + + + +D+ Sbjct: 296 NFGRKSLNEIKDILADMGLTLGMKLDGFPDPEVMRRIRGERKDE 339 >gi|193795092|gb|ACF21675.1| RpoA [Sinorhizobium sp. 206] Length = 212 Score = 316 bits (810), Expect = 3e-84, Method: Compositional matrix adjust. Identities = 150/213 (70%), Positives = 181/213 (84%), Gaps = 1/213 (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 RILQDQLGVFVNFDEPQKEAEEE-SVTELAFNPALLKKVDELELSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 GDLIQ+TEA+MLR NFGRKSL EIK VL +M Sbjct: 180 GDLIQKTEAEMLRTPNFGRKSLNEIKEVLASMA 212 >gi|193795090|gb|ACF21674.1| RpoA [Rhizobium tropici] Length = 212 Score = 316 bits (809), Expect = 4e-84, Method: Compositional matrix adjust. 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|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 = 316 bits (809), Expect = 4e-84, Method: Compositional matrix adjust. Identities = 157/332 (47%), Positives = 228/332 (68%), Gaps = 9/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E + P +I+ + + R ++ EPL RGF HTLGNALRR+L+SS+ G AI Sbjct: 1 MQTAVNEFLTPRHID---VSEITPTRARVVLEPLERGFGHTLGNALRRILLSSMAGCAIV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGVLHE S+I+GV ED+ +I+LN+KG+ + M G +T+ K+GPGVVTAGDIQ Sbjct: 58 EAEIDGVLHEYSAIEGVREDVIEILLNLKGVAVVMHGKDSTVLTLSKKGPGVVTAGDIQV 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E+ NPDHVI N+ + ++M LT+++G GY PA R ++D IG + +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 K +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 QSAPEQ---KEEAIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 G+KSL EIK VL + GL LGM L +WPP S++ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLK 326 >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 = 315 bits (808), Expect = 4e-84, Method: Compositional matrix adjust. Identities = 166/328 (50%), Positives = 229/328 (69%), Gaps = 10/328 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTL----MIAEPLPRGFAHTLGNALRRVLMSSLRG 57 +++NW+ELIKP+ ++ +EE T EPL RGF HT+GNALRR+L+SSL+G Sbjct: 1 MERNWRELIKPSRLQI-----DEEIHTSRYGKFSCEPLERGFGHTIGNALRRILISSLQG 55 Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 AA+T ++++GVLHE S+I GV ED+TDIILN+KGI L+ G +TI +G GVV AG Sbjct: 56 AAVTNLRMEGVLHEFSTIPGVLEDVTDIILNLKGIQLRYLGFDSTTMTISAQGEGVVKAG 115 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 DI+T D+E+LNP+H I L + + ELTV G GYV A+ +++ DPIG I ID+ + Sbjct: 116 DIKTPPDVEILNPEHHIATLSPEGRLEAELTVRTGKGYVTAERNKSPEDPIGYIAIDSAF 175 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SPI KVSY V AR GQ+ DYDKL++ + T+G++ ED+VA A++IL++QL +FINF E Sbjct: 176 SPITKVSYVVTQARVGQITDYDKLTLEVHTNGAVRPEDAVAYAAKILKEQLQIFINFPE- 234 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + E + + N L + V+ELELSVRS NCL+ +I Y+G+L+QR+EA+ML+ N Sbjct: 235 EPEPTHEEEREEPRLNENLFRTVDELELSVRSANCLKNADIKYIGELVQRSEAEMLKTKN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 FGRKSL EIK +L MGL LGM L +P Sbjct: 295 FGRKSLNEIKEMLTDMGLSLGMKLDGFP 322 >gi|193795070|gb|ACF21666.1| RpoA [Rhizobium tropici CIAT 899] gi|193795078|gb|ACF21669.1| RpoA [Rhizobium tropici] Length = 212 Score = 315 bits (808), Expect = 4e-84, Method: Compositional matrix adjust. Identities = 150/213 (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+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 RILQDQLGVFVNFDEPQKEAEEEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 GDLIQ+TEA+MLR NFGRKSL EIK VL +M Sbjct: 180 GDLIQKTEAEMLRTPNFGRKSLNEIKEVLASMA 212 >gi|193795075|gb|ACF21668.1| RpoA [Rhizobium tropici] gi|193795083|gb|ACF21671.1| RpoA [Rhizobium tropici] Length = 212 Score = 315 bits (808), Expect = 5e-84, Method: Compositional matrix adjust. Identities = 150/213 (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+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 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 GDLIQ+TEA+MLR NFGRKSL EIK VL +M Sbjct: 180 GDLIQKTEAEMLRTPNFGRKSLNEIKEVLASMA 212 >gi|193795081|gb|ACF21670.1| RpoA [Rhizobium gallicum] Length = 212 Score = 315 bits (807), Expect = 6e-84, Method: Compositional matrix adjust. Identities = 149/213 (69%), 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+ 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 RILQDQLGVFVNFDEPQKEAEEEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 GDLIQ+TEA+MLR NFGRKSL EIK VL +M Sbjct: 180 GDLIQKTEAEMLRTPNFGRKSLNEIKEVLASMA 212 >gi|193795063|gb|ACF21663.1| RpoA [Rhizobium giardinii] Length = 212 Score = 314 bits (804), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 150/213 (70%), 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 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 RILQDQLGVFVNFDEPQKEAEEEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 GDLIQ+TEA+MLR N GRKSL EIK VL +MG Sbjct: 180 GDLIQKTEAEMLRTPNLGRKSLNEIKEVLASMG 212 >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 = 314 bits (804), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 157/324 (48%), Positives = 224/324 (69%), Gaps = 2/324 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +NW ELI+P +E I E I +PL RGFA T+GN+LRR+L+SS++GAAIT Sbjct: 11 VYRNWHELIRPEKVE-IDQSNHSETYGKFICQPLERGFATTIGNSLRRILLSSIQGAAIT 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 -KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 K+ + + NP L K VE+LELSVRS NCL+ +I ++GDL+QRT+ +ML+ NFGR Sbjct: 250 EKKAVETEEKQENPYLDKPVEDLELSVRSANCLKNADINFIGDLVQRTDQEMLKTKNFGR 309 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDW 324 KSL EIK +L M L LG+ L W Sbjct: 310 KSLNEIKTLLQDMDLTLGVKLEGW 333 >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 = 313 bits (803), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 160/345 (46%), Positives = 233/345 (67%), Gaps = 12/345 (3%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 N L KPN I+ V+ + ++ ++ EPL GFA TLG+ALRRV++SSLRG+A+ ++ Sbjct: 12 NLDRLTKPNAIK--VISGDSSKKSDIVLEPLESGFALTLGHALRRVMLSSLRGSAVYGIK 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 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--------TENDPIGLITIDAL 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|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 = 313 bits (803), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 157/331 (47%), Positives = 225/331 (67%), Gaps = 9/331 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYS 178 +DIE+ NPDH+IC L+ + V M+LTV++G GY PA ++ E IG + +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 QAVTSDAEDE---VDPVLLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L WPP S+ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLESWPPASL 325 >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 = 313 bits (803), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 170/337 (50%), Positives = 229/337 (67%), Gaps = 11/337 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRT----LMIAEPLPRGFAHTLGNALRRVLMSSLRG 57 + +NW++LIKP ++ E E+ T AEP RGF TLGN+LRRVL+SSL+G Sbjct: 1 MYRNWRDLIKPKKLQV-----ETESLTNTYGKFYAEPFERGFGTTLGNSLRRVLLSSLQG 55 Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 AAIT+V+ GVLHE S+I GV ED TDIILN+KG+ KM G + V I ++G G+V AG Sbjct: 56 AAITSVKAKGVLHEFSAIPGVTEDATDIILNLKGVRFKMHGHESRVVRIVQKGEGLVKAG 115 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 DI T ++EVLNP+H I DA + ME+ V G GYVPA +R E P+G I ID+++ Sbjct: 116 DIITDPNVEVLNPNHHIATCSKDANLEMEMVVKMGKGYVPADRNRDEKAPVGTIPIDSIF 175 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-E 236 SP+ KV++TV +AR GQ+ DYDKL + I TDGS+ +D++A AS+IL+DQL +FINF+ E Sbjct: 176 SPLTKVNFTVSNARVGQITDYDKLIIEIWTDGSVKPQDALAYASKILKDQLTIFINFDEE 235 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + + + + FN L + V+ELELSVRS NCL+ I +G+L+ RTEA+ML+ Sbjct: 236 VEPVEEVEPEEERERFNENLYRSVDELELSVRSANCLKNAGIKLIGELVSRTEAEMLKTQ 295 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWP-PESIEEL 332 NFGRKSL EIK +L MGL LGM L ++P PE + L Sbjct: 296 NFGRKSLNEIKDILVDMGLTLGMRLDNFPDPEIMRRL 332 >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 = 313 bits (802), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 155/256 (60%), Positives = 198/256 (77%), Gaps = 1/256 (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 VKEDINVKSLPFNPAL 256 + + L FNPAL Sbjct: 259 RAAEDDKPELDFNPAL 274 >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 = 313 bits (801), Expect = 3e-83, Method: Compositional matrix adjust. Identities = 160/337 (47%), Positives = 232/337 (68%), Gaps = 11/337 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ EL+ P NIE LG TL +PL RGF HTLGNALRR+L+SS+ G AI Sbjct: 1 MQRSVSELLTPRNIEVQELGNCRAKVTL---QPLERGFGHTLGNALRRILLSSMPGCAIV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 V D E+ NPDH+I +LD A + M++ V++G GY PA +D PIG + +DA +S Sbjct: 118 VADAEIANPDHIIAHLDDTAELTMQIKVARGRGYEPADARVAGDDETRPIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EP 237 P+++V+Y+V++AR Q D DKL + I+++G+I E+++ A+ ILQ Q+ +F+ E E Sbjct: 178 PVRRVAYSVDNARVEQRTDLDKLVLDIESNGTIDPEEAIRRAATILQQQIAVFVALESES 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + V E+ + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EAPVVEEED----EIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL GL LGM L +WPP S+++ +K Sbjct: 294 LGKKSLTEIKDVLAQRGLSLGMRLENWPPASLKDDSK 330 >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 = 312 bits (800), Expect = 4e-83, Method: Compositional matrix adjust. Identities = 172/335 (51%), Positives = 230/335 (68%), Gaps = 11/335 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRT----LMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 KNW++LIKP ++ E E+ T AEP RGF TLGN+LRRVL+SSL+GAA Sbjct: 3 KNWRDLIKPKKLQV-----ETESLTNTYGKFYAEPFERGFGTTLGNSLRRVLLSSLQGAA 57 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 IT+V+ GVLHE S+I GV ED TDIILN+KG+ KM G + V I ++G G+V AGDI Sbjct: 58 ITSVKAKGVLHEFSAIPGVTEDATDIILNLKGVRFKMHGHEPRVVRIAQKGEGIVRAGDI 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 T +IEVLNP+H I DA + ME+ V G GYVPA +R E P+G I ID+++SP Sbjct: 118 ITDPNIEVLNPNHHIATCSKDANLEMEMVVKLGKGYVPADRNRDEKAPVGTIPIDSIFSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + KV++TV +AR GQ+ DYDKL++ + TDGS+ +D+VA AS+IL+DQL +FINF+E + Sbjct: 178 LTKVNFTVTNARVGQITDYDKLTIEVWTDGSVKPQDAVAYASKILKDQLTIFINFDEEVE 237 Query: 240 EVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 V+E ++ N L + V+ELELSVRS NCL+ I +G+L+ R+EA+ML+ NF Sbjct: 238 PVEEAEPMEERERLNENLYRSVDELELSVRSANCLKNAGIKLIGELVSRSEAEMLKTQNF 297 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWP-PESIEEL 332 GRKSL EIK +L MGL LGM L ++P PE + L Sbjct: 298 GRKSLNEIKDILVDMGLTLGMKLDNFPDPEIMRRL 332 >gi|193795065|gb|ACF21664.1| RpoA [Sinorhizobium sp. 72] Length = 212 Score = 312 bits (799), Expect = 5e-83, Method: Compositional matrix adjust. Identities = 147/213 (69%), 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 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 RILQDQLSVFVNFDEPQKEAEEEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 GDLIQ+TEA+MLR NFGRKSL EIK VL + G Sbjct: 180 GDLIQKTEAEMLRTPNFGRKSLNEIKEVLASSG 212 >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 = 311 bits (798), Expect = 7e-83, Method: Compositional matrix adjust. Identities = 155/337 (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 MQTKVNELLKPRHIEVTSVSDRQAK---VVLEPLERGFGHTLGNALRRILLSSIPGAAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +I+GVLHE +SI+GV ED+ DI+LN+KGI L+M +T+ K+GPGVVTAGDI Sbjct: 58 EAEIEGVLHEYTSIEGVQEDVVDILLNLKGIALRMHNRDEATLTLKKKGPGVVTAGDITL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYS 178 +D+E++NP+HVI +L + + M L + +G GY P R +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+ + + Sbjct: 178 PIRRVAYKVESARVEQRTDMDRLVIELETNGTVEADDAIRQAAGILQSQLAAFVELQGDE 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 V E K + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 STVTES---KQMEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 G+KSL EIK VL + GL +GM L +WPP +++ KK Sbjct: 295 GKKSLTEIKDVLASHGLSMGMRLENWPPPGLKDQDKK 331 >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 = 311 bits (797), Expect = 9e-83, Method: Compositional matrix adjust. Identities = 156/331 (47%), Positives = 228/331 (68%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ EL+ P I+ + + R + EPL RGF HTLG+ALRR+L+SS+ G A+T Sbjct: 1 MQRSVHELLTPRTID---VKESSATRAKVTLEPLERGFGHTLGSALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 QIDGVLHE S+I+GV ED+ +I+LN+KG+ +KM+G +T+ K+GPGVVTAGDI+ Sbjct: 58 EAQIDGVLHEYSAIEGVQEDVIEILLNLKGVAVKMNGRDDAELTLSKKGPGVVTAGDIKL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E+ NP+HVIC+L + V M L V++G GY PA + D IG + +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 EPER---VEEEEEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASL 325 >gi|193795072|gb|ACF21667.1| RpoA [Rhizobium tropici] Length = 212 Score = 311 bits (797), Expect = 9e-83, Method: Compositional matrix adjust. Identities = 149/213 (69%), 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 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 RILQDQLGVFVNFDEPQKEAEEEA-VTELAFNPALLKKVDERERSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 GDLIQ+TEA+MLR N GRKSL EIK VL +MG Sbjct: 180 GDLIQKTEAEMLRTPNLGRKSLNEIKEVLASMG 212 >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 = 311 bits (796), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 167/344 (48%), Positives = 236/344 (68%), Gaps = 14/344 (4%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 +W +L +P++I+ V+G +E ++ EPL GFA TLGNALRRV+MSSLRG A+ ++ Sbjct: 4 HWNKLTRPSSIK--VVGGKEPCVMELVIEPLESGFALTLGNALRRVMMSSLRGFAVYGIE 61 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 I+G HE++++ GV ED+ D++LN+ + +K+ + + + + RGPG VTA I D Sbjct: 62 IEGASHELTALSGVREDVADLVLNLSMLRVKLLNSNQRVLRLVARGPGEVTAASIVDSAD 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP-------IGLITIDALY 177 VLN D IC L D M++ V+ G GYVPA +R + G I +ALY Sbjct: 122 HVVLNKDLHICTLGKDVDFCMKIYVNSGKGYVPATEYRAASRSGGASEVGSGFIATNALY 181 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF--- 234 SP+KKV+ +ES+R GQ DYD+L +T++TDGS+ +D+VA+A++ILQDQL FI+F Sbjct: 182 SPVKKVALKIESSRIGQFTDYDRLMLTVETDGSVAPDDAVAVAAKILQDQLQSFISFDEV 241 Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 EE +K V ++ V LP++ LL+KV+ELELSVRS NCL+ +NI Y+GDL+QRTE+DMLR Sbjct: 242 EETRKSVDKEEGV--LPYDHNLLRKVDELELSVRSHNCLKNDNITYIGDLVQRTESDMLR 299 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 NFGRKSL EI VL +M L LGM +P+WPPESIE L+K+Y + Sbjct: 300 TPNFGRKSLNEINEVLASMNLHLGMKVPNWPPESIENLSKQYSE 343 >gi|218680479|ref|ZP_03528376.1| DNA-directed RNA polymerase subunit alpha [Rhizobium etli CIAT 894] Length = 208 Score = 311 bits (796), Expect = 1e-82, Method: Compositional matrix adjust. 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|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 = 310 bits (794), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 154/331 (46%), Positives = 225/331 (67%), Gaps = 9/331 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYS 178 +DIE+ NP+H+IC L+ + V M+LT+++G GY PA ++ E IG + +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 QAVTSDAEDE---VDPVLLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L WPP S+ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLESWPPASL 325 >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 = 310 bits (793), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 160/323 (49%), Positives = 219/323 (67%), Gaps = 2/323 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 K W+E+IKP E + ++ I PL RGF TLGN+LRR+L+SS+ G+AITAV Sbjct: 7 KFWREMIKPKGFE-VDRDSLRDDYAKFIIRPLERGFGVTLGNSLRRILLSSMMGSAITAV 65 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 + +GVLHE ++I V ED+TDIILN+K + K + I K+GPG VTA DIQT + Sbjct: 66 KFEGVLHEFTTIPDVLEDVTDIILNLKEVRFKQYTADSLTLKISKKGPGKVTAADIQTTD 125 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 IEVLNPD I L +A E+ VS G GYVP ++ T+ P+G I +DALYSPI+KV Sbjct: 126 KIEVLNPDLPIATLGANANFNAEIVVSFGRGYVPVENRETDL-PVGFIGVDALYSPIRKV 184 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y V +AR GQ DYD L++ + TDGS+ E++VAL+S+I+++QL +F+ F+E + +E Sbjct: 185 NYNVSNARVGQRTDYDALTLEVWTDGSLKPEEAVALSSKIMKEQLQIFLTFDETMEPAEE 244 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + S N L + V++LELSVRS NCL+ NI Y+G+L+ R+EA+ML+ NFGRKSL Sbjct: 245 ARELGSPTLNENLFRSVDDLELSVRSANCLKNANIRYIGELVVRSEAEMLKTKNFGRKSL 304 Query: 304 VEIKGVLGTMGLFLGMNLPDWPP 326 EIK +LG MGL LGM + WPP Sbjct: 305 NEIKEILGEMGLGLGMKIEGWPP 327 >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 = 310 bits (793), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 166/337 (49%), Positives = 232/337 (68%), Gaps = 5/337 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGA 58 ++ KNW++LIKP + V+ Q+ + T +AEPL RGF TLGN+LRRVL+SSL+GA Sbjct: 5 IVTKNWRDLIKPRGL---VVDQDSLSNTYGKFVAEPLERGFGITLGNSLRRVLLSSLQGA 61 Query: 59 AITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGD 118 AIT+V+++GV HE +I V ED+TDIILN+K + L++ + K + I GP + AGD Sbjct: 62 AITSVKVEGVEHEFMTIPEVAEDVTDIILNLKEVLLQIHTNDVKTIRIEADGPKEIKAGD 121 Query: 119 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYS 178 + T +EVLNP H I + VR E+T +G GYVPA+ ++ PIG I IDAL+S Sbjct: 122 LITDAQVEVLNPGHHILTISEGGRVRAEMTARRGRGYVPAERNKVPGSPIGTIPIDALFS 181 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI+KV+Y V +AR GQ DYDKL++ + TDGS+ D+VA A++I+++QL +FINF+E + Sbjct: 182 PIRKVNYQVTNARVGQQTDYDKLTLEVWTDGSVAPADAVAFAAKIVKEQLSIFINFDEAE 241 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + +E V+ N L + V+ELELSVRS NCL+ NI +GDL+Q+TEA+ML+ NF Sbjct: 242 EPAEEIKPVEEQKLNENLFRSVDELELSVRSANCLQNANIKTIGDLVQKTEAEMLKTKNF 301 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 GRKSL EIK +L MGL LGM L +WPP++ + A K Sbjct: 302 GRKSLKEIKEILAEMGLSLGMKLENWPPKAAPQGAPK 338 >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 = 310 bits (793), Expect = 3e-82, Method: Compositional matrix adjust. Identities = 153/310 (49%), Positives = 217/310 (70%), Gaps = 16/310 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EPL RGF HTLG ALRR+L+SS+ G AIT V+IDGV HE SSI+GV ED+ +I+LN+ Sbjct: 25 VVLEPLERGFGHTLGTALRRILISSMPGCAITEVEIDGVQHEYSSIEGVQEDVINILLNL 84 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM + + K+GPGVVTA DIQ + +E++NPDH+IC + D +R++L V Sbjct: 85 KGVALKMEDSEETTLELVKKGPGVVTANDIQRDHSVEIVNPDHLICTITGDTELRVKLKV 144 Query: 150 SKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 KG GYV A ++E+D IG + +DA YSP+++V+Y VE+AR Q D DKL + ++ Sbjct: 145 QKGRGYVAADSRQSEDDETRGIGRLQLDASYSPVRRVAYVVEAARVEQRTDLDKLVIDLE 204 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFE-----EPKKEVKEDINVKSLPFNPALLKKVE 261 TDG+I E+++ A+ ILQ Q+ +F++ E EPK+E +E +P LL+ V+ Sbjct: 205 TDGTIEPEEAIRRAATILQQQIAVFVDLEQDAKPEPKQEREE--------IDPILLRPVD 256 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L Sbjct: 257 DLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASKGLSLGMRL 316 Query: 322 PDWPPESIEE 331 +WPP S+ + Sbjct: 317 ENWPPVSLRD 326 >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 = 309 bits (792), Expect = 3e-82, Method: Compositional matrix adjust. Identities = 166/335 (49%), Positives = 230/335 (68%), Gaps = 11/335 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRT----LMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +NW++LI+P ++ E E+ T AEP RGF TLG LRRVL+SSL+GAA Sbjct: 3 RNWRDLIRPKKLQV-----ETESLTNTYGKFYAEPFERGFGTTLGTGLRRVLISSLQGAA 57 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 I +V+ GVLHE S++ GV ED+TDIILN+KG+ LK+ G+ + + I ++G GVV A DI Sbjct: 58 IVSVKAKGVLHEFSAVPGVTEDMTDIILNLKGVRLKVHGNESRMIRIVQKGEGVVKAKDI 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 T N++E+LNP+H I DA + M+L V G GYVPA +R E P+G I IDA++SP Sbjct: 118 VTDNNVEILNPEHHIATCSKDANLEMDLMVKVGKGYVPADRNRDEKAPVGTIPIDAIFSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP-K 238 + KV++TV +AR GQ+ DYDKL++ + TDGS+ +D+VA AS+IL+DQL +FINF+E + Sbjct: 178 VHKVNFTVTNARVGQITDYDKLTIEVWTDGSVKPQDAVAYASKILKDQLSIFINFDEDVE 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + + FN L + V+ELELSVRS NCL+ I +G+L+ RTEA+ML+ NF Sbjct: 238 PQEEAEPEEERERFNENLYRSVDELELSVRSANCLKNAGIKLIGELVSRTEAEMLKTQNF 297 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWP-PESIEEL 332 GRKSL EIK +L MGL LGM L ++P PE + L Sbjct: 298 GRKSLNEIKDILVDMGLTLGMKLENFPDPEIMRRL 332 >gi|332040527|gb|EGI76903.1| DNA-directed RNA polymerase subunit alpha [Hylemonella gracilis ATCC 19624] Length = 328 Score = 309 bits (791), Expect = 4e-82, Method: Compositional matrix adjust. Identities = 161/326 (49%), Positives = 217/326 (66%), Gaps = 6/326 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG NR + EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKTINVEQLGP---NRAKVALEPFERGYGHTLGNALRRVLLSSMPGYAATEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE SSI GV ED+ +I+LN+KG+ K+ +++ K G GVVTAGDIQT +D+E++ Sbjct: 62 LHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGVVTAGDIQTPHDVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYSPIKKVSY 185 NP+HVI L + M++ V KG GYVP +H ++ IG I +DA YSP+K+VSY Sbjct: 122 NPEHVIATLSAGGKLDMQIKVEKGRGYVPGTMRRHTDEQSKSIGRIVLDASYSPVKRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F + +K Sbjct: 182 AVESARVEQRTDLDKLVIEIETNGTITAEDAVRASAKILVEQLAVFAQLDGSEKIFDTPS 241 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N GRKSL E Sbjct: 242 QRSAGQFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRSENELLKTPNLGRKSLNE 301 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP ++E+ Sbjct: 302 IKEVLASRGLTLGMKLENWPPAALEK 327 >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 = 309 bits (791), Expect = 4e-82, Method: Compositional matrix adjust. Identities = 159/336 (47%), Positives = 231/336 (68%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ EL+ P NIE G+ TL +PL RGF HTLGNALRR+L+SS+ G AI Sbjct: 1 MQRSVSELLTPRNIEVQEAGKTRSKVTL---QPLERGFGHTLGNALRRILLSSMPGCAIV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+I+GV ED+ +I+LN+KG+ + + G +T+ K+GPGVVTAGDIQ Sbjct: 58 EVEIDGVLHEYSAIEGVKEDVIEILLNLKGVAIALHGQDEATLTLSKKGPGVVTAGDIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 V D E+ NPDHVI +LD A + M++ V++G GY PA +D 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|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 = 308 bits (790), Expect = 6e-82, Method: Compositional matrix adjust. Identities = 160/342 (46%), Positives = 229/342 (66%), Gaps = 11/342 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTL----MIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 KNW++LIKP ++ E+E T +AEP RGF TLGN+LRRVL+SSL+GAA Sbjct: 3 KNWRDLIKPKQLQI-----EKETLTTTYGKFVAEPFERGFGTTLGNSLRRVLLSSLQGAA 57 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 IT+V+I GV HE SSI GV ED+TDIILN+K + L+ G + I +G G++ A DI Sbjct: 58 ITSVRIKGVQHEFSSIPGVTEDVTDIILNLKSVRLRFHGADQATIRIIHKGDGIIKAADI 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 +++E++NP+ I DAV+ ME+TV G GYV A +R E P+G I IDA++SP Sbjct: 118 MVPHNVEIMNPEMHIATCGKDAVLEMEMTVKIGKGYVSADRNRDEKAPVGTIPIDAIFSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I KV++ V +AR GQ+ DYDKL++ + TDGS+ +D++A A++I+++Q+ +FINF+E + Sbjct: 178 IIKVNFVVSNARVGQMTDYDKLTLEVWTDGSVKPDDAIAYAAKIVKEQMSIFINFDEESE 237 Query: 240 EVKEDINVK-SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + +D + N L + VEELELSVRS NCL+ I +G+L+ +TEA+ML+ NF Sbjct: 238 PLFQDEAAEDDSKINENLYRTVEELELSVRSANCLKNAGIKLIGELVSKTEAEMLKTQNF 297 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWP-PESIEELAKKYEDK 339 GRKSL EIK +L MGL GM L +P PE ++ L + +D+ Sbjct: 298 GRKSLNEIKDILNEMGLTFGMKLDSFPDPEVVKRLRGEQKDE 339 >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 = 308 bits (789), Expect = 7e-82, Method: Compositional matrix adjust. Identities = 165/335 (49%), Positives = 230/335 (68%), Gaps = 11/335 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRT----LMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +NW++LI+P ++ E E+ T AEP RGF TLG LRRVL+SSL+GAA Sbjct: 3 RNWRDLIRPKKLQV-----ETESLTNTYGKFFAEPFERGFGTTLGTGLRRVLISSLQGAA 57 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 I +V+ GVLHE S++ GV ED+TDIILN+KG+ LK+ G+ + + I ++G GVV A DI Sbjct: 58 IVSVKAKGVLHEFSAVPGVTEDMTDIILNLKGVRLKVHGNESRMIRIVQKGEGVVKAKDI 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 T N++E+LNP+H I DA + M+L V G GYVPA +R E P+G I IDA++SP Sbjct: 118 ITDNNVEILNPEHHIATCSKDANLEMDLMVKVGKGYVPADRNRDEKAPVGTIPIDAIFSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP-K 238 + KV++TV +AR GQ+ DYDKL++ + TDGS+ +D+VA AS+IL+DQL +FINF+E + Sbjct: 178 VHKVNFTVTNARVGQITDYDKLTIELWTDGSVKPQDAVAYASKILKDQLSIFINFDEDVE 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + + FN L + V+ELELSVRS NCL+ I +G+L+ R+EA+ML+ NF Sbjct: 238 PQEEAEPEEERERFNENLYRSVDELELSVRSANCLKNAGIKLIGELVSRSEAEMLKTQNF 297 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWP-PESIEEL 332 GRKSL EIK +L MGL LGM L ++P PE + L Sbjct: 298 GRKSLNEIKDILVDMGLTLGMKLENFPDPEIMRRL 332 >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 = 308 bits (789), Expect = 7e-82, Method: Compositional matrix adjust. Identities = 165/335 (49%), Positives = 230/335 (68%), Gaps = 11/335 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRT----LMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +NW++LI+P ++ E E+ T AEP RGF TLG LRRVL+SSL+GAA Sbjct: 3 RNWRDLIRPKKLQV-----ETESLTNTYGKFFAEPFERGFGTTLGTGLRRVLISSLQGAA 57 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 I +V+ GVLHE S++ GV ED+TDIILN+KG+ LK+ G+ + + I ++G GVV A DI Sbjct: 58 IVSVKAKGVLHEFSAVPGVTEDMTDIILNLKGVRLKVHGNESRMIRIVQKGEGVVKAKDI 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 T N++E+LNP+H I DA + M+L V G GYVPA +R E P+G I IDA++SP Sbjct: 118 ITDNNVEILNPEHHIATCSKDANLEMDLMVKVGKGYVPADRNRDEKAPVGTIPIDAIFSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP-K 238 + KV++TV +AR GQ+ DYDKL++ + TDGS+ +D+VA AS+IL+DQL +FINF+E + Sbjct: 178 VHKVNFTVTNARVGQITDYDKLTIEVWTDGSVKPQDAVAYASKILKDQLSIFINFDEDVE 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + + FN L + V+ELELSVRS NCL+ I +G+L+ R+EA+ML+ NF Sbjct: 238 PQEEAEPEEERERFNENLYRSVDELELSVRSANCLKNAGIKLIGELVSRSEAEMLKTQNF 297 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWP-PESIEEL 332 GRKSL EIK +L MGL LGM L ++P PE + L Sbjct: 298 GRKSLNEIKDILVDMGLTLGMKLDNFPDPEIMRRL 332 >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 = 308 bits (789), Expect = 8e-82, Method: Compositional matrix adjust. Identities = 157/337 (46%), Positives = 225/337 (66%), Gaps = 2/337 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW EL+KP +E + R + EPL RGF TLGNALRRVL+SSL+GAAI A Sbjct: 13 RNWTELVKPETLERDSASTDTHGR--FVCEPLERGFGTTLGNALRRVLLSSLQGAAIVAA 70 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+GV HE S+I GV ED+T++ILN+K + L M+ + +R+T+F G V A IQ Sbjct: 71 RIEGVQHEFSTIPGVIEDVTEVILNLKQVRLAMATEDPQRLTLFANKKGEVLASAIQGNQ 130 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 ++ VL+ D +I L D R+EL V G GYV A H + IGLI +D+ +SP+KKV Sbjct: 131 NVTVLSEDVLIATLSEDRDFRIELEVRMGKGYVTADMHEGLDSEIGLILLDSSFSPVKKV 190 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +YT+E AR GQ+ +YDKL + +DTDGSI+ ED+++ +++IL+DQL +FINF+E + E + Sbjct: 191 AYTIEQARVGQMTNYDKLVLEVDTDGSISPEDAISYSAKILKDQLTVFINFDEKESEADK 250 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + NP+L K ++ELELSVR+TNCL+ NI +G+L+Q+TE +ML+ NFG+KSL Sbjct: 251 ARRRDDIELNPSLFKSIDELELSVRATNCLKSANIQTVGELMQKTENEMLKTKNFGKKSL 310 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 EI+ VL MGL GM + ++ + E L +K D+ Sbjct: 311 EEIRRVLEDMGLEFGMRIENFEQKYQEWLKRKQVDET 347 >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 = 308 bits (789), Expect = 9e-82, Method: Compositional matrix adjust. Identities = 164/330 (49%), Positives = 229/330 (69%), Gaps = 5/330 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGA 58 ++ KNW++LIKP + V+ Q+ + T +AEPL RGF TLGN+LRRVL+SSL+GA Sbjct: 5 IVTKNWRDLIKPRGL---VVDQDSLSNTYGKFVAEPLERGFGITLGNSLRRVLLSSLQGA 61 Query: 59 AITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGD 118 AIT+V+++GV HE +I V ED+TDIILN+K + L++ + K + I GP + AGD Sbjct: 62 AITSVKVEGVEHEFMTIPEVAEDVTDIILNLKEVLLQIHTNDVKTIRIEADGPKEIKAGD 121 Query: 119 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYS 178 + T +EVLNP H I + VR E+T +G GYVPA+ ++ PIG I IDAL+S Sbjct: 122 LITDAQVEVLNPGHHILTISEGGRVRAEMTARRGRGYVPAERNKIPGSPIGTIPIDALFS 181 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI+KV+Y V +AR GQ DYDKL++ + TDGS+ D+VA A++I+++QL +FINF+E + Sbjct: 182 PIRKVNYQVTNARVGQQTDYDKLTLEVWTDGSVAPADAVAFAAKIVKEQLSIFINFDEAE 241 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + +E V+ N L + V+ELELSVRS NCL+ NI +GDL+Q+TEA+ML+ NF Sbjct: 242 EPAEEIKPVEEQKLNENLFRSVDELELSVRSANCLQNANIKTIGDLVQKTEAEMLKTKNF 301 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPES 328 GRKSL EIK +L MGL LGM L +WPP++ Sbjct: 302 GRKSLKEIKEILAEMGLSLGMKLENWPPKA 331 >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 = 308 bits (788), Expect = 1e-81, Method: Compositional matrix adjust. Identities = 157/335 (46%), Positives = 225/335 (67%), Gaps = 15/335 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E + P +I+ LG R ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQSAVNEFLTPRHIDVTELGP---TRAKVVLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +DIE+ NP+ VI N+ D + M LTVS+G GY P T+ D IG + +DA +S Sbjct: 118 DHDIEIKNPELVIANITSDTSLSMRLTVSRGRGYQPVDARATDEDETRAIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--- 235 P+++++Y+VESAR Q D DKL + ++T+G+I E+++ A+ ILQ QL +F++ E Sbjct: 178 PVRRLAYSVESARVEQRTDLDKLVLDLETNGTIDPEEAIRRAATILQQQLAVFVDLEGEK 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 E + E KED +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 EAEPEQKED------QIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKT 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 N G+KSL EIK +L + GL LGM L +WPP S++ Sbjct: 292 PNLGKKSLTEIKDILASRGLSLGMRLENWPPASLK 326 >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 = 308 bits (788), Expect = 1e-81, Method: Compositional matrix adjust. Identities = 157/336 (46%), Positives = 229/336 (68%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ EL+ P NIE + TL +PL RGF HTLGNALRR+L+SS+ G AI Sbjct: 1 MQRSVSELLTPRNIEVQEISSTRAKVTL---QPLERGFGHTLGNALRRILLSSMPGCAIV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+I+GV ED+ +I+LN+KG+ + + G +T+ K+GPGVVTAGDIQ Sbjct: 58 EVEIDGVLHEYSAIEGVKEDVIEILLNLKGVAIALHGQDEATLTLSKKGPGVVTAGDIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 V D E+ NPDHVI +LD A + M++ V++G GY PA +D 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|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 = 307 bits (786), Expect = 2e-81, Method: Compositional matrix adjust. Identities = 153/306 (50%), Positives = 215/306 (70%), 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 LTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 L V++G GY PA + D IG + +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 DLETNGTIDPEEAIRRAATILQQQLAVFVDFDHEKEPER---VEEEEEIDPILLRPVDDL 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|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 = 307 bits (786), Expect = 2e-81, Method: Compositional matrix adjust. Identities = 155/331 (46%), Positives = 227/331 (68%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ EL+ P I+ G TL EPL RGF HTLG+ALRR+L+SS+ G A+T Sbjct: 1 MQRSVHELLTPRTIDVKESGSTRAKVTL---EPLERGFGHTLGSALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 QIDGVLHE S+I+GV ED+ +I+LN+KG+ +KM G + + K+GPGVVTAGDI+ Sbjct: 58 EAQIDGVLHEYSAIEGVQEDVIEILLNLKGVAVKMHGRDDAELMLSKKGPGVVTAGDIKL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E+ NP+HVIC+L + V M L++++G GY PA + D IG + +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 EPER---VEEEEEIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASL 325 >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 = 306 bits (785), Expect = 2e-81, Method: Compositional matrix adjust. Identities = 154/332 (46%), Positives = 219/332 (65%), Gaps = 9/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P I+ + ++ R + EPL RGF HTLGNALRR+L+SS+ G AIT Sbjct: 1 MQSSVNEFLTPRVIK---VDEKSTTRAQVTLEPLERGFGHTLGNALRRILLSSMPGCAIT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+EV NPDHVIC L D + + L +G GY PA D IG + +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 PIRRISYVVESARVEQRTDLDKLVIDLETNGTIDPEEAIRRAATILQQQLSVFVDLE--- 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N Sbjct: 235 SEAQTTATEQEDEVDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 G+KSL EIK VL + GL LGM L +WPP S++ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLK 326 >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 = 306 bits (785), Expect = 2e-81, Method: Compositional matrix adjust. Identities = 151/310 (48%), Positives = 216/310 (69%), Gaps = 16/310 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EPL RGF HTLG ALRR+L+SS+ G AIT V+IDGV HE SSI+GV ED+ +I+LN+ Sbjct: 25 VVLEPLERGFGHTLGTALRRILISSMPGCAITEVEIDGVQHEYSSIEGVQEDVINILLNL 84 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ L+M + + K+GPG VTA DIQ + +E++NPDH+IC + D +R++L V Sbjct: 85 KGVALQMEDREEATLELVKKGPGAVTANDIQRDHSVEIVNPDHLICTITGDTELRVKLKV 144 Query: 150 SKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 KG GYV A ++E+D IG + +DA YSP+++V+Y VE+AR Q D DKL + ++ Sbjct: 145 QKGRGYVAADSRQSEDDETRGIGRLQLDASYSPVRRVAYVVEAARVEQRTDLDKLVIDLE 204 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFE-----EPKKEVKEDINVKSLPFNPALLKKVE 261 TDG+I E+++ A+ ILQ Q+ +F++ E EPK+E +E +P LL+ V+ Sbjct: 205 TDGTIDPEEAIRRAATILQQQIAVFVDLEQDAKPEPKQEREE--------IDPILLRPVD 256 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L Sbjct: 257 DLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASKGLSLGMRL 316 Query: 322 PDWPPESIEE 331 +WPP S+ + Sbjct: 317 ENWPPVSLRD 326 >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 = 306 bits (783), Expect = 3e-81, Method: Compositional matrix adjust. Identities = 157/337 (46%), Positives = 225/337 (66%), Gaps = 2/337 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW EL+KP ++ E R + EPL RGF TLGNALRRVL+SSL+GAAI A Sbjct: 13 RNWTELVKPEVLDKDPSSTETFGR--FVCEPLERGFGTTLGNALRRVLLSSLQGAAIVAA 70 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+GV HE S+I GV ED+T+IILN+K + L M+ D +R+T+ + G V A IQ + Sbjct: 71 RIEGVQHEFSTIPGVIEDVTEIILNLKQVRLAMATDEPQRLTLLAKEKGEVRASAIQGNH 130 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 ++ VL+ D +I L D R++L V G GYVPA H IGLI +DA +SP+KKV Sbjct: 131 NVSVLSEDVLIATLSEDRDFRIDLEVRMGKGYVPADMHEGLESEIGLILLDASFSPVKKV 190 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +YT+E AR GQ+ +YDKL + + TDGSI ED+++ +++IL+DQL +FINF+E + E ++ Sbjct: 191 AYTIEQARVGQMTNYDKLVLEVTTDGSIAPEDAISYSAKILKDQLTVFINFDEKESEAEK 250 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + NP+L K ++ELELSVR+TNCL+ NI +G+L+Q+TE +ML+ NFG+KS Sbjct: 251 NRRRDDIELNPSLFKSIDELELSVRATNCLKSANIQTVGELMQKTEHEMLKTKNFGKKSF 310 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 EI+ VL MGL GM + ++ + E L +K D+ Sbjct: 311 EEIRRVLEDMGLEFGMRIENFDQKYQEWLKRKQTDEA 347 >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 = 306 bits (783), Expect = 4e-81, Method: Compositional matrix adjust. Identities = 163/334 (48%), Positives = 219/334 (65%), Gaps = 11/334 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ R + +P RGF HTLGNALRR+L+SS+ G A T Sbjct: 1 MQNSTAEFLKPRQIDVNTFSA---TRAKVSMQPFERGFGHTLGNALRRILLSSMNGFAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 178 +D+E+LNPDHVIC+L + + ME+ V +G GY R EN IG I +DA +S Sbjct: 118 PHDVEILNPDHVICHLADNGQIEMEIKVEQGRGYQSVSGRQAVRDENRQIGAIQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EP 237 PI +VS+ VE AR Q D DKL + I+TDGSI E++V A+RIL DQ+ +F N + P Sbjct: 178 PISRVSFEVEPARVEQRTDLDKLVLDIETDGSIDPEEAVRSAARILIDQMSIFANLQGTP 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 +EV+E K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N Sbjct: 238 VEEVEE----KAPPIDPVLLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 294 LGRKSLNEIKEVLASKGLTLGSKLEAWPPAGLEK 327 >gi|311693295|gb|ADP96168.1| DNA-directed RNA polymerase subunit alpha [marine bacterium HP15] Length = 319 Score = 305 bits (781), Expect = 6e-81, Method: Compositional matrix adjust. Identities = 151/307 (49%), Positives = 216/307 (70%), Gaps = 6/307 (1%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 R + EPL RGF HTLG+ALRR+L+SS+ G A+T QIDGVLHE S+I+GV ED+ +I Sbjct: 7 TRAKVTLEPLERGFGHTLGSALRRILLSSMPGCAVTEAQIDGVLHEYSAIEGVQEDVIEI 66 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 +LN+KG+ +KM+G +T+ K+GPGVVTAGDI+ +D+E+ NP+HVIC+L + V M Sbjct: 67 LLNLKGVAVKMNGRDDAELTLSKKGPGVVTAGDIKLDHDVEIANPEHVICHLSENGEVNM 126 Query: 146 ELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 L V++G GY PA + D IG + +DA +SP+++V+Y VESAR Q D DKL Sbjct: 127 RLRVARGRGYEPADQRGLDEDETRAIGRLQLDATFSPVRRVAYAVESARVEQRTDLDKLV 186 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + ++T+G+I E+++ A+ ILQ QL +F++F+ K+ + + +P LL+ V++ Sbjct: 187 IDLETNGTIDPEEAIRRAATILQQQLAVFVDFDHEKEPER---VEEEEEIDPILLRPVDD 243 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G+KSL EIK VL + GL LGM L Sbjct: 244 LELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLD 303 Query: 323 DWPPESI 329 +WPP S+ Sbjct: 304 NWPPASL 310 >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 = 305 bits (781), Expect = 7e-81, Method: Compositional matrix adjust. Identities = 162/333 (48%), Positives = 219/333 (65%), Gaps = 19/333 (5%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP +I LG NR + EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKSISVEQLGP---NRAKVALEPFERGYGHTLGNALRRVLLSSMPGFAATEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE SSI GV ED+ +I+LN+KG+ K+ +++ K GVVTA DIQT +D+E++ Sbjct: 62 LHEYSSIDGVQEDVVNILLNLKGVVFKLHNREEVTLSLRKDTEGVVTAADIQTPHDVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NP+HVI NL + M++ V KG GYVP R ++P IG I +DA +SP+++VSY Sbjct: 122 NPEHVIANLSHGGKLDMQIKVEKGRGYVPGSMRRYADEPNKSIGRIVLDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVESAR Q D DKL + I+T+G++T ED+V +++IL +QL +F E ++ Sbjct: 182 TVESARVEQRTDLDKLVVEIETNGAVTAEDAVRASAKILVEQLAVFAQLE------GSEL 235 Query: 246 NVKSLP-------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + P F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 236 DAFTAPAPRGNTQFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKTPNL 295 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LGM L WPP S+E+ Sbjct: 296 GRKSLNEIKEVLASRGLTLGMKLESWPPASLEK 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 = 304 bits (779), Expect = 1e-80, Method: Compositional matrix adjust. Identities = 155/332 (46%), Positives = 220/332 (66%), Gaps = 9/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E + P I + ++ R L+ EPL RGF HTLGNALRR+L+SS+ G AIT Sbjct: 1 MQSAVNEFLTP---RVITVDEKSNTRALVTLEPLERGFGHTLGNALRRILLSSMPGCAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 VQIDGVLHE S+I+GV ED+ +I+LN+K + + ++G +T+ K+ PG VTAGDI Sbjct: 58 EVQIDGVLHEYSTIEGVQEDVIEILLNLKDVAVVLNGKDEAELTLSKKEPGPVTAGDITL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E+ NPDHVICN+ + V ++L VS+G GY PA E D IG + +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 EAEAVVEEDEVDPI---LLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 G+KSL EIK VL + GL LGM L +WPP S++ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLK 326 >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 = 303 bits (777), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 156/335 (46%), Positives = 228/335 (68%), Gaps = 11/335 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRT----LMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 KNW++LI+P +++ E+E+ + AEP RGFA TLGN+LRR+L+SSL+G+A Sbjct: 3 KNWRDLIRPKQLQF-----EKESLSDTYGKFFAEPFERGFATTLGNSLRRILLSSLQGSA 57 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 IT+V+I GVLHE S+I+GV ED+TDIILN+KG+ LK+ + + G GVV AGD Sbjct: 58 ITSVRIKGVLHEFSAIQGVTEDVTDIILNLKGVRLKLHSVVQATIRVVHTGEGVVKAGDF 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 +++E++NP+H I DA M++TV G GYV A +R E P+G I ID+++SP Sbjct: 118 VVGHNVEIMNPEHHIATCGKDAHFEMDMTVKMGKGYVSADKNRDEKAPVGTIPIDSIFSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 IKKV++T+ +AR GQ+ DYDKL++ I TDGS+ +D++A +++I+++QL +FINF+E + Sbjct: 178 IKKVNFTISNARVGQMTDYDKLTLEIWTDGSVKPDDALAYSAKIMKEQLSIFINFDEEAE 237 Query: 240 EVKEDINVKSL-PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + N L + VEELELSVRS NCL+ I +G+L+ +TEA+ML+ NF Sbjct: 238 PQAPEESQDEIDKINENLYRTVEELELSVRSANCLKNAGIKLIGELVSKTEAEMLKTQNF 297 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWP-PESIEEL 332 GRKSL EIK +L MGL GM L +P P+ + L Sbjct: 298 GRKSLNEIKDILSDMGLTFGMKLDSFPEPDMLRRL 332 >gi|2896137|gb|AAC03116.1| DNA-directed RNA polymerase alpha chain [Pseudomonas aeruginosa] Length = 358 Score = 303 bits (777), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 156/336 (46%), Positives = 227/336 (67%), Gaps = 15/336 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ Q TL EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQSSVNEFLTPRHIDVQVVSQTRAKITL---EPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++N DHVI NL + + M+L V++G GY PA +++ D IG + +DA +S Sbjct: 118 DHDVEIINGDHVIANLADNGALNMKLKVARGRGYEPADARQSDEDESRSIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--- 235 P+++VSY VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRVSYVVENARVEQRTNLDKLVLDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 EP E +ED +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 EPVVEEQED------EIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKT 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP S+ E Sbjct: 292 PNLGKKSLTEIKDVLASRGLSLGMRLDNWPPASLTE 327 >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 = 303 bits (777), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 154/336 (45%), Positives = 228/336 (67%), Gaps = 15/336 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ Q R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQSSVNEFLTPRHIDVQVVSQ---TRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++N DHVI NL + + M+L V++G GY PA +++ D IG + +DA +S Sbjct: 118 DHDVEIINGDHVIANLADNGALNMKLKVARGRGYEPADARQSDEDESRSIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--- 235 P+++VSY VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRVSYVVENARVEQRTNLDKLVLDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 EP E +ED +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 EPVVEEQED------EIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKT 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP S+++ Sbjct: 292 PNLGKKSLTEIKDVLASRGLSLGMRLDNWPPASLKK 327 >gi|49087442|gb|AAT51459.1| PA4238 [synthetic construct] Length = 334 Score = 303 bits (777), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 154/336 (45%), Positives = 228/336 (67%), Gaps = 15/336 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ Q R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQSSVNEFLTPRHIDVQVVSQ---TRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++N DHVI NL + + M+L V++G GY PA +++ D IG + +DA +S Sbjct: 118 DHDVEIINGDHVIANLADNGALNMKLKVARGRGYEPADARQSDEDESRSIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--- 235 P+++VSY VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRVSYVVENARVEQRTNLDKLVLDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 EP E +ED +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 EPVVEEQED------EIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKT 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP S+++ Sbjct: 292 PNLGKKSLTEIKDVLASRGLSLGMRLDNWPPASLKK 327 >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 = 303 bits (776), Expect = 3e-80, Method: Compositional matrix adjust. Identities = 153/332 (46%), Positives = 221/332 (66%), Gaps = 3/332 (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 +++ S+ NP L K ++ELELSVR+TNCL+ NI +G+L+QRTE ML+ NFGRKSL Sbjct: 251 EVD-SSIDLNPNLFKSIDELELSVRATNCLKAANIQLVGELVQRTEQAMLKTKNFGRKSL 309 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 EI+ VL +M L GM + D+ + E L +K Sbjct: 310 DEIRRVLDSMSLKFGMGVEDFDKKYQEWLKRK 341 >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 = 303 bits (775), Expect = 3e-80, Method: Compositional matrix adjust. Identities = 156/337 (46%), Positives = 225/337 (66%), Gaps = 2/337 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW EL+KP +E + R + EPL RGF TLGNALRRVL+SSL+GAAI A Sbjct: 13 RNWTELVKPEKLEKDPGATDTFGR--FVCEPLERGFGTTLGNALRRVLLSSLQGAAIVAA 70 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+GV HE S+I GV ED+T+IILN+K + L M+ + +R+T+F G V A IQ Sbjct: 71 RIEGVQHEFSTIPGVIEDVTEIILNLKQVRLAMTTEDPQRLTLFANQKGEVLASAIQGNQ 130 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 ++ VL+ D +I L D R++L V G GYVPA H + IGLI +D+ +SP+KKV Sbjct: 131 NVTVLSDDVLIATLSEDRDFRIDLEVRMGKGYVPADMHEGLDSEIGLILLDSSFSPVKKV 190 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +YT+E AR GQ+ +YDKL + + TDGSI+ +D+++ +++IL+DQL +FINF+E + E + Sbjct: 191 AYTIEQARVGQMTNYDKLVLEVGTDGSISPDDAISYSAKILKDQLTVFINFDEKESEADK 250 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + NP+L K ++ELELSVR+TNCL+ NI +G+L+Q+TE +ML+ NFG+KSL Sbjct: 251 ARRRDDIELNPSLFKSIDELELSVRATNCLKSANIQTVGELMQKTENEMLKTKNFGKKSL 310 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 EI+ VL MGL GM + ++ + E L +K D+ Sbjct: 311 EEIRRVLEDMGLEFGMRIENFEQKYQEWLKRKQVDET 347 >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 = 302 bits (774), Expect = 4e-80, Method: Compositional matrix adjust. Identities = 160/327 (48%), Positives = 219/327 (66%), Gaps = 7/327 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I +G NR + EP RG+ HTLGNALRRVL++S+ G A T V I GV Sbjct: 5 LLKPKAINVEQMGG---NRAKVALEPFERGYGHTLGNALRRVLLASMPGYAATEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE SSI GV ED+ +I+LN+KG+ K+ +++ K G G+VTA DIQT +D+E++ Sbjct: 62 LHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGLVTASDIQTPHDVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NPDHVI +L + M++ V KG GYVP R ++P IG I +DA +SP+K+VSY Sbjct: 122 NPDHVIAHLSQGGKLDMQIKVEKGRGYVPGTMRRHGDEPTKSIGRIILDASFSPVKRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVESAR Q D DKL + I+T+G+I+ ED+V +++IL +QL +F E + + Sbjct: 182 TVESARVEQRTDLDKLVVDIETNGAISAEDAVRASAKILVEQLAVFAQLEGSELAAFDTP 241 Query: 246 NVK-SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + S F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 242 SPRGSTQFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLN 301 Query: 305 EIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L WPP ++E+ Sbjct: 302 EIKEVLASRGLTLGMKLESWPPAALEK 328 >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 = 302 bits (774), Expect = 4e-80, Method: Compositional matrix adjust. Identities = 155/332 (46%), Positives = 221/332 (66%), Gaps = 9/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E + P I + ++ R + EPL RGF HTLGNALRR+L+SS+ G AIT Sbjct: 1 MQSAVNEFLTP---RVINVDEKNSTRAQVTLEPLERGFGHTLGNALRRILLSSMPGCAIT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYS 178 +DIE+ NPDHVIC+L+ + + M+LTV++G GY PA E IG + +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 ESESVEEEDEVDPI---LLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 G+KSL EIK VL + GL LGM L +WPP S++ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLK 326 >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 = 302 bits (774), Expect = 4e-80, Method: Compositional matrix adjust. Identities = 154/336 (45%), Positives = 228/336 (67%), Gaps = 15/336 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ TL EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVVSPTRAKITL---EPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + + M+LTV++G GY PA +T+ D IG + +DA +S Sbjct: 118 DHDVEIVNPDHVIANLASNGALNMKLTVARGRGYEPADSRQTDEDESRSIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--- 235 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 EP +ED +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 EPVVVEQED------EIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKT 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP S+++ Sbjct: 292 PNLGKKSLTEIKDVLASRGLSLGMRLDNWPPASLKK 327 >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 = 302 bits (773), Expect = 5e-80, Method: Compositional matrix adjust. Identities = 163/327 (49%), Positives = 220/327 (67%), Gaps = 5/327 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 + KNW +LI+P +E + + NR EPL RGF TLGNALRRVL+SSLRG A Sbjct: 1 MHKNWTDLIRPKKLE---IDPDTHNRFYGKFTCEPLERGFGATLGNALRRVLLSSLRGTA 57 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 IT+V+I G+ HE S I GV ED+T++ILN+K + KM K + + R G VTAG Sbjct: 58 ITSVKIKGIHHEFSPIPGVIEDVTEVILNLKAVRFKMHSQEEKVIYLEAREEGEVTAGAF 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 +T IE+LNPD I L D + +E TV G GY PA+ ++ E IG I +DA++SP Sbjct: 118 KTDGTIEILNPDSHIATLARDGELFIEATVKSGKGYRPAEENKQEGQSIGTIPVDAIFSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I+KV++ V AR GQ DYDKL++ + TDGS++ ED+VALA++IL++QL +FINFEEP + Sbjct: 178 IRKVNHIVTQARVGQQTDYDKLTLEVWTDGSVSPEDAVALAAKILKEQLTIFINFEEPCE 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 E +E + N L + V ELELSVRS NCL+ NI ++G+L+Q++EA+ML+ NFG Sbjct: 238 ETEEKPATEISRLNENLFRPVNELELSVRSANCLKNANIRFIGELVQKSEAEMLKTKNFG 297 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPP 326 RKSL EIK +L MGL LGM L ++PP Sbjct: 298 RKSLNEIKEILSEMGLNLGMKLENFPP 324 >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 = 301 bits (772), Expect = 7e-80, Method: Compositional matrix adjust. Identities = 157/318 (49%), Positives = 215/318 (67%), Gaps = 2/318 (0%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +IKP E + ++ I PL RGF TLGN+LRR+L+SS+ G+AITAV+ +GV Sbjct: 1 MIKPKGFE-VDRDSLRDDYAKFIIRPLERGFGVTLGNSLRRILLSSMMGSAITAVKFEGV 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 ++ T+ P+G I +DALYSPI+KV+Y V Sbjct: 120 NPDLPIATLGANANFNAEIVVSFGRGYVPVENRETDL-PVGFIGVDALYSPIRKVNYNVS 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 VLGTMGLFLGMNLPDWPP 326 +LG MGL LGM + WPP Sbjct: 299 ILGEMGLGLGMKIEGWPP 316 >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 = 301 bits (771), Expect = 9e-80, Method: Compositional matrix adjust. Identities = 158/327 (48%), Positives = 221/327 (67%), Gaps = 11/327 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +NW +LI P +E + Q+ + I +PL RGFA T+GN+LRR+L+SS+RGAAIT Sbjct: 10 RNWHDLIFPEKLE---VDQDTHTASFGKFICQPLERGFATTIGNSLRRILLSSIRGAAIT 66 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V+I+GVLHE+S+I G+ ED T+IILN+K + L++ K V I K+ GVVTAGDI Sbjct: 67 SVKIEGVLHELSTIPGIKEDATEIILNLKEVRLRLHSGEAKTVRIEKKKKGVVTAGDIIG 126 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +EV+NP+ IC + D EL V G GYVPA+ ++ E+ PIG+I +D++++PI+ Sbjct: 127 DPQVEVMNPEQHICTITGDGKFDAELEVDWGKGYVPAERNKREDQPIGVIPLDSVFTPIR 186 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE----P 237 V AR GQ DYDKL++ I TDGSI ED++A A++IL++Q+ +FINF+E P Sbjct: 187 NVRVITSQARVGQQTDYDKLTLEITTDGSILPEDALAYAAKILKEQMQVFINFDESAVVP 246 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 K+ KE L N L + VE+LELSVRS NCLR I ++G+L+Q+TEA+ML+ N Sbjct: 247 VKKEKESGEQPQL--NENLYRSVEDLELSVRSANCLRNAEIRHIGELVQKTEAEMLKTKN 304 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDW 324 FGRKSL EIK +L M L+LGM + W Sbjct: 305 FGRKSLNEIKQLLSEMDLYLGMKIDGW 331 >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 = 301 bits (771), Expect = 9e-80, Method: Compositional matrix adjust. Identities = 162/325 (49%), Positives = 221/325 (68%), Gaps = 5/325 (1%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +NW+ELIKP IE + QE T + EPL RGF T+GNALRR+L+SSL+GAAI Sbjct: 7 RNWRELIKPKRIE---IDQETNTSTYGKFVCEPLERGFGITIGNALRRILLSSLQGAAIV 63 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V+ + V+HE SS+ GV ED+TDIILN+K I LK + + + G G+VTAGDI+T Sbjct: 64 SVKFEDVVHEFSSMPGVLEDVTDIILNLKEIKLKTLDVEEAVIKVNREGEGIVTAGDIET 123 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +EVL P I L+ + + ME+ V G GYVPA+ + EN PIG+I IDA +S +K Sbjct: 124 DGSVEVLEPVQHIATLNKEGKLNMEMVVKMGKGYVPAERLKEENTPIGVIAIDATFSCVK 183 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KV+Y V ++R GQV DYDKL++ + TDGS+ ED+VA A++IL++Q+ FINFEE + V Sbjct: 184 KVNYVVTNSRVGQVTDYDKLTLEVWTDGSVFPEDAVAFAAKILKEQMNPFINFEEEIEPV 243 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +E+ + N L + V +LELSVRS NCL+ I +G+L+Q+T+A+ML+ NFGRK Sbjct: 244 EEEEVREDQEVNENLFRPVSDLELSVRSANCLQNAKINLIGELVQKTDAEMLKTKNFGRK 303 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPP 326 SL EIK +L MGL LGM L +PP Sbjct: 304 SLNEIKAILSDMGLSLGMKLDFFPP 328 >gi|221133740|ref|ZP_03560045.1| DNA-directed RNA polymerase subunit alpha [Glaciecola sp. HTCC2999] Length = 326 Score = 301 bits (770), Expect = 1e-79, Method: Compositional matrix adjust. Identities = 148/308 (48%), Positives = 217/308 (70%), Gaps = 8/308 (2%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 R ++ EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I Sbjct: 21 TRAKVVLEPLERGFGHTLGNALRRILLSSMPGVAVTEVEIDGVLHEYSTKEGVQEDVIEI 80 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 +LN+KG+ +++ G + +T+ K G G V AGDIQ D+E++NP+HVIC L +A V M Sbjct: 81 LLNLKGLAVRLEGKTEATLTLVKSGAGAVVAGDIQHDGDVEIINPEHVICTLTGEAEVSM 140 Query: 146 ELTVSKGHGYVPAKHHRT--END-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + V G GYVPA R+ E+D PIG + +DA +SP+++++Y+VESAR Q D DKL Sbjct: 141 RIKVETGRGYVPASVRRSSEEDDRPIGRLLVDASFSPVERIAYSVESARVEQRTDLDKLI 200 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEE-PKKEVKEDINVKSLPFNPALLKKVE 261 + ++T+G++ E+++ ++ IL +QL F++ + + E KE+ F+P LL+ V+ Sbjct: 201 IDMETNGTLDPEEAIRRSATILAEQLDAFVDLRDVSQPEAKEE----KPEFDPILLRPVD 256 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +LEL+VRS NCL+ E + Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L Sbjct: 257 DLELTVRSANCLKAEAVQYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRL 316 Query: 322 PDWPPESI 329 +WPPESI Sbjct: 317 ENWPPESI 324 >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 = 301 bits (770), Expect = 1e-79, Method: Compositional matrix adjust. Identities = 153/336 (45%), Positives = 229/336 (68%), Gaps = 15/336 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ TL EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVVSPTRAKITL---EPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + V+ M+LTV++G GY PA +++ D IG + +D+ +S Sbjct: 118 DHDVEIVNPDHVIANLASNGVLNMKLTVARGRGYEPADSRQSDEDESRSIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--- 235 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 EP +ED +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 EPVVIEQED------EIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKT 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP S+++ Sbjct: 292 PNLGKKSLTEIKDVLASRGLSLGMRLDNWPPASLKK 327 >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 = 301 bits (770), Expect = 1e-79, Method: Compositional matrix adjust. Identities = 162/331 (48%), Positives = 217/331 (65%), Gaps = 14/331 (4%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG NR + EP RG+ HTLGNA+RRVL+SS+ G A T V I GV Sbjct: 5 LLKPKAINVEQLGH---NRAKVALEPFERGYGHTLGNAIRRVLLSSMVGYAATEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE SSI GV ED+ +I+LN+KG+ K+ +++ K G GVVTA DIQT +D+E++ Sbjct: 62 LHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGVVTARDIQTPHDVEIV 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSY 185 NPDHVI NL + M++ V KG GYVP R ++ IG I +DA +SP+K+VSY Sbjct: 122 NPDHVIANLSAGGKLDMQIKVEKGRGYVPGNLRRYADESTKSIGRIVLDASFSPVKRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F E + Sbjct: 182 TVESARVEQRTDLDKLVVEIETNGAITAEDAVRASAKILVEQLAVFAQLEGGELAA---F 238 Query: 246 NVKSLP-----FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + P F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GR Sbjct: 239 DAPAGPRGNATFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 KSL EIK VL + GL LGM L +WPP +++ Sbjct: 299 KSLNEIKEVLASRGLTLGMKLENWPPAGLDK 329 >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 = 301 bits (770), Expect = 1e-79, Method: Compositional matrix adjust. Identities = 154/328 (46%), Positives = 223/328 (67%), Gaps = 9/328 (2%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 N E +KP ++ + Q + R ++ EPL RGF HTLGNALRR+L+SS+ GAA+T VQ Sbjct: 4 NVNEFLKPRLVD---VQQLSDTRAKVVLEPLERGFGHTLGNALRRILLSSMPGAAVTEVQ 60 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 IDGVLHE ++I+GV ED+ +I+LN+K + + ++ + +++ K+G G V AGDIQ +D Sbjct: 61 IDGVLHEYTTIEGVQEDVLEILLNLKNLAIVLNAKNEAVLSLSKKGKGPVKAGDIQADHD 120 Query: 125 IEVLNPDHVICNLDVDAV-VRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIK 181 +E++NPD VI NL D+ + M L V KG GY PA R E + +G + +DA YSP+ Sbjct: 121 VEIVNPDFVIANLTQDSSELSMTLKVKKGRGYEPASQRREEAETAAVGTLQLDASYSPVY 180 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +V+YTV+SAR Q D DKL + ++T+G+I E+S+ A+ ILQ+Q+ +F++ + Sbjct: 181 RVAYTVDSARVEQRTDLDKLIIDLETNGTIDPEESIRRAATILQEQISVFVDLQAEDVSE 240 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +ED + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G+K Sbjct: 241 EED---DASDIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNLGKK 297 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESI 329 SL EIK VL GL LGM L +WPP SI Sbjct: 298 SLTEIKDVLAQHGLSLGMRLENWPPASI 325 >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 = 300 bits (769), Expect = 1e-79, Method: Compositional matrix adjust. Identities = 162/330 (49%), Positives = 216/330 (65%), Gaps = 10/330 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG NR ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKTINVEQLGH---NRAKVVLEPFERGYGHTLGNALRRVLLSSMVGYAATEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE SSI GV ED+T+I+LN+KG+ K+ +++ K G GVVTA DIQT +D+E++ Sbjct: 62 LHEYSSIDGVQEDVTNILLNLKGVVFKLHNRDEVTLSLRKDGEGVVTARDIQTPHDVEIV 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSY 185 NPDHVI +L + M++ V KG GYVP R ++ IG I +DA +SP+K+VSY Sbjct: 122 NPDHVIAHLSQGGKLDMQIKVEKGRGYVPGNVRRYGDESTKSIGRIVLDASFSPVKRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F + D Sbjct: 182 AVESARVEQRTDLDKLVLEIETNGAITAEDAVRASAKILVEQLAVFAQLDGGDIASVFDA 241 Query: 246 NV----KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRK Sbjct: 242 PAGGRGAATSFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRK 301 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 SL EIK VL + GL LGM L +WPP +E+ Sbjct: 302 SLNEIKEVLASRGLTLGMKLENWPPAGLEK 331 >gi|301628933|ref|XP_002943603.1| PREDICTED: DNA-directed RNA polymerase subunit alpha-like [Xenopus (Silurana) tropicalis] Length = 332 Score = 300 bits (769), Expect = 2e-79, Method: Compositional matrix adjust. Identities = 164/336 (48%), Positives = 220/336 (65%), Gaps = 22/336 (6%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I+ LG NR + EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKTIQVEQLGH---NRAKVELEPFERGYGHTLGNALRRVLLSSMVGYAATEVTIVGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE SSI GV ED+ +I+LN+KG+ K+ +++ K G GVVTA DIQT +D+E++ Sbjct: 62 LHEYSSIDGVQEDVVNILLNLKGVVFKLYNRDEVTLSLRKDGEGVVTARDIQTPHDVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NPDHVI +L A + M++ V KG GYVP R ++P IG I +DA +SP+K+VSY Sbjct: 122 NPDHVIAHLSQGAKLDMQIKVEKGRGYVPGNVRRYGDEPTKTIGRIVLDASFSPVKRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVESAR Q D DKL + I+T+G+IT E++V +++IL +QL +F E DI Sbjct: 182 TVESARVEQRTDLDKLVVEIETNGAITAEEAVRASAKILVEQLAVFAQLE------GGDI 235 Query: 246 N----------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + + F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 236 DGMLIGSGASRSSATTFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKT 295 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N GRKSL EIK VL + GL LGM L +WPP +++ Sbjct: 296 PNLGRKSLNEIKEVLASRGLTLGMKLENWPPAGLDK 331 >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 = 300 bits (769), Expect = 2e-79, Method: Compositional matrix adjust. Identities = 153/336 (45%), Positives = 229/336 (68%), Gaps = 15/336 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ TL EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVVSPTRAKITL---EPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + V+ M+LTV++G GY PA +++ D IG + +D+ +S Sbjct: 118 DHDVEIVNPDHVIANLASNGVLNMKLTVARGRGYEPADSRQSDEDESRSIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--- 235 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDMETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 EP +ED +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 EPVVIEQED------EIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKT 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP S+++ Sbjct: 292 PNLGKKSLTEIKDVLASRGLSLGMRLDNWPPASLKK 327 >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 = 300 bits (769), Expect = 2e-79, Method: Compositional matrix adjust. Identities = 159/334 (47%), Positives = 219/334 (65%), Gaps = 11/334 (3%) 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYS 178 +D+E++NP+HVIC+L + + ME+ V +G GY R EN IG I +DA +S Sbjct: 118 PHDVEIINPEHVICHLSDNGQIEMEIKVEQGRGYQSVSGRRVFRDENKQIGAIQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EP 237 PI +VS+ VE AR Q D DKL + I+TDGS+ E++V A+RIL DQ+ +F + + P Sbjct: 178 PISRVSFEVEPARVEQRTDLDKLVLDIETDGSLDPEEAVRSAARILIDQMSIFADLQGTP 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 +E++E K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N Sbjct: 238 VEEIEE----KAPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 294 LGRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 327 >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 = 300 bits (769), Expect = 2e-79, Method: Compositional matrix adjust. Identities = 162/330 (49%), Positives = 215/330 (65%), Gaps = 10/330 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG NR ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKTINVEQLGH---NRAKVVLEPFERGYGHTLGNALRRVLLSSMVGYAATEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE SSI GV ED+ +I+LN+KG+ K+ +++ K G GVVTA DIQT +D+E++ Sbjct: 62 LHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGVVTARDIQTPHDVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSY 185 NPDHVI NL + M++ V KG GYVP R ++ IG I +DA +SP+K+VSY Sbjct: 122 NPDHVIANLSQGGKLDMQIKVEKGRGYVPGNVRRYGDESTKSIGRIVLDASFSPVKRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F + D Sbjct: 182 AVESARVEQRTDLDKLVVEIETNGAITAEDAVRASAKILVEQLAVFAQLDGGDIASVFDA 241 Query: 246 NV----KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRK Sbjct: 242 PAGGRGAATAFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRK 301 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 SL EIK VL + GL LGM L +WPP +E+ Sbjct: 302 SLNEIKEVLASRGLTLGMKLENWPPAGLEK 331 >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 = 300 bits (769), Expect = 2e-79, Method: Compositional matrix adjust. Identities = 161/339 (47%), Positives = 225/339 (66%), Gaps = 17/339 (5%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRT----LMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +NW EL+KP+ I +EEE + + EPL RG+ T+GNA+RRVL++SL+GAA Sbjct: 13 RNWSELVKPDQIL-----REEETASGTHGKFVCEPLERGYGTTIGNAMRRVLLASLQGAA 67 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +V+I GV HE ++I GV ED+TD+ILNIK + L+M + +R+T+ G VTA DI Sbjct: 68 FVSVKIIGVQHEFTTIHGVLEDITDVILNIKQVRLRMDTEEPQRLTLRVERKGPVTAADI 127 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 +EVLNPD I L D V+ MEL V G GYVPA H D IGLI +D+ +SP Sbjct: 128 VANQHVEVLNPDLHIATLTEDVVLEMELEVRMGKGYVPADMHEGLADEIGLIKLDSSFSP 187 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 ++KV+YTVE AR GQ+ +YD+L + + TDGS+T ED++A +++I++DQ+ +FINF+E Sbjct: 188 VRKVAYTVEQARVGQMTNYDRLLLEVWTDGSLTPEDAIAYSAKIIKDQISVFINFDERVS 247 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + + +S N L K +++LELSVR+TNCLR NI +G+L+QRTEA+ML+ NFG Sbjct: 248 GDMRNGSGESGEVNEHLFKSIDDLELSVRATNCLRSANIGLVGELVQRTEAEMLKTKNFG 307 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 RKSL EIKGVL MGL GM ++ KKY++ Sbjct: 308 RKSLDEIKGVLLGMGLDFGMK--------VDSFDKKYQE 338 >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 = 300 bits (767), Expect = 2e-79, Method: Compositional matrix adjust. Identities = 157/337 (46%), Positives = 224/337 (66%), Gaps = 3/337 (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 AYSVEQARVGQMTNYDKLIIEVFTDGSVTPEDAIAYSAKILKDQLSVFINFDEMGSE-QE 249 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + L NP L K ++ELELSVR+TNCL+ NI +G+L+QRTE ML+ NFGRKSL Sbjct: 250 ESKESDLDLNPNLFKSIDELELSVRATNCLKAANIRIVGELVQRTEQTMLKTKNFGRKSL 309 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 EI+ VL +M L GM L D+ + E L +K +++ Sbjct: 310 DEIRRVLDSMELKFGMVLEDFDKKHQEWLKRKEKNEA 346 >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 = 300 bits (767), Expect = 3e-79, Method: Compositional matrix adjust. Identities = 154/332 (46%), Positives = 225/332 (67%), Gaps = 9/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ + + P +I+ + + NR + EPL RGF HTLGNALRR+L+SS+ GAAIT Sbjct: 1 MQRSANDFLTPRHID---VQEVNANRAKITLEPLERGFGHTLGNALRRILLSSMPGAAIT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 + +EV NPDHVI +L A V M L V+ G GYVPA+ +E D PIG + +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 K +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EAVQEKEEDK---IDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 G+KSL EIK VL + GL LGM L WPP S++ Sbjct: 295 GKKSLTEIKDVLASKGLSLGMVLEAWPPASLK 326 >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 = 300 bits (767), Expect = 3e-79, Method: Compositional matrix adjust. Identities = 152/336 (45%), Positives = 228/336 (67%), Gaps = 15/336 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ TL EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVVSPTRAKITL---EPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + + M+LTV++G GY PA +++ D IG + +D+ +S Sbjct: 118 DHDVEIVNPDHVIANLASNGALNMKLTVARGRGYEPADSRQSDEDESRSIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--- 235 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 EP +ED +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 EPVVVEQED------EIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKT 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP S+++ Sbjct: 292 PNLGKKSLTEIKDVLASRGLSLGMRLDNWPPASLKK 327 >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 = 300 bits (767), Expect = 3e-79, Method: Compositional matrix adjust. Identities = 160/334 (47%), Positives = 218/334 (65%), Gaps = 11/334 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ R + +P RGF HTLGNALRR+L+SS+ G A T Sbjct: 1 MQNSTTEFLKPRQIDVNTFSA---TRAKVSMQPFERGFGHTLGNALRRILLSSMNGFAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 178 +D+E+LNP HVIC+L + + ME+ V +G GY R EN IG I +DA +S Sbjct: 118 PHDVEILNPGHVICHLADNGQIEMEIKVEQGRGYQSVSGRQVVRDENRQIGAIQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EP 237 PI +VS+ VE AR Q D DKL + I+TDGSI E++V A+RIL DQ+ +F + + P Sbjct: 178 PISRVSFEVEPARVEQRTDLDKLVLDIETDGSIDPEEAVRSAARILIDQMSIFADLQGTP 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 +EV+E K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N Sbjct: 238 VEEVEE----KAPPIDPVLLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 294 LGRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 327 >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 = 300 bits (767), Expect = 3e-79, Method: Compositional matrix adjust. Identities = 162/334 (48%), Positives = 217/334 (64%), Gaps = 11/334 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ R + +P RGF HTLGNALRR+L+SS+ G A T Sbjct: 1 MQNSTTEFLKPRQIDVNTFSA---TRAKVSMQPFERGFGHTLGNALRRILLSSMNGFAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 178 +D+E+LNP HVIC+L + + ME+ V +G GY R EN IG I +DA +S Sbjct: 118 PHDVEILNPGHVICHLADNGQIEMEIKVEQGRGYQSVSGRQVVRDENRQIGAIQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EP 237 PI +VS+ VE AR Q D DKL + I+TDGSI E++V A+RIL DQ+ +F + + P Sbjct: 178 PISRVSFEVEPARVEQRTDLDKLVLDIETDGSIDPEEAVRSAARILIDQMSIFADLQGTP 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 +EV+E KS P +P LL V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N Sbjct: 238 VEEVEE----KSPPIDPVLLHPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 294 LGRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 327 >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 = 299 bits (766), Expect = 3e-79, Method: Compositional matrix adjust. Identities = 152/336 (45%), Positives = 228/336 (67%), Gaps = 15/336 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ TL EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVVSPTRAKITL---EPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + + M+LTV++G GY PA +++ D IG + +D+ +S Sbjct: 118 DHDVEIVNPDHVIANLASNGALNMKLTVARGRGYEPADSRQSDEDESRSIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--- 235 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 EP +ED +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 EPVVIEQED------EIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKT 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP S+++ Sbjct: 292 PNLGKKSLTEIKDVLASRGLSLGMRLDNWPPASLKK 327 >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 = 299 bits (766), Expect = 3e-79, Method: Compositional matrix adjust. Identities = 152/327 (46%), Positives = 220/327 (67%), Gaps = 9/327 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +KP +E + R + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDG Sbjct: 6 EFLKPRLVE---IENVSPTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+ +GV ED+ +I+LN+KG+ +++ G + +T+ K G G V AGDIQ D+E+ Sbjct: 63 VLHEYSTKEGVQEDVIEILLNLKGLAVRLEGKTEATLTLVKSGAGPVVAGDIQHDGDVEI 122 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--END-PIGLITIDALYSPIKKVS 184 NPDHVIC L +A + M + V G GYVPA R+ E+D PIG + +DA YSP+++++ Sbjct: 123 TNPDHVICTLTGEAEISMRIKVEMGRGYVPASTRRSSEEDDRPIGRLLVDASYSPVERIA 182 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y+VESAR Q D DKL + ++T+G++ E+++ ++ IL +QL F++ + + Sbjct: 183 YSVESARVEQRTDLDKLIIDMETNGTLDPEEAIRRSATILAEQLDAFVDLRDVSEPEA-- 240 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 241 -KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIQYIGDLVQRTEVELLKTPNLGKKSLT 299 Query: 305 EIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPPESI E Sbjct: 300 EIKDVLASRGLSLGMRLENWPPESIAE 326 >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 = 299 bits (766), Expect = 4e-79, Method: Compositional matrix adjust. Identities = 154/332 (46%), Positives = 224/332 (67%), Gaps = 8/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ E + P +I+ + + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQRSVNEFLSPRHIDVQEISKTRAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+I+GV ED+ +I+LN+KGI + + + +T+ K G VTAGDIQ Sbjct: 58 EVEIDGVLHEYSTIEGVQEDVIEILLNLKGIAVLLHNNDEAVLTLSKSEAGPVTAGDIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+E+ NPDHVI +L+ A + M+LT+ +G GYVPA E IG + +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 DQAKDEPEEPEI--DPILLRPVDDLELTVRSANCLKAEQIYYIGDLIQRTEVELLKTPNL 295 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 G+KSL EIK VL + GL LGM L +WPP S++ Sbjct: 296 GKKSLTEIKDVLASKGLSLGMRLENWPPASLK 327 >gi|330969796|gb|EGH69862.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. aceris str. M302273PT] Length = 333 Score = 299 bits (766), Expect = 4e-79, Method: Compositional matrix adjust. Identities = 153/336 (45%), Positives = 229/336 (68%), Gaps = 15/336 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ TL EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVVSPTRAKITL---EPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + V+ M+LTV++G GY PA +++ D IG + +D+ +S Sbjct: 118 DHDVEIVNPDHVIANLASNGVLNMKLTVARGRGYEPADSRQSDEDESRSIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--- 235 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 EP +ED +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 EPVVIEQED------EIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKT 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP S+++ Sbjct: 292 PNLGKKSLTEIKDVLVSRGLSLGMRLDNWPPASLKK 327 >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 = 299 bits (766), Expect = 4e-79, Method: Compositional matrix adjust. Identities = 159/337 (47%), Positives = 227/337 (67%), Gaps = 16/337 (4%) Query: 2 IQKNWQELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +Q + E +KP+ NIE Q + EPL RGF HTLGNALRR+L+SS+ G A Sbjct: 1 MQGSVTEFLKPHLVNIE-----QVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCA 55 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+SG +T+ K G G VTA DI Sbjct: 56 VTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVSGKDDIILTLNKSGIGPVTAADI 115 Query: 120 QTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDA 175 D+E++NP HVIC+L D DA + M + V +G GYVPA H + E+ PIG + +DA Sbjct: 116 THDGDVEIVNPHHVICHLTDKDASISMRIRVQRGRGYVPASARVHSQDEDRPIGRLLVDA 175 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +SP+ +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ Sbjct: 176 RFSPVDRIAYNVEAARVEQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLR 235 Query: 236 EPKK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 236 DVRQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLK 291 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 292 TPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 299 bits (765), Expect = 4e-79, Method: Compositional matrix adjust. Identities = 159/327 (48%), Positives = 213/327 (65%), Gaps = 7/327 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG NR + EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKTINVEQLGA---NRAKVTLEPFERGYGHTLGNALRRVLLSSMVGHAATEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE SSI GV ED+ +I+LN+KG+ K+ +++ K G G VTA DIQT +D+E++ Sbjct: 62 LHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGPVTAADIQTPHDVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSY 185 NP+HVI NL + M++ V G GYVP R ++ IG I +DA +SP+K+VSY Sbjct: 122 NPEHVIVNLSHGGKIDMQIKVENGRGYVPGTMRRYGDESPKSIGRIVLDASFSPVKRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK-KEVKED 244 TVESAR Q D DKL + I+T+G++T ED+V +++IL +QL +F E + Sbjct: 182 TVESARVEQRTDLDKLVLEIETNGAVTAEDAVRASAKILVEQLAVFAQLEGNELAAFDAP 241 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + S F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 242 VQRSSQQFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLN 301 Query: 305 EIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L WPP +++ Sbjct: 302 EIKEVLASRGLTLGMRLESWPPAGLDK 328 >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 = 299 bits (765), Expect = 5e-79, Method: Compositional matrix adjust. Identities = 151/336 (44%), Positives = 227/336 (67%), Gaps = 15/336 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ TL EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQSSVNEFLTPRHIDVQVVSPTRAKITL---EPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + + M+L V++G GY PA +++ D IG + +D+ +S Sbjct: 118 DHDVEIVNPDHVIANLASNGALNMKLVVARGRGYEPADSRQSDEDESRSIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--- 235 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 EP +ED +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 EPVVVEQED------EIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKT 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP S+++ Sbjct: 292 PNLGKKSLTEIKDVLASRGLSLGMRLDNWPPASLKK 327 >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 = 299 bits (765), Expect = 5e-79, Method: Compositional matrix adjust. Identities = 160/328 (48%), Positives = 214/328 (65%), Gaps = 8/328 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG NR + EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKTINVEQLGA---NRAKVTLEPFERGYGHTLGNALRRVLLSSMVGHAATEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE SSI GV ED+ +I+LN+KG+ K+ +++ K G G +TA DIQT +D+E++ Sbjct: 62 LHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGPITAADIQTPHDVEIV 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSY 185 NPDHVI NL + M++ V G GYVP R ++ IG I +DA +SP+K+VSY Sbjct: 122 NPDHVIMNLSHGGKIDMQIKVENGRGYVPGNVRRYGDESPKSIGRIVLDASFSPVKRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--EPKKEVKE 243 TVESAR Q D DKL + I+T+G++T ED+V +++IL +QL +F E E + + Sbjct: 182 TVESARVEQRTDLDKLVLEIETNGAVTAEDAVRASAKILVEQLAVFAQLEGNELGAIIND 241 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 S F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 242 PAPRSSQQFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 301 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L WPP +++ Sbjct: 302 NEIKEVLASRGLTLGMRLESWPPAGLDK 329 >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 = 298 bits (764), Expect = 6e-79, Method: Compositional matrix adjust. Identities = 152/336 (45%), Positives = 228/336 (67%), Gaps = 15/336 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ + + R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHID---VQEVSPTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++N DHVI NL + + M+LTV++G GY PA +++ D IG + +DA +S Sbjct: 118 DHDVEIVNGDHVIANLAANGSLNMKLTVARGRGYEPADARQSDEDESRSIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--- 235 P+++V+Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRVAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 EP +ED +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 EPVVVEQED------EIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKT 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP S+++ Sbjct: 292 PNLGKKSLTEIKDVLASRGLSLGMRLDNWPPASLKK 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 = 298 bits (764), Expect = 6e-79, Method: Compositional matrix adjust. Identities = 161/328 (49%), Positives = 216/328 (65%), Gaps = 8/328 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG NR + EP RG+ HTLGNA+RRVL+SS+ G A T V I GV Sbjct: 5 LLKPKTINVEQLGH---NRAKVALEPFERGYGHTLGNAIRRVLLSSMVGYAATEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE SSI GV ED+ +I+LN+KG+ K+ +++ K G GVVTA DIQT +D+E++ Sbjct: 62 LHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGVVTARDIQTPHDVEIV 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSY 185 NPDHVI +L + M++ V KG GYVP R ++ IG I +DA +SP+K+VSY Sbjct: 122 NPDHVIAHLSQGGKLDMQIKVEKGRGYVPGNLRRYADESTKSIGRIVLDASFSPVKRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F E + + Sbjct: 182 TVESARVEQRTDLDKLVVEIETNGAITAEDAVRASAKILVEQLAVFAQLEGGELAAFDTP 241 Query: 246 N--VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 S F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 242 AGPRGSATFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 301 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 302 NEIKEVLASRGLTLGMKLENWPPAGLDK 329 >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 = 298 bits (764), Expect = 6e-79, Method: Compositional matrix adjust. Identities = 166/334 (49%), Positives = 222/334 (66%), Gaps = 11/334 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ VL TL EP+ RGF +TLGNALRRVL+SS+ G AIT Sbjct: 1 MQNSPTEYLKPRVVDVEVLSPLRARVTL---EPMERGFGYTLGNALRRVLLSSIPGFAIT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY--VPAKHHRTENDPI-GLITIDALYS 178 +D E++NPDHVI +L + +E+ V+ G GY VPA+ E D + 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 KEVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 EV+ VKS P +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 SEVE----VKSAPQVDPILLRPVDDLELTVRSANCLKAENIFYIGDLIQRTENELLKAPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL T GL LGM L +WPP +E+ Sbjct: 294 LGRKSLNEIKDVLATRGLTLGMKLENWPPVGLEK 327 >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 = 298 bits (764), Expect = 7e-79, Method: Compositional matrix adjust. Identities = 152/335 (45%), Positives = 224/335 (66%), Gaps = 15/335 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E + P +I+ L R ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQSAVNEFLTPRHIDVTELAP---TRAKVVLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E+ NP+ VI N+ D + M+LT+++G GY P +++ D IG + +DA +S Sbjct: 118 DHDVEIANPELVIANITGDVTLDMKLTIARGRGYQPVDARQSDEDETRAIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--- 235 P+++++YTVESAR Q D DKL + ++T+G+I E+++ A+ ILQ QL +F++ E Sbjct: 178 PVRRLAYTVESARVEQRTDLDKLVLDLETNGTIDPEEAIRRAATILQQQLAVFVDLEGEK 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 E + E KED +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 EVEPEQKED------QIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKT 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 N G+KSL EIK +L + GL LGM L +WPP S++ Sbjct: 292 PNLGKKSLTEIKDILASRGLSLGMRLENWPPASLK 326 >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 = 298 bits (763), Expect = 9e-79, Method: Compositional matrix adjust. Identities = 157/333 (47%), Positives = 214/333 (64%), Gaps = 8/333 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNW LI P +E + G + +PL RGFA T+GN+LRR+++SS+RGAAIT+V Sbjct: 13 KNWHSLISPEKLE-VDEGTLTSRYGKFVCQPLERGFATTIGNSLRRIMLSSIRGAAITSV 71 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I LHE ++I GVHED+ +IILN+K + LK+ G + V + K GPG V AGDI Sbjct: 72 RIGNALHEFTTIDGVHEDVAEIILNLKQVRLKLHGPESRTVVLEKNGPGRVLAGDINGGA 131 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 +EV+NP+ VIC + + R EL V G GYVPA+ ++ E IG+I IDA +SPI +V Sbjct: 132 YVEVMNPELVICTVTSETNFRAELEVHWGKGYVPAEQNKKEGQSIGVIPIDAAFSPIIRV 191 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE----PKK 239 Y V AR GQ DYD+L+M I+TDGS+ + ++A A++IL++Q+ +FINF E Sbjct: 192 QYVVSQARVGQQTDYDRLTMEIETDGSVEPQSALAYAAKILKEQMTIFINFNEEIAKAPD 251 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + D + K+ P P L K VE+LELSVRS NCL+ I Y+G L+ +T+A+ML+ NFG Sbjct: 252 SLDSDEDGKAYP--PFLDKNVEDLELSVRSANCLKNAQIQYIGQLVNKTDAEMLKTKNFG 309 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDW-PPESIEE 331 RKSL EIK +L L LGM W PE EE Sbjct: 310 RKSLNEIKALLAEHNLTLGMKYEGWVAPEKREE 342 >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 = 298 bits (762), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 153/336 (45%), Positives = 228/336 (67%), Gaps = 15/336 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEEN--RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +Q + E +KPN ++G E+ N R + PL RGF HTLGNALRR+L+SS+ G A Sbjct: 1 MQGSVIEFLKPN-----LVGIEQINATRAKVTLGPLERGFGHTLGNALRRILLSSMPGTA 55 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T V+IDGV HE S+ +GV ED+ +I+LN+KG+ +K+ G + V++ K G G VTAGDI Sbjct: 56 VTEVEIDGVQHEYSTKEGVQEDILEILLNLKGLAVKLEGKDNVLVSLTKSGAGPVTAGDI 115 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 +D+E++NP+HVIC+L +A + M + + G GYVPA H + PIG + +DA Sbjct: 116 THGSDVEIVNPEHVICHLTGNAEISMRIKIESGRGYVPASSRIHTEEDERPIGRLLVDAT 175 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 +SP+++++Y+VESAR Q D DKL + ++TDG++ E+++ A+ IL +QL F++ Sbjct: 176 FSPVERIAYSVESARVEQRTDLDKLVIDMETDGTLDPEEAIRRAATILAEQLDAFVDL-- 233 Query: 237 PKKEVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 ++V E + + P F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 234 --RKVSEPVAKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKT 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP S+ E Sbjct: 292 PNLGKKSLTEIKDVLASRGLSLGMRLENWPPASLSE 327 >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 = 298 bits (762), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 155/327 (47%), Positives = 215/327 (65%), Gaps = 9/327 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 EL+K IE + E N+ + EPL RGF HTLGNALRRVL+SS+ GAAI +I+G Sbjct: 5 ELVKKQQIE---VEAENRNQAKVALEPLERGFGHTLGNALRRVLLSSIPGAAIVEARIEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++I+GV ED+ DI+LN+KG+ L+M +++ K+GP VVTAGDI +D+EV Sbjct: 62 VLHEYTAIEGVQEDVVDILLNLKGVALRMHSREESTLSLKKKGPCVVTAGDITVDHDVEV 121 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR-TENDP--IGLITIDALYSPIKKVS 184 +NP+HVI + + + M LT G GY P R E D IG + +DA +SPI++V+ Sbjct: 122 VNPEHVIATITKNVEIDMTLTARAGRGYEPVSTRRQAEGDETGIGRLLLDASFSPIRRVA 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VESAR Q D D+L + ++T+G+I +D+V A+ ILQ QL F++ +E EV Sbjct: 182 YRVESARLAQRTDMDRLVLELETNGAIAPDDAVRQAATILQGQLAPFVDLQEETGEVP-- 239 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + +P LL+ V+ELEL+VRS NCL+ EN+ Y+GDL+QRTE ++LR N G+KSL Sbjct: 240 -GTTAGAIDPILLRPVDELELTVRSANCLKAENLYYIGDLVQRTEVELLRAPNLGKKSLT 298 Query: 305 EIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK L T GL LGM L +WPP + + Sbjct: 299 EIKDTLATHGLSLGMRLENWPPPGLRD 325 >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 = 298 bits (762), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 151/336 (44%), Positives = 227/336 (67%), Gaps = 15/336 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ TL EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVVSPTRAKITL---EPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + + M+L V++G GY PA +++ D IG + +D+ +S Sbjct: 118 DHDVEIVNPDHVIANLASNGALNMKLVVARGRGYEPADSRQSDEDESRSIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--- 235 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 EP +ED +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 EPVVVEQED------EIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKT 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP S+++ Sbjct: 292 PNLGKKSLTEIKDVLASRGLSLGMRLDNWPPASLKK 327 >gi|330891907|gb|EGH24568.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. mori str. 301020] Length = 333 Score = 298 bits (762), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 152/336 (45%), Positives = 228/336 (67%), Gaps = 15/336 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ TL EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVVSPTRAKITL---EPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + V+ M+LTV++G GY PA +++ D IG + +D+ +S Sbjct: 118 DHDVEIVNPDHVIANLASNGVLNMKLTVARGRGYEPADSRQSDEDESRSIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--- 235 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 EP +ED +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 EPVVIEQED------EIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKT 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP S+++ Sbjct: 292 PNLGKKSLTEIKDVLASRGLSLGMRLDNWPPASLKK 327 >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 = 298 bits (762), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 158/327 (48%), Positives = 216/327 (66%), 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NPDHVI +L + M++ V KG GYVP R ++P IG I +DA +SP+K+VSY Sbjct: 122 NPDHVIAHLSQGGKLDMQIKVEKGRGYVPGTMRRYADEPTKSIGRIVLDASFSPVKRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F E + + Sbjct: 182 TVESARVEQRTDLDKLLVEIETNGAITAEDAVRASAKILVEQLAVFAQLEGGELAAFDAP 241 Query: 246 NVKSL-PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 +S 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|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 = 298 bits (762), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 156/337 (46%), Positives = 226/337 (67%), Gaps = 16/337 (4%) Query: 2 IQKNWQELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +Q + E +KP+ NIE I + EPL RGF HTLGNALRR+L+SS+ G A Sbjct: 1 MQGSVTEFLKPHLVNIEQI-----SSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCA 55 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G VTA DI Sbjct: 56 VTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDIILTLTKSGIGPVTAADI 115 Query: 120 QTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDA 175 D+E++NPDHVICNL D +A + M + V +G GYVPA H + ++ PIG + +DA Sbjct: 116 THDGDVEIVNPDHVICNLTDKNASISMRIRVQRGRGYVPASARVHTQDDDRPIGRLLVDA 175 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +SP+ +++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ Sbjct: 176 RFSPVDRIAYNVEAARVEQRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLR 235 Query: 236 EPKK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 236 DVRQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLK 291 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 292 TPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 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 = 298 bits (762), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 158/331 (47%), Positives = 224/331 (67%), Gaps = 16/331 (4%) Query: 8 ELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E +KP+ NIE Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I Sbjct: 3 EFLKPHLVNIE-----QVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEI 57 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGVLHE SS +GV ED+ +++LN+KG+ +K+SG +T+ K G G VTA DI D+ Sbjct: 58 DGVLHEYSSKEGVQEDILEVLLNLKGLAVKVSGKDDIILTLNKSGIGPVTAADITHDGDV 117 Query: 126 EVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIK 181 E++NP HVIC+L D DA + M + V +G GYVPA H + E+ PIG + +DA +SP+ Sbjct: 118 EIVNPHHVICHLTDKDASISMRIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVD 177 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK-E 240 +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ E Sbjct: 178 RIAYNVEAARVEQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQPE 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 VKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+ Sbjct: 238 VKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGK 293 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 KSLTEIKDVLASRGLSLGMRLENWPPASIAE 324 >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 = 297 bits (761), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 149/332 (44%), Positives = 221/332 (66%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSP 179 + ++++NPDHVI ++ D + M L + G GY P+ T ++ +GL+ +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 IRRVTYSVENARVEKRTDLDKLIIDLETDGTLDPEEAIRFAAAVLQHQLAAFVDL---KQ 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|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 = 297 bits (761), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 159/334 (47%), Positives = 218/334 (65%), Gaps = 11/334 (3%) 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYS 178 +D+E++NP+HVIC+L + + ME+ V +G GY R EN IG I +DA +S Sbjct: 118 PHDVEIINPEHVICHLSDNGQIDMEIKVEQGRGYQSVSGRRVLRDENKQIGAIQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EP 237 PI +VS+ VE AR Q D DKL + I+T+GSI E++V A+RIL DQ+ +F + + P Sbjct: 178 PISRVSFEVEPARVEQRTDLDKLVLDIETNGSIDPEEAVRSAARILIDQMSIFADLQGTP 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 +EV+E K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N Sbjct: 238 VEEVEE----KAPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 294 LGRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 327 >gi|330879400|gb|EGH13549.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. glycinea str. race 4] Length = 333 Score = 297 bits (761), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 152/336 (45%), Positives = 228/336 (67%), Gaps = 15/336 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ TL EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVVSPTRAKITL---EPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + V+ M+LTV++G GY PA +++ D IG + +D+ +S Sbjct: 118 DHDVEIVNPDHVIANLASNGVLNMKLTVARGRGYEPADSRQSDEDESRSIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--- 235 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDMETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 EP +ED +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 EPVVIEQED------EIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKT 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP S+++ Sbjct: 292 PNLGKKSLTEIKDVLASRGLSLGMRLDNWPPASLKK 327 >gi|331018185|gb|EGH98241.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. lachrymans str. M302278PT] Length = 333 Score = 297 bits (761), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 152/336 (45%), Positives = 227/336 (67%), Gaps = 15/336 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ TL EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVVSPTRAKITL---EPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + V+ M+LTV++G GY PA +++ D IG + +D+ +S Sbjct: 118 DHDVEIVNPDHVIANLASNGVLNMKLTVARGRGYEPADSRQSDEDESRSIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--- 235 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 EP +ED +P LL+ V +LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 EPVVIEQED------EIDPILLRPVYDLELTVRSANCLKAENIYYIGDLIQRTEVELLKT 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + L LGM L +WPP S+++ Sbjct: 292 PNLGKKSLTEIKDVLASRSLSLGMRLDNWPPASLKK 327 >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 = 297 bits (760), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 146/302 (48%), Positives = 206/302 (68%), Gaps = 6/302 (1%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G AI QIDGVLHE ++ +GV ED+T+I+LN+KG+ Sbjct: 27 EPLERGFGHTLGNALRRILLSSMPGCAIVEAQIDGVLHEYTTKEGVQEDMTEILLNLKGV 86 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K+ G + + +GPG VTAG+IQ +D+E++NP+HVI +L + + + V +G Sbjct: 87 AIKLHGRDEVTLALNSKGPGAVTAGEIQLEHDVEIINPEHVIAHLTKSGELNITMKVVRG 146 Query: 153 HGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 GY PA E PIG + +DA +SPI++V+Y V+SAR Q D DKL + I+T+G Sbjct: 147 RGYQPASVRIPKEEEERPIGYLILDASFSPIRRVTYEVDSARVEQRTDLDKLIIEIETNG 206 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I +++V A+ ILQDQL F+ E + KE K+ +P LL+ +++LEL+VRS Sbjct: 207 TIASDEAVRKAATILQDQLTAFVELEGKTETAKEK---KTAEIDPVLLQPIDDLELTVRS 263 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 NCL+ ENI Y+GDLIQRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP + Sbjct: 264 ANCLKAENIYYIGDLIQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPPAGL 323 Query: 330 EE 331 E Sbjct: 324 HE 325 >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 = 297 bits (760), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 151/335 (45%), Positives = 226/335 (67%), Gaps = 12/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP +E + R+ ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVEIDAVSP---TRSKVVLEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALY 177 D+ + NPDHVIC+L ++ + M + V +G GYVPA + + +D 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 SPVERIAYSVESARVEQRTDLDKLIIDMETNGTLDPEEAIRRASTILAEQLDAFVDL--- 234 Query: 238 KKEVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++V E + + P F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 235 -RDVTEPVAKEEKPEFDPILLRPVDDLELTVRSANCLKAEQIQYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP S+ E Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASLAE 328 >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 = 297 bits (760), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 157/337 (46%), Positives = 227/337 (67%), Gaps = 16/337 (4%) Query: 2 IQKNWQELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +Q + E +KP+ NIE I + EPL RGF HTLGNALRR+L+SS+ G A Sbjct: 1 MQGSVTEFLKPHLVNIEQI-----SSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCA 55 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G VTAGDI Sbjct: 56 VTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQSKDDVVLTLNKSGIGPVTAGDI 115 Query: 120 QTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDA 175 D+E++NPDHVIC+L D +A + M + V +G GYVPA H + ++ PIG + +DA Sbjct: 116 THDGDVEIVNPDHVICHLTDKNASINMRIRVQRGRGYVPASARIHAQDDDRPIGRLLVDA 175 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +SP+ +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ Sbjct: 176 RFSPVDRIAYNVEAARVEQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLR 235 Query: 236 EPKK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 236 DVRQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLK 291 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 292 TPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 297 bits (760), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 160/328 (48%), Positives = 215/328 (65%), Gaps = 8/328 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG NR + EP RG+ HTLGNA+RRVL+SS+ G A T V I GV Sbjct: 5 LLKPKAINVEQLGP---NRAKVALEPFERGYGHTLGNAIRRVLLSSMVGYAATEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE SSI GV ED+ +I+LN+KG+ K+ +++ K G GVVTA DIQT +D+E++ Sbjct: 62 LHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGVVTARDIQTPHDVEIV 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NP+HVI L + M++ V KG GYVP R ++ IG I +DA +SP+K+VSY Sbjct: 122 NPEHVIATLSAGGKLDMQIKVEKGRGYVPGNLRRYADEATKSIGRIVLDASFSPVKRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--EPKKEVKE 243 TVESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F E E Sbjct: 182 TVESARVEQRTDLDKLVVEIETNGAITAEDAVRASAKILVEQLAVFAQLEGGELAAFDAP 241 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 242 ASSRGAATFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 301 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 302 NEIKEVLASRGLTLGMKLENWPPAGLDK 329 >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 = 296 bits (759), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 153/334 (45%), Positives = 225/334 (67%), Gaps = 11/334 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYS 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 K-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + E+KE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 QPEIKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 327 >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 = 296 bits (759), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 147/331 (44%), Positives = 219/331 (66%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + N E + P I+ + ++ R + EPL RGF HTLGNALRR+L+SS+ G AIT Sbjct: 1 MSTNVNEFLTPRVIK---VDEKSPTRAQVTLEPLERGFGHTLGNALRRILLSSMPGCAIT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 178 +D+++ NPDHVIC+L D + M + V +G GY PA E IG + +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 QATAQEADDE---VDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASL 325 >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 = 296 bits (759), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 159/337 (47%), Positives = 226/337 (67%), Gaps = 16/337 (4%) Query: 2 IQKNWQELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +Q + E +KP+ NIE Q + EPL RGF HTLGNALRR+L+SS+ G A Sbjct: 1 MQGSVTEFLKPHLVNIE-----QVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCA 55 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+SG +T+ K G G VTA DI Sbjct: 56 VTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVSGKDDIILTLNKSGIGPVTAADI 115 Query: 120 QTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDA 175 D+E++NP HVIC+L D DA + M + V +G GYVPA H + E+ PIG + +DA Sbjct: 116 THDGDVEIVNPHHVICHLTDKDASISMRIRVQRGRGYVPASARVHSQDEDRPIGRLLVDA 175 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +SP+ +++Y VESAR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ Sbjct: 176 RFSPVDRIAYNVESARVEQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLR 235 Query: 236 EPKK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+ DL+QRTE ++L+ Sbjct: 236 DVRQPEVKEE----KPEFDPILLRPVDDLELTVRSHNCLKAETIHYICDLVQRTEVELLK 291 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 292 TPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 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 = 296 bits (759), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 153/334 (45%), Positives = 225/334 (67%), Gaps = 11/334 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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--KHHRTENDPIGLITIDALYS 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 K-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + E+KE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 QPEIKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 327 >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 = 296 bits (759), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 159/334 (47%), Positives = 218/334 (65%), Gaps = 11/334 (3%) 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYS 178 +D+E++NP+HVIC+L + + ME+ V +G GY R EN IG I +DA +S Sbjct: 118 PHDVEIINPEHVICHLADNGQIDMEIKVEQGRGYQSVSGRRVLRDENKQIGAIQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EP 237 PI +VS+ VE AR Q D DKL + I+T+GSI E++V A+RIL DQ+ +F + + P Sbjct: 178 PISRVSFEVEPARVEQRTDLDKLVLDIETNGSIDPEEAVRSAARILIDQMSIFADLQGTP 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 +EV+E K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N Sbjct: 238 VEEVEE----KAPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 294 LGRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 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 = 296 bits (759), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 153/334 (45%), Positives = 225/334 (67%), Gaps = 11/334 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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--KHHRTENDPIGLITIDALYS 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 K-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + E+KE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 QPEIKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 327 >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 = 296 bits (758), Expect = 3e-78, Method: Compositional matrix adjust. Identities = 158/337 (46%), Positives = 221/337 (65%), Gaps = 16/337 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTL------MIAEPLPRGFAHTLGNALRRVLMSSL 55 I +NW++LI+P ++ +N +L EPL RG+ T+GN+LRRVL+SSL Sbjct: 7 IARNWRDLIRPKKLDV-------DNDSLTDSYGKFTCEPLERGYGITIGNSLRRVLLSSL 59 Query: 56 RGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVT 115 +GAA+T V+I+G LHE +SI V ED+TDIILNIK + L M + + + I K G G VT Sbjct: 60 QGAAVTTVRIEGALHEFTSIPAVVEDVTDIILNIKALRLSMDDATPRTLLISKTGEGPVT 119 Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDA 175 A DIQ + + VL+P I L ++ME+T + G GY A ++TE PIG+I ID+ Sbjct: 120 AADIQAPSGVHVLDPSQHIATLSKGGRLQMEMTCAMGRGYATADQNKTEGMPIGVIPIDS 179 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 L+SPI+KV+Y V +AR G DYD+L + + TDGS+ +D++A A++I+++QL +FIN E Sbjct: 180 LFSPIRKVNYRVTNARVGHRTDYDRLILQVWTDGSVKPDDALAYAAKIVKEQLSIFINHE 239 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 E +E + + N L + V+ELELSVRS NCL+ NI Y+GDL+QRTEA+ML+ Sbjct: 240 E-IEETQAPSQSEQDKLNDVLWRSVDELELSVRSANCLQNANIHYIGDLVQRTEAEMLKT 298 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDW--PPESIE 330 NFGRKSL EIK +L MGL LGM + W PP + E Sbjct: 299 KNFGRKSLKEIKEILAQMGLSLGMKIEGWQGPPPNRE 335 >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 = 296 bits (758), Expect = 3e-78, Method: Compositional matrix adjust. Identities = 156/326 (47%), Positives = 213/326 (65%), Gaps = 6/326 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG TL EP RGF HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKAINVDPLGGHRAKVTL---EPFERGFGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S++ GV ED+ I+LN+KG+ ++ + + K G G V A DIQT +D+E++ Sbjct: 62 LHEYSTVDGVQEDVVHIMLNLKGVVFRLHNRDEVTLVLRKEGEGPVKASDIQTPHDVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NPDHVI +L + M++ V KG GYVP R ++P IG I +DA +SP+K+VSY Sbjct: 122 NPDHVIAHLAQGGKLDMQIKVEKGRGYVPGSMRRYADEPTKSIGRIVLDASFSPLKRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVESAR Q D DKL M I+T+G+I+ E+++ +++IL +QL +F E + E Sbjct: 182 TVESARVEQRTDLDKLVMEIETNGAISPEEAIRASAKILVEQLAVFAQLEGSDLAIFEAP 241 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 242 APRAQHFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTETELLKTPNLGRKSLNE 301 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LG L +WPP+ +++ Sbjct: 302 IKEVLASRGLTLGARLENWPPQGLDK 327 >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 = 296 bits (758), Expect = 3e-78, Method: Compositional matrix adjust. Identities = 156/332 (46%), Positives = 219/332 (65%), Gaps = 7/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + ELIKP +E + G ++ EPL RGF HTLGNALRRVL+S++ GAA+T Sbjct: 1 MHNSLAELIKPRTVEVVPHGSHSAR---VVIEPLERGFGHTLGNALRRVLLSAIPGAAVT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND-PIGLITIDALYSPI 180 +D+EVLNP+ +I +++ + +RM L V KG GY P + E D IG + +DA +SPI Sbjct: 118 SHDVEVLNPELLIAHINGNGRLRMTLHVQKGRGYQPVANRAIEGDSAIGTLHLDASFSPI 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY VESAR Q D D+L + + T+G++ E++V A+ IL L + ++ K E Sbjct: 178 KKVSYVVESARVEQRTDLDRLVIELQTNGTVQPEEAVKHAANILNQHLAILVDL---KGE 234 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 F+P LL V++LEL+VRS NCL+ ENI Y+GDLIQR+EAD+L+ N G+ Sbjct: 235 DLPLFGEDGPQFDPLLLHPVDDLELTVRSANCLKAENIFYIGDLIQRSEADLLKTPNLGK 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEEL 332 KSL EIK VL T GL LGM L +WPPE +++L Sbjct: 295 KSLTEIKDVLATKGLSLGMRLENWPPEGLKKL 326 >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 = 296 bits (758), Expect = 3e-78, Method: Compositional matrix adjust. Identities = 153/334 (45%), Positives = 224/334 (67%), Gaps = 11/334 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYS 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 K-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + E+KE+ F P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 QPEIKEE----KPEFXPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 327 >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 = 296 bits (757), Expect = 4e-78, Method: Compositional matrix adjust. Identities = 153/334 (45%), Positives = 224/334 (67%), Gaps = 11/334 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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--KHHRTENDPIGLITIDALYS 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 K-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + E+KE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 QPEIKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 327 >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 = 296 bits (757), Expect = 4e-78, Method: Compositional matrix adjust. Identities = 157/337 (46%), Positives = 227/337 (67%), Gaps = 16/337 (4%) Query: 2 IQKNWQELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +Q + E +KP+ NIE I + EPL RGF HTLGNALRR+L+SS+ G A Sbjct: 1 MQGSVTEFLKPHLVNIEQI-----SSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCA 55 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T V+IDGVLHE SS +G+ ED+ +++LN+KG+ +K+S +T+ K G G VTA DI Sbjct: 56 VTEVKIDGVLHEYSSKEGIQEDILEVLLNLKGLAVKVSNKDDIILTLNKSGIGPVTAADI 115 Query: 120 QTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDA 175 D+E++NPDHVIC+L D +A + M + V +G GYVPA H + E+ PIG + +DA Sbjct: 116 THDGDVEIVNPDHVICHLTDKNASINMCIRVQRGRGYVPASARVHSQDEDRPIGRLLVDA 175 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +SP+ +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ Sbjct: 176 RFSPVDRIAYNVEAARVEQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLR 235 Query: 236 EPKK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 236 DVRQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLK 291 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 292 TPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 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 = 296 bits (757), Expect = 4e-78, Method: Compositional matrix adjust. Identities = 154/335 (45%), Positives = 226/335 (67%), Gaps = 12/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTQAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 296 bits (757), Expect = 4e-78, Method: Compositional matrix adjust. Identities = 156/337 (46%), Positives = 227/337 (67%), Gaps = 16/337 (4%) Query: 2 IQKNWQELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +Q + E +KP+ NIE I + EPL RGF HTLGNALRR+L+SS+ G A Sbjct: 1 MQGSVIEFLKPHLVNIEQI-----SSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCA 55 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 + V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+SG + +T+ K G G V A DI Sbjct: 56 VAEVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVSGKNDVTLTLNKSGIGPVLAADI 115 Query: 120 QTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDA 175 D+E++NP+HVIC+L D DA + M + V +G GYVPA H + E+ PIG + +DA Sbjct: 116 THDGDVEIINPNHVICHLTDKDASINMRIYVQRGRGYVPASARVHSQDEDRPIGRLLVDA 175 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +SP+ +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ Sbjct: 176 RFSPVDRIAYNVEAARVEQRTDLDKLIIDMETNGTIDPEEAIRRAATILAEQLDAFVDLR 235 Query: 236 EPKK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + ++ E+KE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 236 DVRQPEIKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLK 291 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 292 TPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 296 bits (757), Expect = 4e-78, Method: Compositional matrix adjust. Identities = 154/335 (45%), Positives = 224/335 (66%), Gaps = 12/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 296 bits (757), Expect = 4e-78, Method: Compositional matrix adjust. Identities = 156/332 (46%), Positives = 220/332 (66%), Gaps = 8/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ + ++ EP RG+AHTLGNALRR+L+SS+ G A T Sbjct: 1 MQNSASEFLKPRLIDVQPVSATHARVSM---EPFERGYAHTLGNALRRILLSSMPGFAPT 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 VRRVSFGVESARVEQRTDLDRLVLDIETNGVIEPEQAVRNAARILMDQLSIFADLQ---G 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|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 = 296 bits (757), Expect = 4e-78, Method: Compositional matrix adjust. Identities = 158/334 (47%), Positives = 218/334 (65%), Gaps = 11/334 (3%) 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYS 178 +D+E++NP+HVIC+L + + ME+ V +G GY R +N IG I +DA +S Sbjct: 118 PHDVEIINPEHVICHLSDNGQIDMEIKVEQGRGYQSVSGRRVLRDDNKQIGAIQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EP 237 PI +VS+ VE AR Q D DKL + I+T+GSI E++V A+RIL DQ+ +F + + P Sbjct: 178 PISRVSFEVEPARVEQRTDLDKLVLDIETNGSIDPEEAVRSAARILIDQMSIFADLQGTP 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 +EV+E K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N Sbjct: 238 VEEVEE----KAPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 294 LGRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 327 >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 = 296 bits (757), Expect = 4e-78, Method: Compositional matrix adjust. Identities = 157/329 (47%), Positives = 216/329 (65%), Gaps = 9/329 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG NR + EP RG+ HTLGNA+RRVL+SS+ G A T V I GV Sbjct: 5 LLKPKAINVEQLGH---NRAKVELEPFERGYGHTLGNAIRRVLLSSMVGYAATEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE SSI GV ED+ +I+LN+KG+ K+ +++ K G GVVTA DIQT +D+E++ Sbjct: 62 LHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGVVTARDIQTPHDVEIV 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSY 185 NPDHVI L + M++ V KG GYVP R ++ IG I +DA +SP+K+VSY Sbjct: 122 NPDHVIATLSAGGKLDMQIKVEKGRGYVPGNLRRFADESTKSIGRIVLDASFSPVKRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVESAR Q D DKL + I+T+G+I+ E++V +++IL +QL +F + + + Sbjct: 182 TVESARVEQRTDLDKLVLEIETNGAISAEEAVRASAKILVEQLAVFAQLDGGEIFESQAT 241 Query: 246 NVKSLP---FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 ++ F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKS Sbjct: 242 GARAASGATFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKS 301 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 L EIK VL + GL LGM L +WPP +++ Sbjct: 302 LNEIKEVLASRGLTLGMKLENWPPAGLDK 330 >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 = 296 bits (757), Expect = 4e-78, Method: Compositional matrix adjust. Identities = 156/338 (46%), Positives = 220/338 (65%), Gaps = 15/338 (4%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTL---MIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +NW +L++P V+ E N T EPL RG+ T+GNALRRVL+SSL+GAA Sbjct: 13 RNWAKLVRPE----AVINNMESNTTTYGRFEYEPLERGYGITIGNALRRVLLSSLQGAAF 68 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 +V+I GV HE ++I G+ ED+TDIILN+K + L M D + +++F G+VTA DIQ Sbjct: 69 VSVKILGVQHEFTTIPGILEDVTDIILNLKQVRLAMDTDEPQHLSLFVSKKGIVTAADIQ 128 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T +EVLNP+ I L D +RME V G GYVPA+ H ++ IGLI +D+ +SPI Sbjct: 129 TNQHVEVLNPEQHIATLTEDIELRMEFEVRMGKGYVPAEMHEDLHEEIGLIKLDSSFSPI 188 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 + V+Y VE AR GQ+ +YDKL + + TDGS++ ED++A +++I++DQ+ +FINF+E Sbjct: 189 RNVTYVVEQARVGQMTNYDKLVLEVWTDGSVSPEDAIAYSAKIIKDQISVFINFDERISG 248 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + S N L K ++ELELSVR+TNCLR NI +G+L+Q+ EADML+ NFG+ Sbjct: 249 SGGNEGSGSSDLNDNLFKGIDELELSVRATNCLRSANISTVGELVQKAEADMLKTKNFGK 308 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK +L +MGL GM I+ KKY++ Sbjct: 309 KSLDEIKALLTSMGLDFGM--------KIDGFEKKYQE 338 >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 = 295 bits (756), Expect = 5e-78, Method: Compositional matrix adjust. Identities = 152/335 (45%), Positives = 226/335 (67%), Gaps = 12/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTQAKVVLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ E+KE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEIKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 295 bits (756), Expect = 5e-78, Method: Compositional matrix adjust. Identities = 154/336 (45%), Positives = 225/336 (66%), Gaps = 14/336 (4%) Query: 2 IQKNWQELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +Q + E +KP+ NIE I + EPL RGF HTLGNALRR+L+SS+ G A Sbjct: 1 MQGSVTEFLKPHLVNIEQI-----SSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCA 55 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G VTAGDI Sbjct: 56 VTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQSKDDVVLTLNKSGIGPVTAGDI 115 Query: 120 QTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDA 175 D+E++NPDHVIC+L D +A + M + V +G GYVPA H + ++ PIG + +DA Sbjct: 116 THDGDVEIVNPDHVICHLTDKNASINMRIRVQRGRGYVPASARVHTQDDDRPIGRLLVDA 175 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +SP+ +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ Sbjct: 176 RFSPVDRIAYNVEAARVEQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLR 235 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + ++ V + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 236 DVRQPV---VKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKT 292 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 293 PNLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 295 bits (756), Expect = 5e-78, Method: Compositional matrix adjust. Identities = 157/328 (47%), Positives = 220/328 (67%), Gaps = 10/328 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I+ + + T+ EP RGF HTLGNALRR+L+SSL G A T V I+GV Sbjct: 6 LLKPRIIDVQSISPVQARVTM---EPFERGFGHTLGNALRRILLSSLPGHAPTEVSIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S++ G+ ED+ D++LN+KG+ LK+ S +T+ K G GVVTA DI+ +D+E++ Sbjct: 63 LHEYSTLDGMREDIVDLLLNLKGVVLKLHNRSEAMLTLSKSGEGVVTARDIEGGHDVEII 122 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVP--AKHHRTENDPIGLITIDALYSPIKKVSYT 186 NPDHVI +L + M++ V +G GYVP A+ EN IG I +DA +SP+++VSY Sbjct: 123 NPDHVIAHLAPGGKLEMQIKVEQGRGYVPGNARPVSAENKTIGRIVLDASFSPVRRVSYL 182 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EPKKEVKEDI 245 VESAR Q D D+L + I+T+G++ E+++ A+R+L DQL +F + E P V E Sbjct: 183 VESARVEQRTDLDRLVIDIETNGAVDPEEAIRYAARVLMDQLSVFADLEGTPVAVVPE-- 240 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 K+ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 241 --KTPSIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTETELLKTPNLGRKSLNE 298 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEELA 333 IK VL + GL LGM L +WPP +E+L Sbjct: 299 IKEVLASRGLTLGMKLENWPPAGLEKLG 326 >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 = 295 bits (756), Expect = 5e-78, Method: Compositional matrix adjust. Identities = 154/335 (45%), Positives = 225/335 (67%), Gaps = 12/335 (3%) 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 295 bits (756), Expect = 5e-78, Method: Compositional matrix adjust. Identities = 150/334 (44%), Positives = 230/334 (68%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ E ++P +I+ + + N ++ EP RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQRSVTEFLRPRDIK---VEEINANHAKIVLEPFERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV-TIFKRGPGVVTAGDIQ 120 +I+GVLHE S+I+GV ED+ +I+LN+K + +KM G+ + V + K+GP VVTAGDI Sbjct: 58 EAEIEGVLHEYSAIEGVQEDVIEILLNLKDVAVKMHGNRDEVVLALSKQGPSVVTAGDIA 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALY 177 +D+E++NPDHVI +L+ ++M+L V +G GY PA +E D IG + +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++ E+ + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 KEQEVEEEEDQ---IDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL GL LGM L +WPP S+++ Sbjct: 295 LGKKSLNEIKDVLAARGLSLGMRLENWPPASLKD 328 >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 = 295 bits (755), Expect = 6e-78, Method: Compositional matrix adjust. Identities = 154/332 (46%), Positives = 217/332 (65%), Gaps = 8/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ L R + +P RGF HTLGNALRR+L+SS+ G A T Sbjct: 1 MQNSTTEFLKPRQIDVDTLSA---TRAKVSMQPFERGFGHTLGNALRRILLSSMNGFAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY--VPAKHHRTENDPIGLITIDALYSP 179 +D+E++NPDHV+C+L + + ME+ V +G GY V + 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+ K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N G Sbjct: 238 EVEEE---KAPPIDPVLLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 RKSL EIK VL + GL LG L WPP +E+ Sbjct: 295 RKSLNEIKEVLASKGLTLGSKLEAWPPAGLEK 326 >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 = 295 bits (755), Expect = 6e-78, Method: Compositional matrix adjust. Identities = 154/335 (45%), Positives = 224/335 (66%), Gaps = 12/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|332175074|gb|AEE24328.1| DNA-directed RNA polymerase, alpha subunit [Glaciecola agarilytica 4H-3-7+YE-5] Length = 329 Score = 295 bits (755), Expect = 7e-78, Method: Compositional matrix adjust. Identities = 153/327 (46%), Positives = 221/327 (67%), Gaps = 9/327 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +KP +E + R + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDG Sbjct: 7 EFLKPRLVE---IDNVSPTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDG 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+ +GV ED+ +I+LN+KG+ +++ G + +T+ K G G V AGDIQ D+E+ Sbjct: 64 VLHEYSTKEGVQEDVIEILLNLKGLAVRLEGKTEATLTLVKSGAGPVLAGDIQHDGDVEI 123 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--END-PIGLITIDALYSPIKKVS 184 +NP HV+C L +A + M + V G GYVPA R+ E+D PIG + +DA +SPI ++S Sbjct: 124 VNPSHVLCTLTGEAELSMRIKVEMGRGYVPASTRRSSEEDDRPIGRLLVDASFSPISRIS 183 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VESAR Q D DKL + ++T+G+I E+++ ++ IL +QL F+ + + V+++ Sbjct: 184 YNVESARVEQRTDLDKLIIDMETNGTIDPEEAIRRSATILAEQLDAFVELRDMSEPVEKE 243 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 244 EKPE---FDPILLRPVDDLELTVRSANCLKAEAIQYIGDLVQRTEVELLKTPNLGKKSLT 300 Query: 305 EIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPPESI E Sbjct: 301 EIKDVLASRGLSLGMRLENWPPESIAE 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 = 295 bits (755), Expect = 7e-78, Method: Compositional matrix adjust. Identities = 154/335 (45%), Positives = 223/335 (66%), Gaps = 12/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 295 bits (755), Expect = 7e-78, Method: Compositional matrix adjust. Identities = 155/337 (45%), Positives = 226/337 (67%), Gaps = 16/337 (4%) Query: 2 IQKNWQELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +Q + E +KP+ NIE Q + EPL RGF HTLGNALRR+L+SS+ G A Sbjct: 1 MQGSVTEFLKPHLVNIE-----QVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCA 55 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G VTA DI Sbjct: 56 VTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDIILTLNKSGIGPVTAADI 115 Query: 120 QTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDA 175 D+E++NPDHVIC+L D +A + M + V +G GYVPA H + ++ PIG + +DA Sbjct: 116 THDGDVEIVNPDHVICHLTDKNASINMRIRVQRGRGYVPASARLHTQNDDRPIGRLLVDA 175 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +SP+ +++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ Sbjct: 176 RFSPVDRIAYNVEAARVEQRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLR 235 Query: 236 EPKK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 236 DVRQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLK 291 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 292 TPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 295 bits (755), Expect = 8e-78, Method: Compositional matrix adjust. Identities = 155/338 (45%), Positives = 218/338 (64%), Gaps = 15/338 (4%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTL---MIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +NW EL+KP+ I L E+ + + EPL RG+ T+GNA+RRVL++SL+GAA Sbjct: 13 RNWNELVKPDQI----LRDEDTASSTHGKFVCEPLERGYGTTIGNAMRRVLLASLQGAAF 68 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 +V+I GV HE ++I GV ED+TD++LNIK + L+M D +R+T+ G VTA IQ Sbjct: 69 VSVKITGVQHEFTTIHGVLEDVTDVVLNIKQVRLRMDTDEPQRLTLRVDSKGPVTAAQIQ 128 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 + VLNP+ I L D V+ ME V G GYVPA H D IGLI +D+ +SP+ Sbjct: 129 ANQHVTVLNPEQHIATLTEDVVLEMEFEVRMGKGYVPADMHEGLADEIGLIKLDSSFSPV 188 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KV+Y VE AR GQ+ +YD+L + + TDGS+T ED++A +++I++DQ+ +FINF+E Sbjct: 189 RKVAYAVEQARVGQMTNYDRLILEVWTDGSLTPEDAIAYSAKIIKDQISVFINFDERVSG 248 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + S N L K +++LELSVR+TNCLR NI +G+L+QR+EA+ML+ NFGR Sbjct: 249 DMRHGSSDSGETNEHLFKSIDDLELSVRATNCLRSANIALVGELVQRSEAEMLKTKNFGR 308 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL GM ++ KKY+D Sbjct: 309 KSLDEIKEVLHDMGLDFGMK--------VDGFEKKYQD 338 >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 = 295 bits (754), Expect = 8e-78, Method: Compositional matrix adjust. Identities = 143/307 (46%), Positives = 211/307 (68%), Gaps = 6/307 (1%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 NR ++ EPL RG+ HTLGNALRRVL+SS+ G AIT V+IDGVLHE ++++G+ ED+ ++ Sbjct: 22 NRAKIVIEPLERGYGHTLGNALRRVLLSSIPGFAITEVEIDGVLHEYTTVEGLQEDVLEV 81 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 +LN+K + ++M +++ K+GPGVVTAGDI+T + +E+LNP+HVIC+L D + M Sbjct: 82 LLNLKDVAIRMHTGESATLSLAKQGPGVVTAGDIKTDHSVEILNPEHVICHLTKDTALNM 141 Query: 146 ELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 L + +G GY PA R E IG + +DA +SP+++V+Y+VE+AR Q D DKL Sbjct: 142 RLKIERGFGYQPATSRRRPDEETRAIGRLMLDASFSPVRRVAYSVEAARVEQRTDLDKLV 201 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + I+T+G+I E++V A+ IL DQL +F +F + + +P LL+ +++ Sbjct: 202 IDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPAQAG---VDPVLLRPIDD 258 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KSL EIK VL GL LGM L Sbjct: 259 LELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSLTEIKEVLAQRGLSLGMKLE 318 Query: 323 DWPPESI 329 +WPP + Sbjct: 319 NWPPAGV 325 >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 = 295 bits (754), Expect = 8e-78, Method: Compositional matrix adjust. Identities = 152/334 (45%), Positives = 225/334 (67%), Gaps = 11/334 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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--KHHRTENDPIGLITIDALYS 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 K-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + E+KE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 QPEIKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 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 = 295 bits (754), Expect = 9e-78, Method: Compositional matrix adjust. Identities = 153/335 (45%), Positives = 226/335 (67%), Gaps = 12/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLDNWPPASIAE 328 >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 = 295 bits (754), Expect = 9e-78, Method: Compositional matrix adjust. Identities = 152/327 (46%), Positives = 221/327 (67%), Gaps = 9/327 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +KP +E + R + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDG Sbjct: 7 EFLKPRLVE---IDNVSPTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDG 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+ +GV ED+ +I+LN+KG+ +++ G + +T+ K G G V AGDIQ D+E+ Sbjct: 64 VLHEYSTKEGVQEDVIEILLNLKGLAVRLEGKTEATLTLVKSGAGPVLAGDIQHDGDVEI 123 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--END-PIGLITIDALYSPIKKVS 184 +NP HV+C L +A + M + V G GYVPA R+ E+D PIG + +DA +SP+ ++S Sbjct: 124 VNPSHVLCTLTGEAELSMRIKVEMGRGYVPASTRRSSEEDDRPIGRLLVDASFSPVSRIS 183 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VESAR Q D DKL + ++T+G+I E+++ ++ IL +QL F+ + + V+++ Sbjct: 184 YNVESARVEQRTDLDKLIIDMETNGTIDPEEAIRRSATILAEQLDAFVELRDMSEPVEKE 243 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 244 EKPE---FDPILLRPVDDLELTVRSANCLKAEAIQYIGDLVQRTEVELLKTPNLGKKSLT 300 Query: 305 EIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPPESI E Sbjct: 301 EIKDVLASRGLSLGMRLENWPPESIAE 327 >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 = 294 bits (753), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 161/335 (48%), Positives = 217/335 (64%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ V+ TL EP+ RGF +TLGNALRRVL+SS+ G AIT Sbjct: 1 MQNSPTEYLKPRVVDVDVISPVRARVTL---EPMERGFGYTLGNALRRVLLSSIPGFAIT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYS 178 +D E+ NPDHVI +L + +E+ V G GY P R D +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 KEVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 EV+ VK P +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 SEVE----VKQAPQVDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKAPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEEL 332 GRKSL EIK VL + GL LGM L +WPP +E++ Sbjct: 294 LGRKSLNEIKDVLASKGLTLGMKLENWPPAGLEKV 328 >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 = 294 bits (753), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 158/332 (47%), Positives = 220/332 (66%), Gaps = 8/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ + + R M EP RG+A+TLGNALRR+L+SS+ G A T Sbjct: 1 MQNSASEFLKPRLIDVQPVSATQA-RVAM--EPFERGYAYTLGNALRRILLSSMPGFAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY--VPAKHHRTENDPIGLITIDALYSP 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 E+ ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G Sbjct: 238 EVVEE---RAPQVDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTETELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 RKSL EIK VL + GL LGM L +WPP +E+ Sbjct: 295 RKSLNEIKEVLASKGLTLGMKLENWPPAGLEK 326 >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 = 294 bits (753), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 150/336 (44%), Positives = 225/336 (66%), Gaps = 15/336 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ TL EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQSSVNEFLTPRHIDVQVVSPTRAKITL---EPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++N DH+I NL + + M+L V++G GY PA +++ D IG + +DA +S Sbjct: 118 DHDVEIVNGDHLIANLAANGSLNMKLKVARGRGYEPADARQSDEDESRSIGRLQLDATFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--- 235 P+++V+Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRVAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 EP +ED +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 EPVVVEQED------EIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKT 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP S+++ Sbjct: 292 PNLGKKSLTEIKDVLASRGLSLGMRLDNWPPASLKK 327 >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 = 294 bits (753), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 155/333 (46%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ L TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQLSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 294 bits (752), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 154/335 (45%), Positives = 224/335 (66%), Gaps = 12/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGYAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 NLGKKSLTEIKDVLVSRGLSLGMRLENWPPASIAE 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 = 294 bits (752), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 154/333 (46%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ L TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQLSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 294 bits (752), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 150/331 (45%), Positives = 221/331 (66%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ E + P IE + TL EPL RGF HTLG+ALRR+L+SS+ G A+ Sbjct: 1 MQRSLNEFLTPRTIEVNQINATHAKVTL---EPLERGFGHTLGSALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E+ NPD VICNL+ + V+M+L V++G GY PA + +D IG + +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 EPEKV---EEQEEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASI 325 >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 = 293 bits (751), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 147/303 (48%), Positives = 207/303 (68%), Gaps = 5/303 (1%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EP RGF HTLGNALRR+L+SSL G A T V I+GVLHE S++ GV ED+ D++LN+KG+ Sbjct: 27 EPFERGFGHTLGNALRRILLSSLPGHAPTEVTIEGVLHEYSTLDGVREDIVDLLLNLKGV 86 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 K++G S V + K G GVVTA DI+ +D+E++NPDHVI +L + M++ V +G Sbjct: 87 VFKLNGRSEVTVRLAKAGEGVVTAADIEVGHDVEIINPDHVIAHLAPGGKLDMQIKVEEG 146 Query: 153 HGYVP--AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 GYVP ++ E+ IG + +DA + P+++VSY VESAR Q D D+L + I+T+G+ Sbjct: 147 RGYVPGNSRPENAESKSIGRVVLDASFGPVRRVSYLVESARVEQRTDLDRLIIDIETNGA 206 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 + E+++ A+R+L DQL +F + E E + S +P LL+ V++LEL+VRS Sbjct: 207 VDPEEAIRYAARVLMDQLSVFADLE---GTAPERVEAASPTIDPVLLRPVDDLELTVRSA 263 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL EIK VL + GL LGM L +WPP +E Sbjct: 264 NCLKAENIYYIGDLIQRTETELLKTPNLGRKSLNEIKEVLASRGLTLGMKLENWPPAGLE 323 Query: 331 ELA 333 +L Sbjct: 324 KLG 326 >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 = 293 bits (751), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 149/331 (45%), Positives = 219/331 (66%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E ++P ++ + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLRPRLVD---IEQISSTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 D+E++NP+HVICNL A + M + V+KG GYVPA +D 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 PVSRIAYNVEAARVEQRTNLDKLVIDMETDGTLDPEEAIRRAATILAEQLDAFVDL---R 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 SI Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASI 325 >gi|329298509|ref|ZP_08255845.1| DNA-directed RNA polymerase subunit alpha [Plautia stali symbiont] Length = 329 Score = 293 bits (751), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 154/333 (46%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 293 bits (751), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 152/334 (45%), Positives = 224/334 (67%), Gaps = 11/334 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYS 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 K-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + E+KE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 QPEIKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 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 = 293 bits (751), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 164/345 (47%), Positives = 223/345 (64%), Gaps = 13/345 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +NW LI+P IE + + R + +PL RGF TLGNALRRVL+SS++GAAI Sbjct: 3 RNWCSLIRPRRIE---IDESTHTRFYGEFVCQPLERGFGITLGNALRRVLLSSIQGAAIV 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 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE------ 235 KV+YTV AR GQ+ DYDKLS+ + TDG++ ED+VA A++IL+ QL +F+ Sbjct: 180 KVNYTVTHARVGQIADYDKLSLEVWTDGNVLPEDAVAFAAKILKKQLQVFVGLHTVIGTE 239 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 E ++E + + + N LL+ VE+LELSVRS NCL+ I +G+L+Q++EA+ML+ Sbjct: 240 EVEEEEEGEAVSEKENLNDILLRHVEDLELSVRSANCLKNAGINLIGELVQKSEAEMLKT 299 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNL--PDWPPESIEELAKKYED 338 NFGRKSL EIK +L GL GM L W + EE+ + E+ Sbjct: 300 KNFGRKSLSEIKEILAEYGLTFGMKLEFTPWNKDVREEMGEIQEE 344 >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 = 293 bits (750), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 153/333 (45%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L DWPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLEDWPPASI 326 >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 = 293 bits (750), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 152/334 (45%), Positives = 224/334 (67%), Gaps = 11/334 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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--KHHRTENDPIGLITIDALYS 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 K-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + E+KE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 QPEIKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 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 = 293 bits (750), Expect = 3e-77, Method: Compositional matrix adjust. Identities = 154/332 (46%), Positives = 218/332 (65%), Gaps = 8/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ + ++ EP RG+AHTLGN+LRR+L+SS+ G A T Sbjct: 1 MQNSASEFLKPRLIDVQPVSATHARVSM---EPFERGYAHTLGNSLRRILLSSMPGYAPT 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 VRRVSFAVESARVEQRTDLDRLVLDIETNGVIEPEQAVRNAARILMDQLSIFADLQ---G 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|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 = 293 bits (749), Expect = 3e-77, Method: Compositional matrix adjust. Identities = 154/335 (45%), Positives = 223/335 (66%), Gaps = 12/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E +KP ++ + Q + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGAVTEFLKPRLVD---IEQVSSTQAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 293 bits (749), Expect = 3e-77, Method: Compositional matrix adjust. Identities = 151/332 (45%), Positives = 221/332 (66%), Gaps = 3/332 (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 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 EI+ VL M L GM++ D+ + E L +K Sbjct: 310 DEIRRVLDGMALKFGMSVEDFDKKYQEWLKRK 341 >gi|332107893|gb|EGJ09117.1| DNA-directed RNA polymerase subunit alpha [Rubrivivax benzoatilyticus JA2] Length = 328 Score = 293 bits (749), Expect = 3e-77, Method: Compositional matrix adjust. Identities = 154/326 (47%), Positives = 213/326 (65%), Gaps = 6/326 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG R + EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKAIHVEPLGG---YRAKAVLEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NPDHVI +L + M++ V KG GYVP R ++ IG 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|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 = 293 bits (749), Expect = 4e-77, Method: Compositional matrix adjust. Identities = 153/326 (46%), Positives = 217/326 (66%), Gaps = 9/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP +E + N ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 6 LLKPRIVEVETVAP---NSAKVVMEPFERGYGHTLGNALRRVLLSSMIGYAPTEVSIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S++ GV ED+ D++LN+KGI K+ VT+ + GVVTAGDI+ +D+E++ Sbjct: 63 VHEYSTLDGVQEDVVDLLLNLKGIVFKLESRDVVTVTLKREVEGVVTAGDIELPHDVEII 122 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NPDHVI +L + M++ V KG GYVP R ++P IG 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 AVESARVEQRTDLDRLVMSIETNGVLSPEESIRLAARILVEQLSVFAALE---NTAEPEV 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|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 = 293 bits (749), Expect = 4e-77, Method: Compositional matrix adjust. Identities = 162/334 (48%), Positives = 218/334 (65%), Gaps = 11/334 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ VL TL EP+ RGF +TLGNALRRVL+SS+ G AIT Sbjct: 1 MQNSPTEYLKPRVVDVEVLSPLRARVTL---EPMERGFGYTLGNALRRVLLSSIPGFAIT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYS 178 +D E++NPDHVI +L + +E+ V G GY P + ND +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 KEVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 EV+ VKS P +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 SEVE----VKSAPQVDPVLLRPVDDLELTVRSANCLKAENIFYIGDLIQRTENELLKAPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL T GL LGM L +WPP +E+ Sbjct: 294 LGRKSLNEIKDVLATRGLTLGMKLENWPPVGLEK 327 >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 = 293 bits (749), Expect = 4e-77, Method: Compositional matrix adjust. Identities = 154/336 (45%), Positives = 215/336 (63%), Gaps = 7/336 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW L+ P +E EN EPL RGF TLGNALRRVL+SSL+GAAI AV Sbjct: 13 RNWSTLVHPETLERD--EDSTENYGKFSCEPLERGFGTTLGNALRRVLLSSLQGAAIVAV 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 + EE KK+ ++ Sbjct: 311 EDIRKVIHELGLDFGMKL-----DGFEEQYKKWRER 341 >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 = 293 bits (749), Expect = 4e-77, Method: Compositional matrix adjust. Identities = 158/331 (47%), Positives = 215/331 (64%), Gaps = 14/331 (4%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG L EP RG+ HTLGNA+RRVL+SS+ G A T V I GV Sbjct: 5 LLKPKAINVEQLGHHHAKVAL---EPFERGYGHTLGNAIRRVLLSSMVGYAATEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE SSI GV ED+ +I+LN+KG+ K+ +++ K G G+VTA DIQT +D+E++ Sbjct: 62 LHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGMVTARDIQTPHDVEIV 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSY 185 NPDHVI NL + M++ V KG GY+P R ++ IG I +DA +SP+++VSY Sbjct: 122 NPDHVIANLSQGGKLDMQIKVEKGRGYMPGNLRRYADEVTKSIGRIVLDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F E + Sbjct: 182 TVESARVEQRTDLDKLVVEIETNGAITAEDAVRASAKILVEQLAVFAQLEGGELAA---F 238 Query: 246 NVKSLP-----FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + P F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GR Sbjct: 239 DAPTGPRGNASFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 KSL EIK VL + GL LGM L +WPP +++ Sbjct: 299 KSLNEIKEVLASRGLTLGMKLENWPPAGLDK 329 >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 = 292 bits (748), Expect = 4e-77, Method: Compositional matrix adjust. Identities = 151/334 (45%), Positives = 224/334 (67%), Gaps = 11/334 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYS 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 K-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + E+KE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 QPEIKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 327 >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 = 292 bits (748), Expect = 4e-77, Method: Compositional matrix adjust. Identities = 154/333 (46%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 292 bits (748), Expect = 4e-77, Method: Compositional matrix adjust. Identities = 149/337 (44%), Positives = 222/337 (65%), Gaps = 18/337 (5%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ E + P +I + + TL EPL RGF HTLGNALRR+L+SS+ GAAI Sbjct: 1 MQRSVSEFLTPKSIAVQQVTATQAKVTL---EPLERGFGHTLGNALRRILLSSMPGAAIV 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 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE---- 235 +++V+Y VE+AR Q D DKL + ++T+G+I E+++ A+ ILQ QL +F++ E Sbjct: 178 VRRVAYVVENARVEQRTDLDKLVIDLETNGTIDPEEAIRRAATILQQQLSIFVDLEKESL 237 Query: 236 -EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 EP +E +E +P LL+ V++LEL+VRS NCL+ EN+ Y+GDL+QRTE ++L+ Sbjct: 238 PEPVEEREE--------IDPILLRPVDDLELTVRSANCLKAENVYYIGDLVQRTEVELLK 289 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP S+++ Sbjct: 290 TPNLGKKSLTEIKDVLASKGLSLGMRLENWPPASLKD 326 >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 = 292 bits (748), Expect = 5e-77, Method: Compositional matrix adjust. Identities = 155/335 (46%), Positives = 223/335 (66%), Gaps = 12/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E +KP ++ + Q + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGAVTEFLKPRLVD---IEQISSTQAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLLPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 292 bits (748), Expect = 5e-77, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 292 bits (748), Expect = 5e-77, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >gi|301168432|emb|CBW28022.1| DNA-directed RNA polymerase alpha chain [Bacteriovorax marinus SJ] Length = 337 Score = 292 bits (748), Expect = 5e-77, Method: Compositional matrix adjust. Identities = 148/324 (45%), Positives = 219/324 (67%), Gaps = 4/324 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 + KNW +I+P ++E + N +A+PL RG+ TLGN+LRR L+SSL+GA I Sbjct: 4 FVAKNWTNMIRPVSLEADNESMKA-NYGKFVAKPLERGYGQTLGNSLRRALLSSLQGAGI 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 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND-PIGLITIDALYSP 179 +EVLNP+HVICN+ +++EL V++G GYV A ++ E D 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 EVK--EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 V+ + S P N ALLK V ELELSVRS NCL+ NI Y+ +L+ +TE +MLR N Sbjct: 243 VVRLEKAPAQASSPANSALLKPVSELELSVRSANCLQNANIKYIYELVSKTEGEMLRTKN 302 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNL 321 FGRKSL EIK +L MGL LGM + Sbjct: 303 FGRKSLNEIKEILSNMGLGLGMKV 326 >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 = 292 bits (747), Expect = 5e-77, Method: Compositional matrix adjust. Identities = 157/326 (48%), Positives = 212/326 (65%), Gaps = 8/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVESLG---ENHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVVTAGDI+ +D EV+ Sbjct: 62 VHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAGDIELAHDCEVI 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NPDHVI +L + +++ V KG GYVP R D IG I +DA +SP+++VSY Sbjct: 122 NPDHVIAHLSKGGKLDVQIKVEKGRGYVPGNVRRYGEDTAKIIGRIVLDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+T G IT E+++ ++RIL DQL +F E E + Sbjct: 182 AVESARVEQRTDLDKLVMNIETTGVITPEEAIRQSARILVDQLSVFAALE--GTETAAEA 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 240 PSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 299 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +++ Sbjct: 300 IKEVLASRGLTLGMKLENWPPAGLDK 325 >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 = 292 bits (747), Expect = 5e-77, Method: Compositional matrix adjust. 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 TVN-DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 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|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 = 292 bits (747), Expect = 5e-77, Method: Compositional matrix adjust. Identities = 151/332 (45%), Positives = 221/332 (66%), Gaps = 9/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E + P I+ + + R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQSAVNEFLTPRVID---VDEVSSTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +DIE+ NPDH+I L+ + M LT+ +G GYVPA +++++ IG + +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++ E K Sbjct: 178 PVHRVAYVVESARVEQRTDLDKLVLDLETNGTIDPEEAIRRAATILQQQLSVFVDLESEK 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N Sbjct: 238 EAEP---EEEEDEVDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 G+KSL EIK VL + GL LG+ L +WPP S++ Sbjct: 295 GKKSLTEIKDVLASRGLSLGLRLDNWPPASLK 326 >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 = 292 bits (747), Expect = 5e-77, Method: Compositional matrix adjust. Identities = 154/329 (46%), Positives = 215/329 (65%), Gaps = 8/329 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 ++ E +KP +E + + +I EP RG+ HTLGNALRR+L+SS+ G A T V Sbjct: 2 QSATEFLKPRIVE---VDRASPLHAKVIMEPFERGYGHTLGNALRRILLSSMVGYAPTEV 58 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 I GV+HE S+I+GV ED+ DI+LN+KGI KM G + + + K G GVVTAGDI+ + Sbjct: 59 AISGVVHEYSTIEGVQEDVVDILLNLKGIAFKMHGKAEAILKVSKSGEGVVTAGDIEVGH 118 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIK 181 DIEVLNPDHVI +L + ME+ + G GY PA + E +G I +DA +SP++ Sbjct: 119 DIEVLNPDHVIAHLTKGGKLDMEIKIEAGRGYQPATARKVSEETRAVGSILVDASFSPVR 178 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +V+Y VESAR Q D D+L + I+T+G + E++V A+RIL QL +F + E E Sbjct: 179 RVAYAVESARVEQRTDLDRLVIDIETNGVVEPEEAVRTAARILVSQLSVFADLEGTPAES 238 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +S +P LL+ V++LEL+VRS NCL+ ENI ++GDLIQR+E ++LR N GRK Sbjct: 239 E---SPRSPQVDPLLLRPVDDLELTVRSANCLKAENIYFIGDLIQRSETELLRTPNLGRK 295 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 SL EIK VL + GL LGM L +WPP +E Sbjct: 296 SLNEIKDVLASKGLSLGMKLENWPPAGLE 324 >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 = 292 bits (747), Expect = 6e-77, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 292 bits (747), Expect = 6e-77, Method: Compositional matrix adjust. Identities = 160/340 (47%), Positives = 220/340 (64%), Gaps = 19/340 (5%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTL---MIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +NW +L++P I + + N T+ EPL RG+ T+GNALRRVL+SSL+GAA Sbjct: 13 RNWAKLVRPEQI----VCDSDPNDTMYGKFTYEPLERGYGVTIGNALRRVLLSSLQGAAF 68 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGD 118 AV+I GV HE ++I GV ED+TD+ILNIK + L M+ D H +++ K+GP VTA D Sbjct: 69 VAVKISGVQHEFTTIPGVLEDITDVILNIKQVRLGMTTDEPQHLTLSVSKKGP--VTAAD 126 Query: 119 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYS 178 I T ++EVLNP+ I L D + ME V G GYVPA H D IGLI +DA +S Sbjct: 127 IMTNANVEVLNPELHIATLTEDMELSMEFEVRMGKGYVPADMHEGLPDTIGLIKLDASFS 186 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P++KV+YTVE AR GQ+ +YDKL + + TDGS+ ED++A +++I++DQ+ +FI+F+E Sbjct: 187 PVRKVAYTVEQARVGQMTNYDKLILEVWTDGSVLPEDAIAYSAKIIKDQISVFISFDERI 246 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 S N L K ++ELELSVR+TNCLR NI +G+L+QR EA+ML+ NF Sbjct: 247 SGESGGEGGGSADINDNLFKGIDELELSVRATNCLRSANIATVGELVQRPEAEMLKTKNF 306 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 G+KSL EIK VL +MGL GM I+ KKY++ Sbjct: 307 GKKSLDEIKAVLESMGLDFGM--------KIDNFEKKYQE 338 >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 = 292 bits (747), Expect = 6e-77, Method: Compositional matrix adjust. Identities = 154/333 (46%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 291 bits (746), Expect = 7e-77, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 291 bits (746), Expect = 7e-77, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 291 bits (746), Expect = 7e-77, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 291 bits (746), Expect = 8e-77, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 221/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 291 bits (746), Expect = 8e-77, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 291 bits (746), Expect = 8e-77, Method: Compositional matrix adjust. Identities = 156/326 (47%), Positives = 214/326 (65%), Gaps = 8/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVESLG---ENHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVVTAGDI+ +D EV+ Sbjct: 62 VHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAGDIELAHDCEVI 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NP+HVI +L + +++ V KG GYVP R ++ IG I +DA +SP+++VSY Sbjct: 122 NPNHVIAHLSKGGKLDVQIKVEKGRGYVPGNVRRYGDETAKIIGRIVLDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVESAR Q D DKL M I+T G IT E+++ ++RIL DQL +F E E + Sbjct: 182 TVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALE--GTETAAEA 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 240 PSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 299 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +++ Sbjct: 300 IKEVLASRGLTLGMKLENWPPAGLDK 325 >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 = 291 bits (746), Expect = 8e-77, Method: Compositional matrix adjust. Identities = 157/344 (45%), Positives = 227/344 (65%), Gaps = 16/344 (4%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRT----LMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +NW EL+KP+ I +EEE + I EPL RG+ T+GNA+RRVL++SL+GAA Sbjct: 13 RNWSELVKPDQIL-----REEETASGTHGKFICEPLERGYGTTIGNAMRRVLLASLQGAA 67 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +V+I GV HE ++I GV ED+TD+ILN+K + L++ D +R+ + G VTA I Sbjct: 68 FVSVKITGVQHEFTTIHGVLEDVTDVILNLKQVRLRLDTDEPQRLILRVDRKGPVTAAQI 127 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 QT +EVLNP+ I L D V+ MEL G GYVPA H ++ IGLI +D+ +SP Sbjct: 128 QTNQHVEVLNPELHIATLTEDVVLEMELEARMGKGYVPADMHEGLSEEIGLIKLDSSFSP 187 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 ++KV+YTVE AR GQ+ +YD+L + + TDGS+T ED++A +++I++DQ+ +FINF+E Sbjct: 188 VRKVAYTVEQARVGQMTNYDRLLLEVWTDGSLTPEDAIAYSAKIIKDQISVFINFDE--- 244 Query: 240 EVKEDINVKSL---PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 V D+ + S N L K +++LELSVR+TNCLR NI +G+L+QR+E +ML+ Sbjct: 245 RVSGDMRLGSSDGGEVNEHLFKSIDDLELSVRATNCLRSANIALVGELVQRSEGEMLKTK 304 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 NFGRKSL EIK VL MGL GM + D + +E +K +++ Sbjct: 305 NFGRKSLDEIKSVLLDMGLDFGMKV-DGFDKKYQEWKRKQQNEA 347 >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 = 291 bits (746), Expect = 8e-77, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 291 bits (745), Expect = 8e-77, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 291 bits (745), Expect = 9e-77, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 291 bits (745), Expect = 9e-77, Method: Compositional matrix adjust. Identities = 153/333 (45%), Positives = 221/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 291 bits (745), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 154/328 (46%), Positives = 216/328 (65%), Gaps = 5/328 (1%) Query: 9 LIKPNNIEYIVLGQEE-ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 L+KP I L + +R + EP RG+ HTLGNALRRVL+SS+ G A T V I G Sbjct: 5 LLKPKAINVEPLSAAKGAHRAKVTLEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAG 64 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+ ++LN+KG+ ++ + + K G G V AGDIQT +D+E+ Sbjct: 65 VLHEYSAIDGVQEDVVHVMLNLKGVVFRLHNRDEVTLVLRKEGEGPVKAGDIQTPHDVEI 124 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVS 184 +NPDHVI +L + M++ V KG GYVP R ++P IG I +DA +SP+++VS Sbjct: 125 INPDHVITHLSQGGKLDMQIKVEKGRGYVPGTMRRFGDEPTKSIGRIVLDASFSPVRRVS 184 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 YTVESAR Q D DKL M I+T+G+IT E+++ +++IL +QL +F E ++ + Sbjct: 185 YTVESARVEQRTDLDKLVMEIETNGAITPEEAIRASAKILVEQLAVFAQLEGQINDIFDA 244 Query: 245 INV-KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 +S F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 245 QPAQRSTQFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTETELLKTPNLGRKSL 304 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LG L +WPP+ +++ Sbjct: 305 NEIKEVLASRGLTLGGRLENWPPQGLDK 332 >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 = 291 bits (745), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 157/343 (45%), Positives = 222/343 (64%), Gaps = 14/343 (4%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW L+KP+ ++ E+ + EPL RGF +T GNALRR+L+SSL+GAAI A+ Sbjct: 13 RNWSSLVKPDQVQRDEKSTEQYGK--FSCEPLERGFGNTFGNALRRILLSSLQGAAIVAI 70 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +ID HE ++I GV ED+TDI+LN+K + KMS D +++ + G VTA IQT Sbjct: 71 KIDNAPHEFATITGVVEDVTDIVLNLKQVRFKMSRDEPQKLKLVANEKGQVTAKAIQTNQ 130 Query: 124 DIEVLNPDHVICNL--DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +I VLNPD I L D+D V+ +E V G GYVP++ H ++ IGLI +DA +SPI+ Sbjct: 131 NIAVLNPDQHIATLSQDIDLVINIE--VRMGKGYVPSEQHEDLDEEIGLIPMDATFSPIR 188 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSYTVE AR GQ+ +YDKL + I TDGS+ ED++A +++IL+DQL +FINF+E + Sbjct: 189 KVSYTVEQARVGQMTNYDKLILEIHTDGSVLPEDALAYSAKILKDQLSVFINFDESQT-- 246 Query: 242 KEDINV----KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 DINV +P L K +EELEL VR+ NCLR I +G+LIQ++E D+LR N Sbjct: 247 --DINVIDTNSDEGLDPKLFKTIEELELPVRAGNCLRNAGIRLVGELIQQSENDLLRTKN 304 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 FGRKSL +I+ V+ MG + ++ + E L +K +D+ Sbjct: 305 FGRKSLEDIRRVIEQMGYDFNTQIDNFDQKYQEWLKRKEDDEA 347 >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 = 291 bits (745), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 153/333 (45%), Positives = 221/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >gi|330430070|gb|AEC21404.1| DNA-directed RNA polymerase alpha chain [Pusillimonas sp. T7-7] Length = 329 Score = 291 bits (745), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 150/327 (45%), Positives = 213/327 (65%), Gaps = 6/327 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 Q +KP +IE +G+ N ++ EP RG+ HTLGNALRR+L+SS+ G A T VQ+ Sbjct: 4 QGFLKPRSIEVEPVGK---NHARVVMEPFERGYGHTLGNALRRILLSSMTGYAPTEVQMT 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKV 183 ++NPDHVI NL + M++ V +G GYVP +D IG 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 VEIKGVLGTMGLFLGMNLPDWPPESIE 330 EIK VL GL LGM L +WPP +E Sbjct: 301 NEIKEVLAARGLTLGMKLENWPPLGLE 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 = 291 bits (745), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >gi|322659535|gb|EFY55779.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 19N] Length = 329 Score = 291 bits (745), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 221/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 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 = 291 bits (745), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >gi|284006138|emb|CBA71380.1| DNA-directed RNA polymerase alpha chain [Arsenophonus nasoniae] Length = 329 Score = 291 bits (745), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 153/333 (45%), Positives = 220/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE- 236 SP+++++Y VE+ R Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEATRVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 K EVK++ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 AKVEVKDE----KPEFDPILLRAVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >gi|330432099|gb|AEC17158.1| DNA-directed RNA polymerase subunit alpha [Gallibacterium anatis UMN179] Length = 327 Score = 291 bits (744), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 151/333 (45%), Positives = 222/333 (66%), Gaps = 10/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVDIEQISPTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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-DVDAVVRMELTVSKGHGYVPAKHH-RTENDPIGLITIDALYSP 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 -EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 PEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNL 293 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 294 GKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 326 >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 = 291 bits (744), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 151/333 (45%), Positives = 221/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 291 bits (744), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 291 bits (744), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 151/326 (46%), Positives = 215/326 (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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSY 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|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 = 291 bits (744), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 149/334 (44%), Positives = 222/334 (66%), Gaps = 7/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q EL+KP ++ VL + R ++ EPL RGF +TLGNALRR+L+SS+ G A+T Sbjct: 1 MQLGSTELLKPRLVDVQVL---DATRARVVLEPLERGFGYTLGNALRRILLSSIPGVAVT 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 RRVSYSVERARVEQRTDLDSLVLDIETNGSISAEDAIRQAAGILVDQLSVFVDL---KAE 234 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G+ Sbjct: 235 KVEPVVEQAPAVDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEIELLKTPNLGK 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 KSL EIK VL GL LG L +WPP + LA+ Sbjct: 295 KSLTEIKDVLAKQGLSLGQRLENWPPAELLNLAE 328 >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 = 291 bits (744), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 291 bits (744), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 153/333 (45%), Positives = 221/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 291 bits (744), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 221/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 291 bits (744), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 152/338 (44%), Positives = 220/338 (65%), Gaps = 15/338 (4%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTL---MIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +NW EL+KP I E + T+ + EPL RG+A T+GNA+RRVL+SSL+GAA Sbjct: 13 RNWSELVKPEQISR----DGEVSDTMYGKFVCEPLERGYATTIGNAMRRVLLSSLQGAAF 68 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 AV+I GV HE ++I GV ED+TD++LN+K + L M + + + + G +TAGD++ Sbjct: 69 VAVKISGVQHEFTTIPGVLEDVTDVVLNLKQVRLAMDTEEPQYLELKVDKRGAITAGDVR 128 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T + VLNPD I L D + EL V G GYVPA H ++ IGLI +DA +SP+ Sbjct: 129 TNQHVMVLNPDQHIATLTEDIELTFELEVRMGKGYVPADMHEGLSEEIGLIKLDASFSPV 188 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KV+YTVE AR GQ+ +YDKL + + TDGS++ ED++A +++I++DQ+ +FINF+E Sbjct: 189 RKVAYTVEQARVGQMTNYDKLILEVWTDGSVSPEDAIAYSAKIIKDQISVFINFDERISG 248 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + S FN L K ++ELELSVR+TNCL+ NI +G+L+Q++E +ML+ NFGR Sbjct: 249 ENSNGSADSGEFNEHLFKSIDELELSVRATNCLKSANIALVGELVQKSENEMLKTKNFGR 308 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EI+ VLG MGL G ++ KKY++ Sbjct: 309 KSLDEIRRVLGDMGLDFGTK--------VDGFEKKYQE 338 >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 = 291 bits (744), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 151/326 (46%), Positives = 215/326 (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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSY 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|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 = 291 bits (744), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 148/334 (44%), Positives = 222/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + R+ ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIDAINP---TRSKVVLEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALY 177 D+ + NPDHVICNL ++ + M + V +G GYVPA + +D 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 SPVERIAYSVESARVEQRTDLDKLIIDMETNGTLDPEEAIRRASTILAEQLDAFVDL--- 234 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 235 RDVTEPEEKEEKPEFDPILLRPVDDLELTVRSANCLKAEQIQYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASLAE 328 >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 = 290 bits (743), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 151/330 (45%), Positives = 218/330 (66%), Gaps = 19/330 (5%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E + P I+ + E + ++ EP RGF HTLGN+LRR+L+SS+ GAA+T V+IDG Sbjct: 5 EFLTPRQIK---VESSEGTKARVVLEPFERGFGHTLGNSLRRILLSSMPGAAVTEVEIDG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+ DI+LN+KG+ +++ +T+ K+G GVVTA DI+ V+ EV Sbjct: 62 VLHEYSAIEGVQEDVIDILLNLKGLAVRLEDKEVATLTLQKKGEGVVTAADIEEVSGTEV 121 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYSPIKKVS 184 +N DH I L+ + M + + G GY + K E+ IG++ +DA +SP+KKVS Sbjct: 122 VNKDHYIATLNKGGALNMRIKIRLGRGYEASNTRKQPEGEDKAIGVLQVDASFSPMKKVS 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-----EPKK 239 YTVESAR Q D DKL + ++T+G+I E+++ ++ ILQ+QL F++ + EP+K Sbjct: 182 YTVESARVEQRTDLDKLVLDLETNGTIDPEEAIRRSATILQEQLAAFVDLKDEKQAEPEK 241 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 E E +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G Sbjct: 242 EEPE--------IDPILLRPVDDLELTVRSANCLKTENIHYIGDLVQRTEVELLKTPNLG 293 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 KKSLTEIKDVLASRGLSLGMRLENWPPSSI 323 >gi|42799|emb|CAA26395.1| unnamed protein product [Escherichia coli] Length = 329 Score = 290 bits (743), Expect = 1e-76, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 221/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 290 bits (743), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 151/334 (45%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 290 bits (743), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 147/305 (48%), Positives = 211/305 (69%), Gaps = 9/305 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 M EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+ Sbjct: 1 MTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELT 148 KG+ +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + Sbjct: 61 KGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIK 120 Query: 149 VSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 V +G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D DKL + + Sbjct: 121 VQRGRGYVPASTRIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEM 180 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELE 264 +T+G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LE Sbjct: 181 ETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLE 236 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +W Sbjct: 237 LTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENW 296 Query: 325 PPESI 329 PP SI Sbjct: 297 PPASI 301 >gi|332037268|gb|EGI73723.1| DNA-directed RNA polymerase alpha subunit [Pseudoalteromonas haloplanktis ANT/505] Length = 328 Score = 290 bits (743), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 148/334 (44%), Positives = 222/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + R+ ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIDAINP---TRSKIVLEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALY 177 D+ + NPDHVICNL ++ + M + V +G GYVPA + +D 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 SPVERIAYSVESARVEQRTDLDKLIIDMETNGTLDPEEAIRRASTILAEQLDAFVDL--- 234 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 235 RDVTEPEEKEEKPEFDPILLRPVDDLELTVRSANCLKAEQIQYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASLAE 328 >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 = 290 bits (743), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 148/334 (44%), Positives = 222/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + R+ ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIDAINP---TRSKIVLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 VNDIEVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALY 177 D+ + NPDHVICNL ++ + M + V +G GYVPA + +D 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 SPVERIAYSVESARVEQRTDLDKLIIDMETNGTLDPEEAIRRASTILAEQLDAFVDL--- 234 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 235 RDVTEPEEKEEKPEFDPILLRPVDDLELTVRSANCLKAEQIQYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASLAE 328 >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 = 290 bits (743), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 155/326 (47%), Positives = 212/326 (65%), Gaps = 8/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVESLG---ENHARVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVVTAGDI+ +D EV+ Sbjct: 62 VHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAGDIELAHDCEVI 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NP+HVI +L + +++ + KG GYVP R D IG I +DA +SP+++VSY Sbjct: 122 NPNHVIAHLSKGGKLDVQIKIEKGRGYVPGNVRRYGEDTAKIIGRIVLDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+T G IT E+++ ++RIL DQL +F E E + Sbjct: 182 AVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALE--GTETAAEA 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 240 PSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 299 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +++ Sbjct: 300 IKEVLASRGLTLGMKLENWPPAGLDK 325 >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 = 290 bits (743), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 221/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 290 bits (742), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 152/332 (45%), Positives = 220/332 (66%), Gaps = 11/332 (3%) 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-HHRTEND--PIGLITIDALYS 178 D+ V+NPDHVIC+L + V M + V +G GYVPA +TE+D 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 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFVEL---- 233 Query: 239 KEVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++V E V+ P F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 234 RDVTEAAPVEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 294 LGKKSLTEIKDVLASRGLSLGMRLENWPPASL 325 >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 = 290 bits (742), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 155/326 (47%), Positives = 212/326 (65%), Gaps = 8/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVESLG---ENHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVVTAGDI+ +D EV+ Sbjct: 62 VHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAGDIELAHDCEVI 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NP+HVI +L + +++ + KG GYVP R D IG I +DA +SP+++VSY Sbjct: 122 NPNHVIAHLSKGGKLDVQIKIEKGRGYVPGNVRRYGEDTAKIIGRIVLDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+T G IT E+++ ++RIL DQL +F E E + Sbjct: 182 AVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALE--GTETAAEA 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 240 PSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 299 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +++ Sbjct: 300 IKEVLASRGLTLGMKLENWPPAGLDK 325 >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 = 290 bits (742), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 153/333 (45%), Positives = 221/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 290 bits (742), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 147/305 (48%), Positives = 211/305 (69%), Gaps = 9/305 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 M EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+ Sbjct: 1 MTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELT 148 KG+ +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + Sbjct: 61 KGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIK 120 Query: 149 VSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 V +G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D DKL + + Sbjct: 121 VRRGRGYVPASTRIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEM 180 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELE 264 +T+G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LE Sbjct: 181 ETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLE 236 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +W Sbjct: 237 LTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENW 296 Query: 325 PPESI 329 PP SI Sbjct: 297 PPASI 301 >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 = 290 bits (742), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 151/332 (45%), Positives = 220/332 (66%), Gaps = 11/332 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVNSTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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-HHRTEND--PIGLITIDALYS 178 D+ ++NPDHVIC+L + + M + V +G GYVPA +TE+D 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+ Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFVEL---- 233 Query: 239 KEVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++V E V+ P F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 234 RDVTEQAVVEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 294 LGKKSLTEIKDVLASRGLSLGMRLENWPPASL 325 >gi|289669368|ref|ZP_06490443.1| DNA-directed RNA polymerase subunit alpha [Xanthomonas campestris pv. musacearum NCPPB4381] Length = 332 Score = 290 bits (742), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 145/311 (46%), Positives = 215/311 (69%), Gaps = 8/311 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR ++ EPL RG+ HTLGNALRRVL+SS+ G AIT V+IDGVLHE ++++G+ ED+ D Sbjct: 21 DNRAKVVIEPLKRGYGHTLGNALRRVLLSSIPGFAITEVEIDGVLHEYTTVEGLQEDVLD 80 Query: 85 IILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 ++LN+K + ++M SGDS +++ K+GPG VTA DI+T +++E++N DHVIC+L D + Sbjct: 81 VLLNLKDVAIRMHSGDSAT-LSLSKQGPGTVTAADIRTDHNVEIINGDHVICHLTKDTAL 139 Query: 144 RMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 M L + +G GY PA R E IG + +DA +SP+++V+Y VE+AR Q D DK Sbjct: 140 NMRLKIERGFGYQPAAARRRPDEETRTIGRLMLDASFSPVRRVAYAVEAARVEQRTDLDK 199 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + I+T+G+I E++V A+ IL DQL +F +F + + + +P LL+ + Sbjct: 200 LVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKP---AASGVDPVLLRPI 256 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 ++LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KSL EIK VL GL LGM Sbjct: 257 DDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSLTEIKEVLAQRGLALGMK 316 Query: 321 LPDWPPESIEE 331 L +WPP + + Sbjct: 317 LENWPPAGVAQ 327 >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 = 290 bits (742), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 153/333 (45%), Positives = 221/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 290 bits (742), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 221/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 290 bits (742), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 145/311 (46%), Positives = 215/311 (69%), Gaps = 8/311 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR ++ EPL RG+ HTLGNALRRVL+SS+ G AIT V+IDGVLHE ++++G+ ED+ D Sbjct: 21 DNRAKVVIEPLERGYGHTLGNALRRVLLSSIPGFAITEVEIDGVLHEYTTVEGLQEDVLD 80 Query: 85 IILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 ++LN+K + ++M SGDS +++ K+GPG VTA DI+T +++E++N DHVIC+L D + Sbjct: 81 VLLNLKDVAIRMHSGDSAT-LSLSKQGPGTVTAADIRTDHNVEIINGDHVICHLTKDTAL 139 Query: 144 RMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 M L + +G GY PA R E IG + +DA +SP+++V+Y VE+AR Q D DK Sbjct: 140 NMRLKIERGFGYQPAAARRRPDEETRTIGRLMLDASFSPVRRVAYAVEAARVEQRTDLDK 199 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + I+T+G+I E++V A+ IL DQL +F +F + + + +P LL+ + Sbjct: 200 LVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKP---AASGVDPVLLRPI 256 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 ++LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KSL EIK VL GL LGM Sbjct: 257 DDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSLTEIKEVLAQRGLALGMK 316 Query: 321 LPDWPPESIEE 331 L +WPP + + Sbjct: 317 LENWPPAGVAQ 327 >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 = 290 bits (742), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 221/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 HVIC+L D 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 290 bits (742), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 143/310 (46%), Positives = 215/310 (69%), Gaps = 6/310 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ENR ++ EPL RG+AHTLGNALRRVL+SS+ G+AIT V+IDGVLHE ++++G+ ED+ + Sbjct: 21 ENRAKVVLEPLGRGYAHTLGNALRRVLLSSIPGSAITQVEIDGVLHEYTTVEGLQEDVLE 80 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 ++LN+K + +++ +++FK+G GVVTA DI+T +++E++N HVIC+L D + Sbjct: 81 VLLNLKDVAIRIHSGDTATLSLFKQGAGVVTAADIKTDHNVEIINDGHVICHLTKDTTIN 140 Query: 145 MELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 M L V +G GY PA R EN IG + +DA +SP+++V+Y VE+AR Q D DKL Sbjct: 141 MRLKVERGFGYQPAVVRRRPDDENRTIGRLILDASFSPVRRVAYVVEAARVEQRTDLDKL 200 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + I+T+G+I E+++ A+ IL DQL +F +F + + S +P LL+ ++ Sbjct: 201 IIDIETNGTIDAEEALRTAADILTDQLSVFGDFTHRDRGT---VKPASSGVDPVLLRPID 257 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KSL EIK VLG GL LG+ L Sbjct: 258 DLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSLTEIKEVLGQRGLGLGVKL 317 Query: 322 PDWPPESIEE 331 +WPP + + Sbjct: 318 ENWPPPGVSQ 327 >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 = 290 bits (741), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 152/333 (45%), Positives = 221/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFVPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 290 bits (741), Expect = 3e-76, Method: Compositional matrix adjust. Identities = 151/332 (45%), Positives = 216/332 (65%), Gaps = 11/332 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E ++P + + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLRPRLVGIETVSPRRAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYS 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+ Sbjct: 178 PVVRIAYDVDSARVEQRTDLDKLVLDMETNGTLDPEEAIRRASTILAEQLDAFVEL---- 233 Query: 239 KEVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 +++KE V+ P F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QR E ++L+ N Sbjct: 234 RDIKEVEQVEEKPLFDPILLRPVDDLELTVRSANCLKAEAIQYIGDLVQRAEVELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPPESI Sbjct: 294 LGKKSLTEIKDVLASRGLSLGMRLENWPPESI 325 >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 = 290 bits (741), Expect = 3e-76, Method: Compositional matrix adjust. Identities = 151/327 (46%), Positives = 219/327 (66%), Gaps = 12/327 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T V+IDG Sbjct: 3 EFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDG 59 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI D+E+ Sbjct: 60 VLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEI 119 Query: 128 LNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 + P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP++++ Sbjct: 120 VKPQHVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACYSPVERI 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK-EVK 242 +Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ EVK Sbjct: 180 AYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVK 239 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 E+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KS Sbjct: 240 EE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKS 295 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESI 329 L EIK VL + GL LGM L +WPP SI Sbjct: 296 LTEIKDVLASRGLSLGMRLENWPPASI 322 >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 = 290 bits (741), Expect = 3e-76, Method: Compositional matrix adjust. Identities = 151/332 (45%), Positives = 220/332 (66%), Gaps = 11/332 (3%) 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-HHRTEND--PIGLITIDALYS 178 D+ ++NPDHVIC+L + V M + V +G GYVPA +TE+D 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 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFVEL---- 233 Query: 239 KEVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++V E V+ P F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 234 RDVTETAPVEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 294 LGKKSLTEIKDVLASRGLSLGMRLENWPPASL 325 >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 = 290 bits (741), Expect = 3e-76, Method: Compositional matrix adjust. Identities = 155/326 (47%), Positives = 213/326 (65%), Gaps = 8/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVESLG---ENHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVVTAGDI+ +D EV+ Sbjct: 62 VHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAGDIELAHDCEVI 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NP+HVI +L + +++ V KG GYVP R ++ IG I +DA +SP+++VSY Sbjct: 122 NPNHVIAHLSKGGKLDVQIKVEKGRGYVPGNVRRYGDETAKIIGRIVLDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+T G IT E+++ ++RIL DQL +F E E + Sbjct: 182 AVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALE--GTETAAEA 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 240 PSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 299 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +++ Sbjct: 300 IKEVLASRGLTLGMKLENWPPAGLDK 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 = 290 bits (741), Expect = 3e-76, Method: Compositional matrix adjust. Identities = 151/332 (45%), Positives = 220/332 (66%), Gaps = 11/332 (3%) 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-HHRTEND--PIGLITIDALYS 178 D+ ++NPDHVIC+L + V M + V +G GYVPA +TE+D 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 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFVEL---- 233 Query: 239 KEVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++V E V+ P F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 234 RDVTETAPVEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 294 LGKKSLTEIKDVLASRGLSLGMRLENWPPASL 325 >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 = 290 bits (741), Expect = 3e-76, Method: Compositional matrix adjust. Identities = 143/310 (46%), Positives = 214/310 (69%), Gaps = 6/310 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ENR ++ EPL RG+AHTLGNALRRVL+SS+ G AIT V+IDGVLHE ++++G+ ED+ + Sbjct: 21 ENRAKVVLEPLGRGYAHTLGNALRRVLLSSIPGFAITEVEIDGVLHEYTTVEGLQEDVLE 80 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 ++LN+K + +++ +++FK+G GVVTA DI+T +++E++N HVIC+L D + Sbjct: 81 VLLNLKDVAIRIHSGDTATLSLFKQGAGVVTAADIKTDHNVEIINDGHVICHLTKDTTIN 140 Query: 145 MELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 M L + +G GY PA R EN IG + +DA +SP+++V+Y VE+AR Q D DKL Sbjct: 141 MRLKIERGFGYQPAVVRRRPDDENRTIGRLILDASFSPVRRVAYVVEAARVEQRTDLDKL 200 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + I+T+G+I E+++ A+ IL DQL +F NF + + S +P LL+ ++ Sbjct: 201 IIDIETNGTIDAEEALRTAADILTDQLSVFGNFTHRDRGT---VKPASSGVDPVLLRPID 257 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KSL EIK VLG GL LG+ L Sbjct: 258 DLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSLTEIKEVLGQRGLGLGVKL 317 Query: 322 PDWPPESIEE 331 +WPP + + Sbjct: 318 ENWPPPGVSQ 327 >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 = 290 bits (741), Expect = 3e-76, Method: Compositional matrix adjust. Identities = 149/331 (45%), Positives = 219/331 (66%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E ++P ++ + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLRPRLVD---IEQISSTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 D+E++NP+HVI NL A + M + V+KG GYVPA +D 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 PVSRIAYNVESARVEQRTNLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDL---R 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 SI Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASI 325 >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 = 290 bits (741), Expect = 3e-76, Method: Compositional matrix adjust. Identities = 148/308 (48%), Positives = 212/308 (68%), Gaps = 15/308 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 M EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +I+LN+ Sbjct: 1 MTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEILLNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVVRMELT 148 KGI +K+ G +++ K G G VTAGDI +++E++NP+HVIC+L +A + M L Sbjct: 61 KGIAVKLEGKDEVTLSLTKSGTGPVTAGDITYGDEVEIVNPEHVICHLTGANAEISMRLK 120 Query: 149 VSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 V +G GYVPA H+ E PIG + +D+ +SPI +++Y VE+AR Q D DKL + + Sbjct: 121 VQRGRGYVPASARVHNDDEERPIGRLLLDSAFSPIVRIAYNVEAARVEQRTDLDKLVIDM 180 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEE----PKKEVKEDINVKSLPFNPALLKKVE 261 +T+G++ E+++ ++ IL +QL F++ + KKE K + F+P LL+ V+ Sbjct: 181 ETNGTLDPEEAIRRSATILAEQLEAFVDLRDVSVPEKKEEKPE-------FDPILLRPVD 233 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L Sbjct: 234 DLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRL 293 Query: 322 PDWPPESI 329 +WPP SI Sbjct: 294 ENWPPASI 301 >gi|237747390|ref|ZP_04577870.1| RNA polymerase [Oxalobacter formigenes HOxBLS] gi|229378741|gb|EEO28832.1| RNA polymerase [Oxalobacter formigenes HOxBLS] Length = 325 Score = 289 bits (740), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 156/333 (46%), Positives = 218/333 (65%), Gaps = 11/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N+ +KP I LG R+++ EP RG+ HTLGNALRRVL+SS+ G A T Sbjct: 1 MQNNF---LKPRIINVESLGG---GRSIVEMEPFERGYGHTLGNALRRVLLSSMTGYAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYS 178 +D+E++NPDHVI NL + + M++ V KG GYVP R D IG 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 PVRRVSYAVESARVEQRTDLDKLIINIETNGVITAEEAIRQSARILVDQLSVFAALEGTE 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N Sbjct: 235 TTSEALTQVPAV--DPILLRPVDDLELTVRSANCLKAENINYIGDLIQRSENELLKTPNL 292 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LGM L +WPP E+ Sbjct: 293 GRKSLNEIKEVLASRGLTLGMRLDNWPPAGFEK 325 >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 = 289 bits (740), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 146/309 (47%), Positives = 213/309 (68%), Gaps = 8/309 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 + R ++ EPL RG+ HTLGNALRRVL+SS+ G AIT V+IDGVLHE ++++G+ ED+ + Sbjct: 21 DTRAKVVIEPLERGYGHTLGNALRRVLLSSIPGFAITEVEIDGVLHEYTTVEGLQEDVLE 80 Query: 85 IILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 ++LN+K + ++M SGDS +++ K+GPGVVTA DI+ +++E+LN DHVIC+L D V Sbjct: 81 VLLNLKDVAIRMHSGDSAT-LSLSKQGPGVVTAADIKVDHNVEILNGDHVICHLTKDTAV 139 Query: 144 RMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 M L + +G GY PA R E IG + +DA +SP+++V+Y VE+AR Q D DK Sbjct: 140 NMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLDK 199 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ + Sbjct: 200 LVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNG---VDPVLLRPI 256 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 ++LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KSL EIK VL GL LGM Sbjct: 257 DDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSLTEIKEVLAQRGLSLGMK 316 Query: 321 LPDWPPESI 329 L +WPP + Sbjct: 317 LENWPPAGV 325 >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 = 289 bits (740), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 154/326 (47%), Positives = 212/326 (65%), Gaps = 8/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVESLG---ENHAKVVMEPFERGYGHTLGNALRRVLLSSMIGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S++ GV ED+ +++LN+KG+ K+ VT+ K G G+VTAGDI+ +D EV+ Sbjct: 62 VHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGIVTAGDIELAHDCEVI 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NPDHVI +L + +++ + KG GYVP R + IG I +DA +SP+++VSY Sbjct: 122 NPDHVIAHLTKGGKLDVQIKIEKGRGYVPGNVRRYGEESAKIIGRIVLDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+T G IT E+++ ++RIL DQL +F E E + Sbjct: 182 AVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALE--GTETAAEA 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 240 PSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 299 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +++ Sbjct: 300 IKEVLASRGLTLGMKLENWPPAGLDK 325 >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 = 289 bits (740), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 154/326 (47%), Positives = 212/326 (65%), Gaps = 8/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVESLG---ENHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S++ GV ED+ +++LN+KG+ K+ VT+ K G G+VTAGDI+ +D EV+ Sbjct: 62 VHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGIVTAGDIELAHDCEVI 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NPDHVI +L + +++ + KG GYVP R + IG I +DA +SP+++VSY Sbjct: 122 NPDHVIAHLTKGGKLDVQIKIEKGRGYVPGNVRRYGEETAKIIGRIVLDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+T G IT E+++ ++RIL DQL +F E E + Sbjct: 182 AVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALE--GTETAAEA 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 240 PSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 299 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +++ Sbjct: 300 IKEVLASRGLTLGMKLENWPPAGLDK 325 >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 = 289 bits (739), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 160/333 (48%), Positives = 217/333 (65%), Gaps = 10/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ V+ TL EP+ RGF +TLGNALRRVL+SS+ G AIT Sbjct: 1 MQNSPTEYLKPRVVDVEVISPVRARVTL---EPMERGFGYTLGNALRRVLLSSIPGFAIT 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 EVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 EV+ VK P +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQR E ++L+ N Sbjct: 238 EVE----VKHTPQVDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRGENELLKAPNL 293 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LGM L +WPP +E+ Sbjct: 294 GRKSLNEIKDVLASKGLTLGMKLENWPPVGLEK 326 >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 = 289 bits (739), Expect = 5e-76, Method: Compositional matrix adjust. Identities = 151/333 (45%), Positives = 222/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 289 bits (739), Expect = 5e-76, Method: Compositional matrix adjust. Identities = 151/333 (45%), Positives = 221/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVI 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 289 bits (739), Expect = 5e-76, Method: Compositional matrix adjust. Identities = 150/326 (46%), Positives = 223/326 (68%), Gaps = 10/326 (3%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M+ N+ E+IKP IE + G+ + +AEP +GF T+GNALRRVL++++ G A+ Sbjct: 1 MVIMNFHEIIKPRKIEAV--GEVTDRYGEYVAEPYEKGFGITIGNALRRVLLATIEGTAV 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 TVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 +E+L PD IC + D + + 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 EVKEDINVKSLPFNPALL----KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 EVK+D + N LL K +EELELSVR+ NCL+ NI + +L +T+A+ML+ Sbjct: 239 EVKQD---EEENQNDQLLDLLDKSIEELELSVRAYNCLKNANIKTLAELCMKTDAEMLKT 295 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNL 321 NFGRKSL EIK VL +GL LGM+L Sbjct: 296 KNFGRKSLEEIKKVLQELGLSLGMDL 321 >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 = 289 bits (739), Expect = 5e-76, Method: Compositional matrix adjust. Identities = 154/333 (46%), Positives = 221/333 (66%), Gaps = 9/333 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +NW +LI P ++E + QE + + +PL RGFA T+GN+LRR+L+SS++G AIT Sbjct: 33 RNWHDLIIPESLE---VDQENHSERFGKFVCQPLERGFATTIGNSLRRILLSSIQGVAIT 89 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 + +IDGVLHE+S+I GV ED T+IILN+K + L++ + + V I K+ GV+TA DI Sbjct: 90 SAKIDGVLHELSTIPGVKEDATEIILNLKEVRLRLHSEKPRMVKIDKKKKGVITAADI-V 148 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 + +EV+NP+ IC + D EL V G GYV A+ +++E IG+I +DA+++PI+ Sbjct: 149 GDQVEVMNPEQHICTITGDGHFVAELEVRWGKGYVSAERNKSEEQTIGVIALDAIFTPIR 208 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK-KE 240 V AR GQ DYDKL + I TDGSI ED++A ++IL++QL +FINF+E + Sbjct: 209 NVKVITSQARVGQQTDYDKLILEITTDGSIRPEDALAYGAKILKEQLQVFINFDEERVVP 268 Query: 241 VKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 VK D P N L + VE+LELSVRS NCLR I ++G+L+Q++EA+ML+ NFG Sbjct: 269 VKSDSEPGEKPKLNENLYRSVEDLELSVRSANCLRNAEINHIGELVQKSEAEMLKTKNFG 328 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDW-PPESIEE 331 RKSL EIK +L M L+LGM + W PP + E+ Sbjct: 329 RKSLNEIKQLLAEMDLYLGMKIDGWEPPPAAEQ 361 >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 = 289 bits (739), Expect = 5e-76, Method: Compositional matrix adjust. Identities = 142/310 (45%), Positives = 210/310 (67%), Gaps = 6/310 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR ++ EPL RG+ HTLGNALRRVL+SS+ G AIT V+ID VLHE ++++G+ ED+ + Sbjct: 21 DNRAKVVIEPLERGYGHTLGNALRRVLLSSIPGFAITEVEIDNVLHEYTTVEGLQEDVLE 80 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 ++LN+K + ++M +++ K+GPG VTA DI+T +++E+LN DHVIC+L D + Sbjct: 81 VLLNLKDVAIRMHTGDSATLSLSKQGPGTVTATDIKTDHNVEILNSDHVICHLTKDTALN 140 Query: 145 MELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 M L + +G GY PA R E IG + +DA +SP+++V+Y VESAR Q D DKL Sbjct: 141 MRLKIERGFGYQPAAARRRPDEETRTIGRLVLDASFSPVRRVAYAVESARVEQRTDLDKL 200 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + I+T+G+I E++V A+ IL DQL +F +F + + S +P LL+ ++ Sbjct: 201 VLDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGA---VKPASNGVDPVLLRPID 257 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KSL EIK VL GL LGM L Sbjct: 258 DLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSLTEIKEVLAQRGLSLGMKL 317 Query: 322 PDWPPESIEE 331 +WPP + + Sbjct: 318 ENWPPAGVAQ 327 >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 = 288 bits (738), Expect = 6e-76, Method: Compositional matrix adjust. Identities = 150/340 (44%), Positives = 219/340 (64%), Gaps = 7/340 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTL---MIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +NW EL+KP+ I E T+ + EPL RG+ T+GNA+RRVL++SL+GAA Sbjct: 13 RNWSELVKPDQISRA----SESADTMYGKFVCEPLERGYGTTIGNAMRRVLLASLQGAAF 68 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 AV+I GV HE ++I GV ED+TDI+LN+K + L M + + + + G V AGDI+ Sbjct: 69 VAVKISGVQHEFTTIPGVLEDVTDIVLNLKQVRLAMDTEEPQHLELHVNKSGEVKAGDIK 128 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 + VLN D + L D + EL V G GYVPA H +D IGLI +DA +SP+ Sbjct: 129 CNQHVMVLNADQHLMTLTEDVELTFELEVRMGKGYVPADMHEGLSDEIGLIALDASFSPV 188 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KV+YTVE AR GQ+ +YDKL + + TDGSI+ ED++A +++I++DQ+ +FINF+E E Sbjct: 189 RKVAYTVEQARVGQMTNYDKLILEVWTDGSISPEDAIAYSAKIIKDQISVFINFDERISE 248 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + + N L K ++ELELSVR+TNCL+ NI +G+L+Q++E +ML+ NFGR Sbjct: 249 QENEGRSSASDVNENLFKGIDELELSVRATNCLKSANISLVGELVQKSEGEMLKTKNFGR 308 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 KSL EI+ VLG M L GM + + + E L +K +++ Sbjct: 309 KSLDEIRRVLGEMSLDFGMKVDGFEKKYQEWLKRKQQNEA 348 >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 = 288 bits (738), Expect = 6e-76, Method: Compositional matrix adjust. Identities = 154/326 (47%), Positives = 211/326 (64%), Gaps = 8/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP IE VLG ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPRIIEVEVLGA---GHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE SS+ GV ED+ D++LN+KG+ K+ +T+ K G G V A DI+ +D+E++ Sbjct: 62 VHEYSSLDGVQEDVVDLLLNLKGVVFKLHNRDDVTLTLKKEGEGAVLASDIELPHDVELV 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSY 185 NPDHVI +L + M++ V KG GYVP R D IG I +DA +SP+++VSY Sbjct: 122 NPDHVIAHLTAGGKLDMQIKVEKGRGYVPGNVRRLSEDTNKTIGRIILDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL + I+T+G IT E+++ ++R+L DQL +F E E D Sbjct: 182 AVESARVEQRTDLDKLVINIETNGVITPEEAIRQSARVLVDQLNVFAALE--GTEAPADA 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N GRKSL E Sbjct: 240 PSRAPAVDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRSENELLKTPNLGRKSLNE 299 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +E+ Sbjct: 300 IKEVLASRGLTLGMKLENWPPAGLEK 325 >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 = 288 bits (738), Expect = 6e-76, Method: Compositional matrix adjust. Identities = 145/309 (46%), Positives = 213/309 (68%), Gaps = 8/309 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 + R ++ EPL RG+ HTLGNALRRVL+SS+ G AIT V+IDGVLHE ++++G+ ED+ + Sbjct: 21 DTRAKVVIEPLERGYGHTLGNALRRVLLSSIPGFAITEVEIDGVLHEYTTVEGLQEDVLE 80 Query: 85 IILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 ++LN+K + ++M SGDS +++ K+GPGVVTA DI+ +++E+LN DHVIC+L D + Sbjct: 81 VLLNLKDVAIRMHSGDSAT-LSLSKQGPGVVTAADIKVDHNVEILNGDHVICHLTKDTAI 139 Query: 144 RMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 M L + +G GY PA R E IG + +DA +SP+++V+Y VE+AR Q D DK Sbjct: 140 NMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLDK 199 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ + Sbjct: 200 LVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNG---VDPVLLRPI 256 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 ++LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KSL EIK VL GL LGM Sbjct: 257 DDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSLTEIKEVLAQRGLSLGMK 316 Query: 321 LPDWPPESI 329 L +WPP + Sbjct: 317 LENWPPAGV 325 >gi|149675708|dbj|BAF64734.1| DNA-directed RNA polymerase alpha subunit [Shewanella livingstonensis] Length = 329 Score = 288 bits (738), Expect = 6e-76, Method: Compositional matrix adjust. Identities = 150/334 (44%), Positives = 221/334 (66%), Gaps = 11/334 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVNSTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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-HHRTEND--PIGLITIDALYS 178 D+ ++NPDHVIC+L + + M + V +G GYVPA +TE+D 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+ Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFVEL---- 233 Query: 239 KEVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++V E V+ P F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 234 RDVTEQAVVEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL +IK VL + GL LGM L +WPP S+ + Sbjct: 294 LGKKSLTDIKDVLASRGLSLGMRLENWPPASLAD 327 >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 = 288 bits (738), Expect = 7e-76, Method: Compositional matrix adjust. Identities = 145/333 (43%), Positives = 222/333 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYS 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|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 = 288 bits (738), Expect = 7e-76, Method: Compositional matrix adjust. Identities = 146/312 (46%), Positives = 217/312 (69%), Gaps = 12/312 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EP RG+ HTLGNALRR+L+SS+ G A T ++I GVLHE S++ GV ED+ DI++NI Sbjct: 24 VVMEPFERGYGHTLGNALRRILLSSMTGYAPTEIKIAGVLHEYSALDGVQEDVVDILMNI 83 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KGI LK+ + +++ K G G+VTA DI+ +D+E++NP+HVI +L + + ++L V Sbjct: 84 KGIVLKLHNNDEVILSLKKSGKGIVTAADIELSHDVEIINPEHVIAHLTSEGKIDVQLKV 143 Query: 150 SKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 KG GY PA ++ E + IG I +DA +SPI++VSY+VESAR Q D DKL + I+ Sbjct: 144 EKGRGYAPANIRKSGINEKNSIGTILLDASFSPIRRVSYSVESARVEQRTDLDKLIVDIE 203 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEE---PKKEVKEDINVKSLPFNPALLKKVEEL 263 T+G++ E+++ A+R+L QL +F + E PK++ ++ +P LL+ V++L Sbjct: 204 TNGAVEPEEAIRFAARVLVQQLSVFADLESTPLPKEK------PQAPQIDPILLRPVDDL 257 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 EL+VRS NCL+ ENI Y+GDLIQRTEA++LR N GRKSL EIK VL + L LGM L + Sbjct: 258 ELTVRSANCLKVENIYYIGDLIQRTEAELLRTPNLGRKSLNEIKEVLASRELTLGMKLDN 317 Query: 324 WPPESIEELAKK 335 WPP +++ ++K+ Sbjct: 318 WPPANLDSVSKE 329 >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 = 288 bits (737), Expect = 7e-76, Method: Compositional matrix adjust. Identities = 154/326 (47%), Positives = 213/326 (65%), Gaps = 8/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG E+ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVESLG---ESHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVVTAGDI+ +D EV+ Sbjct: 62 VHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAGDIELAHDCEVI 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NPDHVI +L + +++ V KG GYVP R + IG I +DA +SP+++VSY Sbjct: 122 NPDHVIAHLSKGGKLDVQIKVEKGRGYVPGNVRRYGEESSKIIGRIVLDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+T+G I+ E+++ ++RIL DQL +F E E + Sbjct: 182 AVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALE--GTEAAAET 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 240 PSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 299 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +++ Sbjct: 300 IKEVLASRGLTLGMKLENWPPAGLDK 325 >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 = 288 bits (737), Expect = 7e-76, Method: Compositional matrix adjust. Identities = 154/326 (47%), Positives = 213/326 (65%), Gaps = 8/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG E+ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVESLG---ESHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVVTAGDI+ +D EV+ Sbjct: 62 VHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAGDIELAHDCEVI 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NPDHVI +L + +++ V KG GYVP R + IG I +DA +SP+++VSY Sbjct: 122 NPDHVIAHLSKGGKLDVQIKVEKGRGYVPGNVRRYGEESAKIIGRIVLDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+T+G I+ E+++ ++RIL DQL +F E E + Sbjct: 182 AVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALE--GTEAAAEA 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 240 PSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 299 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +++ Sbjct: 300 IKEVLASRGLTLGMKLENWPPAGLDK 325 >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 = 288 bits (737), Expect = 7e-76, Method: Compositional matrix adjust. Identities = 151/326 (46%), Positives = 213/326 (65%), Gaps = 8/326 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ L R + EP RGF +TLGNALRR+L+SS+ G A T Sbjct: 1 MQNSTYEFLKPRQIDVDALSA---TRAKVFMEPFERGFGYTLGNALRRILLSSMNGFAPT 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 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EPKKE 240 +VS+ V++AR Q D D L + I+T+G+I E++V A+RIL DQ+ +F + E P +E Sbjct: 178 RVSFEVQAARVEQRTDLDCLVLDIETNGAIDPEEAVRRAARILIDQMSVFADLEGTPVEE 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 KE+ + P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N GR Sbjct: 238 SKEE----APPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPNLGR 293 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPP 326 KSL EIK VL + GL LG L WPP Sbjct: 294 KSLNEIKEVLASKGLTLGSKLDVWPP 319 >gi|332086261|gb|EGI91417.1| DNA-directed RNA polymerase, alpha subunit [Shigella dysenteriae 155-74] Length = 304 Score = 288 bits (737), Expect = 8e-76, Method: Compositional matrix adjust. Identities = 146/305 (47%), Positives = 210/305 (68%), Gaps = 9/305 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 M EPL RGF HTLGNALRR+L+SS+ G A+ V+IDGVLHE S+ +GV ED+ +I+LN+ Sbjct: 1 MTLEPLERGFGHTLGNALRRILLSSMPGCAVIEVEIDGVLHEYSTKEGVQEDILEILLNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELT 148 KG+ +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + Sbjct: 61 KGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIK 120 Query: 149 VSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 V +G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D DKL + + Sbjct: 121 VQRGRGYVPASTRIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEM 180 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELE 264 +T+G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LE Sbjct: 181 ETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLE 236 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +W Sbjct: 237 LTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENW 296 Query: 325 PPESI 329 PP SI Sbjct: 297 PPASI 301 >gi|167587746|ref|ZP_02380134.1| DNA-directed RNA polymerase subunit alpha [Burkholderia ubonensis Bu] Length = 325 Score = 288 bits (737), Expect = 8e-76, Method: Compositional matrix adjust. Identities = 154/326 (47%), Positives = 211/326 (64%), Gaps = 8/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVESLG---ENHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVVTA DI+ +D EV+ Sbjct: 62 VHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAADIELAHDCEVI 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NP+HVI +L + +++ + KG GYVP R D IG I +DA +SP+++VSY Sbjct: 122 NPNHVIAHLSKGGKLDVQIKIEKGRGYVPGNVRRYGEDTAKIIGRIVLDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+T G IT E+++ ++RIL DQL +F E E + Sbjct: 182 AVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALE--GTETAAEA 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 240 PSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 299 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +++ Sbjct: 300 IKEVLASRGLTLGMKLENWPPAGLDK 325 >gi|42810|emb|CAA37839.1| unnamed protein product [Escherichia coli] Length = 329 Score = 288 bits (737), Expect = 8e-76, Method: Compositional matrix adjust. Identities = 151/333 (45%), Positives = 221/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >gi|42812|emb|CAA37838.1| unnamed protein product [Escherichia coli] Length = 329 Score = 288 bits (737), Expect = 8e-76, Method: Compositional matrix adjust. Identities = 151/333 (45%), Positives = 221/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALR +L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRCILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 288 bits (737), Expect = 8e-76, Method: Compositional matrix adjust. Identities = 147/305 (48%), Positives = 211/305 (69%), Gaps = 15/305 (4%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +I+LN+KGI Sbjct: 29 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEILLNLKGI 88 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVVRMELTVSK 151 +K+ G +++ K G G VTAGDI +++E++NP+HVIC+L +A + M L V + Sbjct: 89 AVKLEGKDEVTLSLTKSGTGPVTAGDITHGDEVEIVNPEHVICHLTGANAEISMRLKVQR 148 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H+ E PIG + +D+ +SPI +++Y VE+AR Q D DKL + ++T+ Sbjct: 149 GRGYVPASARVHNDDEERPIGRLLLDSAFSPIVRIAYNVEAARVEQRTDLDKLVIDMETN 208 Query: 209 GSITGEDSVALASRILQDQLGMFINFEE----PKKEVKEDINVKSLPFNPALLKKVEELE 264 G++ E+++ ++ IL +QL F++ + KKE K + F+P LL+ V++LE Sbjct: 209 GTLDPEEAIRRSATILAEQLEAFVDLRDVSVPEKKEEKPE-------FDPILLRPVDDLE 261 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +W Sbjct: 262 LTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENW 321 Query: 325 PPESI 329 PP SI Sbjct: 322 PPASI 326 >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 = 288 bits (737), Expect = 9e-76, Method: Compositional matrix adjust. Identities = 153/328 (46%), Positives = 209/328 (63%), Gaps = 9/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 Q +KP +IE +G ++ EP RG+ HTLGNALRR+L+SS+ G A T VQ+ Sbjct: 4 QGFLKPRSIEVEPVGTHHAK---IVMEPFERGYGHTLGNALRRILLSSMTGYAPTEVQMT 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKV 183 ++NPDH+ICNL V M++ V KG GYVP D IG 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 SYAVESARVEQRTDLDKLVLDIETNGVISPEEAVRQSARILMDQISVFAALEGAGDSY-- 238 Query: 244 DINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + V+ P +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKS Sbjct: 239 EAPVRGTPQIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKS 298 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIE 330 L EIK VL GL LGM L +WPP +E Sbjct: 299 LNEIKEVLAARGLTLGMKLENWPPLGLE 326 >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 = 288 bits (737), Expect = 9e-76, Method: Compositional matrix adjust. Identities = 151/327 (46%), Positives = 215/327 (65%), Gaps = 8/327 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I+ + + T+ EP RGF HTLGNALRR+L+SSL G A T V I+GV Sbjct: 6 LLKPRIIDVQSVSPVQARVTM---EPFERGFGHTLGNALRRILLSSLPGYAPTEVSIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S++ GV ED+ D++LN+KG+ LK+ S + + K G GVVTA DI+ +D+E++ Sbjct: 63 LHEYSTLDGVREDIVDLLLNLKGVVLKLHSRSEATLRLAKSGDGVVTARDIEVGHDVEII 122 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYT 186 NPDHVI +L + M++ V +G GYVP D IG + +DA +SP+++VSY Sbjct: 123 NPDHVIAHLAPGGKLDMQIKVEEGRGYVPGNVRPAAGDTKTIGRVVLDASFSPVRRVSYL 182 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VESAR Q D D+L + I+T+G++ E+++ A+R+L DQL +F + E V++ Sbjct: 183 VESARVEQRTDLDRLVIDIETNGAVDPEEAIRYAARVLMDQLSVFADLEGTAPVVEQS-- 240 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL EI Sbjct: 241 -AAQTIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTETELLKTPNLGRKSLNEI 299 Query: 307 KGVLGTMGLFLGMNLPDWPPESIEELA 333 K VL + GL LGM L +WPP +E+L Sbjct: 300 KEVLASRGLTLGMKLENWPPAGLEKLG 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 = 288 bits (737), Expect = 9e-76, Method: Compositional matrix adjust. Identities = 152/334 (45%), Positives = 222/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVP--AKHHRTEND-PIGLITIDALY 177 D+E+ NP+HVIC+L D +A + M + V +G GYVP A+ H E++ 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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 288 bits (737), Expect = 9e-76, Method: Compositional matrix adjust. Identities = 153/328 (46%), Positives = 209/328 (63%), Gaps = 9/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 Q +KP +IE +G ++ EP RG+ HTLGNALRR+L+SS+ G A T VQ+ Sbjct: 4 QGFLKPRSIEVEPVGAHHAK---IVMEPFERGYGHTLGNALRRILLSSMTGYAPTEVQMT 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKV 183 ++NPDH+ICNL + M++ V KG GYVP D IG 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 DINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 V+ P +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKS Sbjct: 241 P--VRGTPQIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKS 298 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIE 330 L EIK VL GL LGM L +WPP +E Sbjct: 299 LNEIKEVLAARGLTLGMKLENWPPLGLE 326 >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 = 288 bits (736), Expect = 9e-76, Method: Compositional matrix adjust. Identities = 153/336 (45%), Positives = 224/336 (66%), Gaps = 14/336 (4%) Query: 2 IQKNWQELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +Q + E +KP +IE + L + + EPL RGF HTLGNALRR+L+SS+ G A Sbjct: 1 MQGSVTEFLKPRLVDIEQVSLTHAK-----VTLEPLERGFGHTLGNALRRILLSSMPGCA 55 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI Sbjct: 56 VTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVIITLNKSGAGPVVAGDI 115 Query: 120 QTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVP--AKHHRTEND-PIGLITIDA 175 D+E+ NP+HVIC+L D +A + M + V +G GYVP A+ H E++ PIG + +DA Sbjct: 116 THDGDVEIANPEHVICHLTDDNAEISMRIKVERGRGYVPSTARIHTEEDERPIGRLLVDA 175 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 YSP+ K+SY VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ Sbjct: 176 TYSPVDKISYAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLR 235 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 236 DVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKT 292 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 293 PNLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 288 bits (736), Expect = 1e-75, Method: Compositional matrix adjust. Identities = 142/310 (45%), Positives = 214/310 (69%), Gaps = 6/310 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ENR ++ EPL RG+AHTLGNALRRVL+SS+ G AIT V+IDGVLHE ++++G+ ED+ + Sbjct: 21 ENRAKVVLEPLGRGYAHTLGNALRRVLLSSIPGFAITEVEIDGVLHEYTTVEGLQEDVLE 80 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 ++LN+K + +++ +++FK+G GVVTA DI+T +++E++N HVIC+L D + Sbjct: 81 VLLNLKDVAIRIHSGDTATLSLFKQGAGVVTAADIKTDHNVEIINDGHVICHLTKDTTIN 140 Query: 145 MELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 M L + +G GY PA R EN IG + +DA +SP+++V+Y VE+AR Q D DKL Sbjct: 141 MRLKIERGFGYQPAVVRRRPDDENRTIGRLILDASFSPVRRVAYVVEAARVEQRTDLDKL 200 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + I+T+G+I E+++ A+ IL DQL +F +F + + S +P LL+ ++ Sbjct: 201 IIDIETNGTIDAEEALRTAADILTDQLSVFGDFTHRDRGT---VKPASSGVDPVLLRPID 257 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KSL EIK VLG GL LG+ L Sbjct: 258 DLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSLTEIKEVLGQRGLGLGVKL 317 Query: 322 PDWPPESIEE 331 +WPP + + Sbjct: 318 ENWPPPGVSQ 327 >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 = 288 bits (736), Expect = 1e-75, Method: Compositional matrix adjust. Identities = 154/326 (47%), Positives = 213/326 (65%), Gaps = 8/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG E+ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVESLG---ESHAKVVMEPFERGYGHTLGNALRRVLLSSMIGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVVTAGDI+ +D EV+ Sbjct: 62 VHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAGDIELAHDCEVI 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NPDHVI +L + +++ V KG GYVP R + IG I +DA +SP+++VSY Sbjct: 122 NPDHVIAHLSKGGKLDVQIKVEKGRGYVPGNVRRYGEESAKIIGRIVLDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+T+G I+ E+++ ++RIL DQL +F E E + Sbjct: 182 AVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALE--GTEATAEA 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 240 PSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 299 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +++ Sbjct: 300 IKEVLASRGLTLGMKLENWPPAGLDK 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 = 288 bits (736), Expect = 1e-75, Method: Compositional matrix adjust. Identities = 152/326 (46%), Positives = 224/326 (68%), Gaps = 8/326 (2%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 NWQE+I+P+ I+ + I EPL RGF T+GNALRR+++SSL GAAIT+V+ Sbjct: 9 NWQEMIQPDKIQ---VEAATPFYGKFICEPLGRGFGITIGNALRRIIISSLHGAAITSVK 65 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 ID V+HE S+++GV ED+++IILN+K + LK S + K + I GPGVVTAGDI + + Sbjct: 66 IDNVMHEYSTVEGVLEDVSEIILNLKEVRLKTSTAAAKTIRIDAAGPGVVTAGDIASPDG 125 Query: 125 -IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 +E+LNP+ I L A ++ME+TV G GY A+ ++ E P+ I IDA++SPI++V Sbjct: 126 RVEILNPESHIATLSEGATLKMEMTVKVGRGYALAEANKDEETPVNTIPIDAMFSPIRRV 185 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE---EPKKE 240 +Y V ++R Q D+DKL++ + TDGS+ ED+VA A++I+++Q+ +FINF+ EP+ Sbjct: 186 NYVVGNSRVKQKTDFDKLTLEVWTDGSVLPEDAVAFAAKIMKEQMNVFINFDESAEPEHA 245 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + + FN L + V ELELSVRS+NCL+ I + L+Q+TE++ML+ NFGR Sbjct: 246 GRKDDSGGKV-FNENLYRSVNELELSVRSSNCLKNAEIDKLYQLVQKTESEMLKTKNFGR 304 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPP 326 KSL EIK +L MGL LGM+L + P Sbjct: 305 KSLNEIKELLAEMGLSLGMDLEGFVP 330 >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 = 287 bits (735), Expect = 1e-75, Method: Compositional matrix adjust. Identities = 150/331 (45%), Positives = 217/331 (65%), Gaps = 8/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P NI+ + ++ EPL RGF HTLGNALRR+L+SS+ G AI Sbjct: 1 MQNSANEFLTPRNID---VTSYSPTHAKVVLEPLERGFGHTLGNALRRILLSSMSGCAIV 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 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 +KSL EIK VL + GL LGM L +WPP S++ Sbjct: 295 KKSLTEIKDVLASRGLSLGMRLENWPPASLK 325 >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 = 287 bits (735), Expect = 2e-75, Method: Compositional matrix adjust. Identities = 149/334 (44%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 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 = 287 bits (734), Expect = 2e-75, Method: Compositional matrix adjust. Identities = 150/334 (44%), Positives = 218/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 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 = 286 bits (733), Expect = 2e-75, Method: Compositional matrix adjust. Identities = 151/333 (45%), Positives = 221/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L + PP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENCPPASI 326 >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 = 286 bits (733), Expect = 2e-75, Method: Compositional matrix adjust. Identities = 153/326 (46%), Positives = 211/326 (64%), Gaps = 8/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP IE VLG ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPRIIEVEVLGA---GHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE SS+ GV ED+ D++LN+KG+ K+ +T+ K G G V A DI+ +D+E++ Sbjct: 62 VHEYSSLDGVQEDVVDLLLNLKGVVFKLHNRDDVTLTLKKDGEGAVLASDIELPHDVELV 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSY 185 NPDHVI +L + M++ V KG GYVP R D IG I +DA +SP+++VSY Sbjct: 122 NPDHVIAHLTAGGKLDMQIKVEKGRGYVPGNVRRLSEDTNKTIGRIILDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL + I+T+G I+ E+++ ++R+L DQL +F E E D Sbjct: 182 AVESARVEQRTDLDKLVINIETNGVISPEEAIRQSARVLVDQLNVFAALE--GTEAPADA 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N GRKSL E Sbjct: 240 PSRAPAVDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRSENELLKTPNLGRKSLNE 299 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +E+ Sbjct: 300 IKEVLASRGLTLGMKLENWPPAGLEK 325 >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 = 286 bits (733), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 153/326 (46%), Positives = 213/326 (65%), Gaps = 8/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG E+ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVESLG---ESHAKVVMEPFERGYGHTLGNALRRVLLSSMIGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVVTAG+I+ +D EV+ Sbjct: 62 VHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAGEIELAHDCEVI 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NPDHVI +L + +++ V KG GYVP R + IG I +DA +SP+++VSY Sbjct: 122 NPDHVIAHLSKGGKLDVQIKVEKGRGYVPGNVRRYGEESAKIIGRIVLDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+T+G I+ E+++ ++RIL DQL +F E E + Sbjct: 182 AVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALE--GTEATAEA 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 240 PSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 299 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +++ Sbjct: 300 IKEVLASRGLTLGMKLENWPPAGLDK 325 >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 = 286 bits (732), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 147/336 (43%), Positives = 222/336 (66%), Gaps = 15/336 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ + TL EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQSSVNEFLTPRHIDVQAVSPTRAKITL---EPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++N HVI NL + + M+L V++G GY PA +++ D IG + +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 KEV---KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 V +ED +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 APVVVEQED------EIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKT 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP S+++ Sbjct: 292 PNLGKKSLTEIKDVLASRGLSLGMRLDNWPPASLKK 327 >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 = 286 bits (732), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 149/334 (44%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 286 bits (732), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 153/326 (46%), Positives = 208/326 (63%), Gaps = 8/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP IE L ++ EP RG+ HTLGNALRRVL+S++ G A T V I GV Sbjct: 5 LLKPRIIEVETLAP---GHAKVVMEPFERGYGHTLGNALRRVLLSTMSGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE SS+ GV ED+ DI+LN+KG+ K+ +T+ K G G V A DI +D+E++ Sbjct: 62 VHEYSSLDGVQEDVVDILLNLKGVVFKLHNRDEVTLTLKKEGEGAVLASDIDLPHDVELI 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSY 185 NPDHVI NL + M++ V KG GYVP R D IG I +DA +SP+++VSY Sbjct: 122 NPDHVIANLTGGGKLDMQIKVEKGRGYVPGNVRRLSEDTNKTIGRIILDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+T+G IT E+++ ++R+L DQL +F E E + Sbjct: 182 AVESARVEQRTDLDKLVMNIETNGVITPEEAIRQSARVLVDQLNVFAALE--GTEATAEA 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N GRKSL E Sbjct: 240 PSRAPQVDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRSENELLKTPNLGRKSLNE 299 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +E+ Sbjct: 300 IKEVLASRGLTLGMKLENWPPAGLEK 325 >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 = 286 bits (732), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 147/328 (44%), Positives = 223/328 (67%), Gaps = 11/328 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E IKP + + + + TL EPL RGF HT+GNALRR+L+SS+ G A+T V+IDG Sbjct: 22 EFIKPKLADIQKISKTQARITL---EPLERGFGHTIGNALRRILLSSMPGFAVTEVEIDG 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 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EPKKEVKE 243 Y VE+ R Q D DKL + I+T+G+I ++++ ++ IL +QL F+ + E KKEV+E Sbjct: 199 YKVEATRVEQRTDLDKLIIEIETNGTIDPKEAIHKSATILANQLESFVELQNEDKKEVQE 258 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 D F+P LLK V++LEL+VRS NCL+ E+I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 259 D----HPKFDPMLLKTVDDLELTVRSANCLKTESIHYIGDLVQRTEVELLKTPNLGKKSL 314 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +EIK +L + GL LGM L +WPP +E Sbjct: 315 MEIKDILASRGLSLGMKLENWPPSKKDE 342 >gi|330722390|gb|EGH00238.1| DNA-directed RNA polymerase alpha subunit [gamma proteobacterium IMCC2047] Length = 335 Score = 286 bits (732), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 151/325 (46%), Positives = 209/325 (64%), Gaps = 8/325 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E + P +I+ +G N ++ EP RGF HTLGN+LRR+L+SS+ GAAI V IDG Sbjct: 7 EFLTPKHIQVEEVGV---NHAKVVLEPFERGFGHTLGNSLRRILLSSMPGAAIVEVSIDG 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE S+I+GV ED+ DI+LN+KG+ + M+G +T+ K G V AGDIQ +DIE+ Sbjct: 64 VQHEYSAIEGVQEDVIDILLNLKGVAVAMNGRDEATLTLNKTEAGPVLAGDIQLDHDIEI 123 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 185 NP+HVI NL+ + M + VS G GY A+ E IG + +DA YSP+ +V+Y Sbjct: 124 ANPEHVIANLNAKGKLNMSIKVSSGRGYESAESRDLDGETRSIGTLQLDATYSPVTRVAY 183 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL + I+++G+I E+ + A+ ILQ QL F++ E K+ + Sbjct: 184 VVESARVEQRTDLDKLVLDIESNGTIDPEECIRRAATILQQQLTAFVDLEADKEPEQ--- 240 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +P LL+ V++LEL+VRS NCL+ EN+ Y+GDLIQRTE D+L+ N G+KSL E Sbjct: 241 QEDEDEVDPILLRPVDDLELTVRSANCLKAENLYYIGDLIQRTEVDLLKTPNLGKKSLTE 300 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIE 330 IK VL + GL LGM L WPP S++ Sbjct: 301 IKDVLASKGLSLGMRLEKWPPASLK 325 >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 = 286 bits (731), Expect = 4e-75, Method: Compositional matrix adjust. Identities = 156/328 (47%), Positives = 213/328 (64%), Gaps = 11/328 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I L N+ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIISVEAL---TANQAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVAIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S++ GV ED+ +++LN+KGI K+ + + K GPGVVTA DI +D+E++ Sbjct: 62 VHEYSTLDGVQEDVVNLLLNLKGIVFKLQSRDEVTINLRKEGPGVVTAKDIDLPHDVEIM 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP----IGLITIDALYSPIKKVS 184 NPDHVI +L + M++ V KG GYVP + R ND IG I +DA +SP+ +VS Sbjct: 122 NPDHVIAHLSAGGKLDMQIKVEKGRGYVPG-NVRQYNDETTKIIGRIVLDASFSPVSRVS 180 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VESAR Q D D+L MTI+T+G ++ E+++ A+ IL DQL +F E EV D Sbjct: 181 YAVESARVEQRTDLDRLVMTIETNGVLSPEEAIRQAASILVDQLVVFAALE--SSEVSGD 238 Query: 245 IN-VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + +S +P L++ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 239 LAPSRSSMVDPMLMRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 298 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL GL LGM L WPP ++E+ Sbjct: 299 NEIKDVLAARGLSLGMKLESWPPANLEK 326 >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 = 285 bits (730), Expect = 5e-75, Method: Compositional matrix adjust. Identities = 153/328 (46%), Positives = 210/328 (64%), Gaps = 17/328 (5%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + +KP I V+ E ++ EP RGF HTLGNALRR+L+SS+ G A T VQI Sbjct: 3 EAFLKPRTI---VVNPITEFHAKVVMEPFERGFGHTLGNALRRILLSSMTGYAATEVQIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE +SI+GV ED+ DI+LN+KG+ K+ G +T+ K PG + A DI+ +D+E Sbjct: 60 GVVHEYASIQGVQEDVVDILLNLKGVVFKLHGREEVTLTLSKSEPGEIRASDIELPHDVE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--------KHHRTENDPIGLITIDALYS 178 ++NP+HVI NL + M + V +G GYVP +HH IG I +DA YS Sbjct: 120 IINPNHVIANLQEGGRLDMHIKVEQGRGYVPGNVRALREDRHHS-----IGRIILDASYS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI++VSY VE+AR GQ D DKL + I+T+G +T ED+V A+RIL DQ+ +F + E Sbjct: 175 PIRRVSYEVENARVGQRTDQDKLILDIETNGVLTPEDAVRQAARILMDQISVFASLEG-S 233 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + E + +P LL+ V++LEL+VRS NCL+ EN+ Y+GDLIQ+TE ++L+ N Sbjct: 234 PNMYEAPARGTPQIDPVLLRSVDDLELTVRSANCLKAENVFYIGDLIQKTENELLKTPNL 293 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 GRKSL EIK VL GL LGM L +WPP Sbjct: 294 GRKSLNEIKDVLTARGLSLGMKLENWPP 321 >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 = 285 bits (730), Expect = 5e-75, Method: Compositional matrix adjust. Identities = 149/334 (44%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVNSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 285 bits (730), Expect = 5e-75, Method: Compositional matrix adjust. Identities = 151/326 (46%), Positives = 215/326 (65%), Gaps = 7/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG ++ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVEPLG---DHHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NP+HVI +L + M++ V +G GYVP + ++ IG 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 + 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 SSRTPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 300 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +E+ Sbjct: 301 IKEVLASRGLTLGMKLENWPPAGLEK 326 >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 = 285 bits (730), Expect = 5e-75, Method: Compositional matrix adjust. Identities = 150/332 (45%), Positives = 215/332 (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 MQNSTSEFLKPRQIDVDTLSA---TRAKVSMQPFERGFGHTLGNALRRILLSSMNGFAPT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR-GPGVVTAGDIQ 120 + I GVLHE S++ GV ED+ DI+LN+K + K+ G+ + V K+ G G V A D + Sbjct: 58 EITIAGVLHEYSTLDGVQEDVVDILLNVKSVVFKLHGNRTEAVLSLKKTGAGPVYASDFE 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR-TENDPIGLITIDALYSP 179 +D+E++NP VIC+L + + ME+ V +G GY R 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+ K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N G Sbjct: 238 EVEEE---KAPPIDPVLLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 RKSL EIK VL + GL LG L WPP +E+ Sbjct: 295 RKSLNEIKEVLASKGLTLGSRLESWPPAGLEK 326 >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 = 285 bits (729), Expect = 6e-75, Method: Compositional matrix adjust. Identities = 148/335 (44%), Positives = 222/335 (66%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQ 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 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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >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 = 284 bits (727), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 156/328 (47%), Positives = 213/328 (64%), Gaps = 11/328 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I L N+ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIISVEAL---TANQAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVAIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S++ GV ED+ +++LN+KGI K+ + + K GPGVVTA DI +D+E++ Sbjct: 62 VHEYSTLDGVQEDVVNLLLNLKGIVFKLQSRDEVIINLRKEGPGVVTAKDIDLPHDVEIM 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP----IGLITIDALYSPIKKVS 184 NPDHVI +L + M++ V KG GYVP + R ND IG I +DA +SP+ +VS Sbjct: 122 NPDHVIAHLSAGGKLDMQIKVEKGRGYVPG-NVRQYNDEATKIIGHIVLDASFSPVSRVS 180 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VESAR Q D D+L MTI+T+G ++ E+++ A+ IL DQL +F E EV D Sbjct: 181 YAVESARVEQRTDLDRLVMTIETNGVLSPEEAIRQAASILVDQLVVFAALE--SSEVSGD 238 Query: 245 IN-VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + +S +P L++ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 239 LAPSRSSMVDPMLMRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 298 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL GL LGM L WPP ++E+ Sbjct: 299 NEIKDVLAARGLSLGMKLESWPPANLEK 326 >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 = 284 bits (727), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 149/335 (44%), Positives = 221/335 (65%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 VRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >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 = 284 bits (727), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 148/335 (44%), Positives = 221/335 (65%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQ 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 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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >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 = 284 bits (727), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 148/335 (44%), Positives = 221/335 (65%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQ 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 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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >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 = 284 bits (727), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 152/326 (46%), Positives = 213/326 (65%), Gaps = 8/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG +N ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVDSLG---DNHAKVVMEPFERGYGHTLGNALRRVLLSSMIGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVV AGDI+ +D EV+ Sbjct: 62 VHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVIAGDIEVPHDCEVI 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NP+HVI +L + +++ V KG GYVP R ++ IG I +DA +SP+++VSY Sbjct: 122 NPEHVIAHLSKGGKLDVQIKVEKGRGYVPGNVRRYGDESAKVIGRIVLDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+T+G I+ E+++ ++RIL DQL +F E E + Sbjct: 182 AVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALE--GTETTAEA 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 240 PSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 299 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +++ Sbjct: 300 IKEVLASRGLTLGMKLENWPPAGLDK 325 >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 = 284 bits (727), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 145/331 (43%), Positives = 222/331 (67%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP-IGLITIDALYSPI 180 +D+EV NP+ +IC L +L V++G GY A + D 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 + E Sbjct: 178 KRVAYTVESARVEQRTNLDKLVLDVETNGVLEPEEAVRFAAGLLRDQLSVFVDLEGGEFE 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +++ + +P LL+ ++ELEL+VRS NCL+ E+I Y+GDL+QRTE ++L+ N G+ Sbjct: 238 AEQEEQEPDV--DPILLRPIDELELTVRSANCLKAESIHYVGDLVQRTEVELLKTPNLGK 295 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 KSL EIK L + GL LGM L +WPP + E Sbjct: 296 KSLTEIKETLASHGLSLGMRLENWPPAGLGE 326 >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 = 284 bits (727), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 150/333 (45%), Positives = 220/333 (66%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLCPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 294 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 326 >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 = 284 bits (726), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 143/333 (42%), Positives = 226/333 (67%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ E ++P +I+ + + + ++ EP RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQRSVTEFLRPRDIK---VEEISAHHAKIVLEPFERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+EV+NP+HVI +++ A ++M+L +++G GY PA +D IG + +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 ++ E+ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EQEVEEEEDH---IDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL GL LGM L +WPP S+++ Sbjct: 295 GKKSLNEIKDVLAARGLSLGMRLENWPPASLKD 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 = 284 bits (726), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 148/331 (44%), Positives = 218/331 (65%), 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-HHRTEND--PIGLITIDALYS 178 D+ ++NPDHVIC+L + + M + V +G GYVPA +TE+D 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|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 = 284 bits (726), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 151/326 (46%), Positives = 210/326 (64%), Gaps = 8/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP IE LG ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPRIIEVETLGA---GHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE SS+ GV ED+ D++LN+KG+ K+ +T+ K G G V A DI +D+E++ Sbjct: 62 VHEYSSLDGVQEDVVDMLLNLKGVVFKLHNRDEVTLTLKKDGEGAVLASDIDLPHDVELI 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NPDHVI +L + M++ V KG GYVP R D IG I +DA +SP+++VSY Sbjct: 122 NPDHVIAHLTAGGKLDMQIKVEKGRGYVPGNVRRLAEDANKTIGRIILDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 +VESAR Q D DKL + I+T+G I+ E+++ ++R+L DQL +F E E + Sbjct: 182 SVESARVEQRTDLDKLVINIETNGVISPEEAIRQSARVLVDQLNVFAALE--GTEAAAEA 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N GRKSL E Sbjct: 240 PSRAPSVDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRSENELLKTPNLGRKSLNE 299 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +E+ Sbjct: 300 IKEVLASRGLTLGMKLENWPPAGLEK 325 >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 = 283 bits (725), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 152/331 (45%), Positives = 220/331 (66%), Gaps = 16/331 (4%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + +KP ++ L TL EPL RGF HTLGNALRR+L+SS+ G A+ V+IDG Sbjct: 7 DFLKPRLVDIEQLSPTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVAEVEIDG 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE SS +GV ED+ +I+LN+KGI +K+ G +++ K G G VTAGDI +D+ + Sbjct: 64 VLHEYSSKEGVQEDILEILLNLKGIAVKLEGKDEVILSLTKSGAGPVTAGDIIHGDDVVI 123 Query: 128 LNPDHVICNLD-VDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 +NP+HVIC+L +A + M L V +G GYVPA H E+ PIG + +DA +SP+ ++ Sbjct: 124 VNPEHVICHLTGANAEISMRLRVQRGRGYVPASARLHTDDEDRPIGRLLLDAAFSPVVRI 183 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE---PKKE 240 +Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + P+K Sbjct: 184 AYNVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVSVPEK- 242 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 KED F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+ Sbjct: 243 -KED----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGK 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 298 KSLTEIKDVLASRGLSLGMRLENWPPASLAD 328 >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 = 283 bits (725), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 149/335 (44%), Positives = 220/335 (65%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >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 = 283 bits (725), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 149/335 (44%), Positives = 221/335 (65%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >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 = 283 bits (725), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 151/331 (45%), Positives = 220/331 (66%), Gaps = 10/331 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + E +KP ++ + + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MHNSATEFLKPRLVDIEQISKTHAKITL---EPLERGFGHTLGNALRRILLSSMPGYAVT 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 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPA-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+ + +K Sbjct: 178 IERISYNVEAARVEQRTDLDKLIIEMETNGTIDPESAIRRAATILSEQLEAFIDLRDIRK 237 Query: 240 -EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E+KE+ F+P LL+ V++LEL+VRS NCL+ E+I Y+GDL+QRTE ++L+ N Sbjct: 238 PEIKEE----KPEFDPVLLRPVDDLELTVRSANCLKAESIHYIGDLVQRTEVELLKTPNL 293 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL T L LGM + +WPP SI Sbjct: 294 GKKSLTEIKDVLSTRNLTLGMRIENWPPVSI 324 >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 = 283 bits (725), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 152/328 (46%), Positives = 210/328 (64%), Gaps = 9/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 Q +KP +IE +G N ++ EP RG+ HTLGNALRR+L+SS+ G A T VQ+ Sbjct: 4 QGFLKPRSIEVEPVGP---NHAKIVMEPFERGYGHTLGNALRRILLSSMTGYAPTEVQMT 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKV 183 ++NP+H ICNL + M++ V KG GYVP D IG 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 DINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 V+ P +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKS Sbjct: 241 P--VRGTPQIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKS 298 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIE 330 L EIK VL GL LGM L +WPP +E Sbjct: 299 LNEIKEVLAARGLTLGMKLENWPPLGLE 326 >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 = 283 bits (725), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 145/302 (48%), Positives = 207/302 (68%), Gaps = 7/302 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EP RG+ HTLGNALRR+L+SS+ G A T VQI GV+HE S++ GV ED+ DI+LN+KGI Sbjct: 27 EPFERGYGHTLGNALRRILLSSMPGFAPTEVQISGVVHEYSALDGVQEDVVDILLNLKGI 86 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LK+ + +T+ K+G G VTAGDI+ +D+E++NPDHV+ +L + M++ V G Sbjct: 87 VLKLHNRTEALLTLSKKGEGTVTAGDIEGGHDVEIINPDHVVAHLTSGGKLDMQIKVEMG 146 Query: 153 HGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 GYVP + E+ IG I +DA +SP+++VSY VESAR Q D DKL M I+T+G Sbjct: 147 RGYVPGTVRQLAHESRAIGSILLDASFSPVRRVSYAVESARVEQRTDLDKLVMDIETNGV 206 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-FNPALLKKVEELELSVRS 269 + E+++ A+++L +QL +F + + V++ LP +P LL+ V++LEL+VRS Sbjct: 207 VDPEEAIRYAAKVLVEQLSVFADLKGTPLPVEQ----PKLPQIDPVLLRPVDDLELTVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL EIK VL + GL LGM L WPP ++ Sbjct: 263 ANCLKAENIYYIGDLIQRTETELLKTPNLGRKSLNEIKEVLASRGLTLGMKLESWPPSNL 322 Query: 330 EE 331 ++ Sbjct: 323 DK 324 >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 = 283 bits (725), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 149/336 (44%), Positives = 213/336 (63%), Gaps = 19/336 (5%) 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 D+ + NPDHVIC+L + + M + V +G GYVPA D PIG + +DA +S Sbjct: 118 DGDVTIANPDHVICHLTGNHDISMRIRVERGRGYVPASARAQNEDDDRPIGRLLVDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--- 235 P+ +++Y VE+AR Q D DKL + + T+G+I E+++ ++ IL +QL F+ Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFVELRDVS 237 Query: 236 --EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 E K+E E F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L Sbjct: 238 VPEQKEEKPE--------FDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELL 289 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 + N G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 290 KTPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASL 325 >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 = 283 bits (725), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 149/333 (44%), Positives = 219/333 (65%), Gaps = 13/333 (3%) Query: 2 IQKNWQELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +Q + E ++P NIE Q R + EPL RGF HTLGNALRR+L+SS+ G A Sbjct: 1 MQGSVTEFLRPRLVNIE-----QVNPTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCA 55 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T V+IDGVLHE SS +GV ED+ +I+LN+KG+ + + G +T+ K G G VTA DI Sbjct: 56 VTEVEIDGVLHEYSSKEGVQEDILEILLNLKGLAVVIEGKDEAMLTLSKSGAGPVTAADI 115 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK-HHRTEND--PIGLITIDAL 176 D+ ++NP+H+IC+L + + M + V +G GYVPA +TE+D PIG + +DA Sbjct: 116 THDGDVTIMNPEHIICHLTGNNEISMRIRVERGRGYVPASARAQTEDDDRPIGRLLVDAS 175 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 +SP+ +++YTVE+AR Q D DKL + + T+G++ E+++ A+ IL +QL F+ E Sbjct: 176 FSPVARIAYTVEAARVEQRTDLDKLVIDMTTNGTLDPEEAIRRAATILAEQLDAFV---E 232 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 233 LRDVTEPEQKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 292 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 293 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASL 325 >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 = 283 bits (724), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 145/333 (43%), Positives = 222/333 (66%), Gaps = 11/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E + P +I+ + + ++ EPL RGF HTLGNALRR+L+SS+ G AI Sbjct: 1 MQSAVNEFLTPRHID---VTEHSPTHAKVVLEPLERGFGHTLGNALRRILLSSMPGCAII 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI 119 +I+GV HE S+++GV ED+ +I+LN+KG+ + M SH +++ K+GPGVVTA DI Sbjct: 58 EAEIEGVEHEYSALEGVQEDIIEILLNLKGVAVVMHDQEKSHAMLSLKKKGPGVVTAADI 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDAL 176 +++E+ NPDHVI + D + M L++++G GY PA R+++D IG + +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 FSPVKRLAYSVESARVEQRTDLDKLVLDLETNGTIDPEEAIRRSATILQQQLAVFVDL-- 235 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + E + K +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 236 -ESEKSSEPEEKEEDVDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LG+ L +WPP S+ Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGLRLENWPPASL 327 >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 = 283 bits (724), Expect = 3e-74, Method: Compositional matrix adjust. Identities = 149/335 (44%), Positives = 220/335 (65%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQINTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >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 = 283 bits (724), Expect = 3e-74, Method: Compositional matrix adjust. Identities = 148/335 (44%), Positives = 221/335 (65%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +++LN+KG+ ++++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEVLLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >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 = 283 bits (724), Expect = 3e-74, Method: Compositional matrix adjust. Identities = 143/331 (43%), Positives = 219/331 (66%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF +TLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISPTHAKVTL---EPLERGFGYTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ + + G +T+ K G G VTAGD Sbjct: 58 EVEIDGVLHEYSSKEGVQEDVIEVLLNLKGLAVSVEGKDEATLTLNKSGAGPVTAGDFTH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 D+E++NP+HVIC+L D + M + V +G GYVPA ++ +D 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+ + Sbjct: 178 PVERIAYSVDAARVEQRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLDAFVELRDIS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 EPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIQYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASL 325 >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 = 283 bits (723), Expect = 3e-74, Method: Compositional matrix adjust. Identities = 145/315 (46%), Positives = 217/315 (68%), Gaps = 17/315 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EPL RG+ T+GN+LRR+L+SSL GAA+T+V +DGV HE SIKGV ED+ DIIL++ Sbjct: 22 IVFEPLERGYGTTIGNSLRRMLLSSLPGAAVTSVLMDGVAHEYDSIKGVREDVMDIILSL 81 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K ++L+M GD +++ +G +VTA DI+ + VLNP+ ++ +L+ DA +++E V Sbjct: 82 KELDLRMEGDEAATISLEIKGSAIVTAADIKCPAGLSVLNPELILAHLNDDAHLKIEAVV 141 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GY PA + +G + +DA YSPI++VS VE+AR GQ +YDKL M I+T+G Sbjct: 142 EKGRGYEPATDREVDERAVGSLLVDASYSPIRRVSTRVEAARVGQRTNYDKLIMEIETNG 201 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP------ALLKKVEEL 263 S++ E+++ A++IL+ QL +F++F E++++ S P P L++ +E L Sbjct: 202 SLSPEEALNSAAKILEAQLAVFVDF--------ENVSIVSEPEGPDDTLDNLLIQPIEHL 253 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +LSVRS NCL+ +++ +GDL+QR+E +MLR NFGRKSL EIK VL MGL LGM+LP+ Sbjct: 254 DLSVRSMNCLKSDDVFRVGDLVQRSEQEMLRTPNFGRKSLNEIKEVLENMGLELGMDLPN 313 Query: 324 WPPESIEELAKKYED 338 WPP +E A+ ED Sbjct: 314 WPP---QEDAEALED 325 >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 = 283 bits (723), Expect = 4e-74, Method: Compositional matrix adjust. Identities = 151/328 (46%), Positives = 207/328 (63%), Gaps = 9/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 Q +KP +IE +G ++ EP RG+ HTLGNALRR+L+SS+ G A T VQ+ Sbjct: 4 QGFLKPRSIEVEPVGTHHAK---IVMEPFERGYGHTLGNALRRILLSSMTGYAPTEVQMT 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKV 183 ++NP H ICNL + M++ V KG GYVP D IG 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 SYAVESARVEQRTDLDKLVLDIETNGVISPEEAVRQSARILMDQISVFAALEGAGDSY-- 238 Query: 244 DINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + V+ P +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKS Sbjct: 239 EAPVRGTPQIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKS 298 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIE 330 L EIK VL GL LGM L +WPP +E Sbjct: 299 LNEIKEVLAARGLTLGMKLENWPPLGLE 326 >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 = 282 bits (722), Expect = 4e-74, Method: Compositional matrix adjust. Identities = 147/333 (44%), Positives = 219/333 (65%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVNSTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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-HHRTEND--PIGLITIDALYS 178 D+ ++NPDHVIC+L + + M + V +G GYVPA +TE+D 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 = 282 bits (722), Expect = 4e-74, Method: Compositional matrix adjust. Identities = 147/333 (44%), Positives = 219/333 (65%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVNSTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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-HHRTEND--PIGLITIDALYS 178 D+ ++NPDHVIC+L + + M + V +G GYVPA +TE+D 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|110812362|gb|ABG91718.1| DNA-directed RNA polymerase, alpha subunit [Shewanella putrefaciens 200] Length = 336 Score = 282 bits (722), Expect = 5e-74, Method: Compositional matrix adjust. Identities = 147/333 (44%), Positives = 219/333 (65%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 8 MQGSVTEFLKPRLVD---IEQVNSTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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-HHRTEND--PIGLITIDALYS 178 D+ ++NPDHVIC+L + + M + V +G GYVPA +TE+D 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 = 282 bits (722), Expect = 5e-74, Method: Compositional matrix adjust. Identities = 147/333 (44%), Positives = 219/333 (65%), 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-HHRTEND--PIGLITIDALYS 178 D+ ++NPDHVIC+L + V M + V +G GYVPA +TE+D 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|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 = 282 bits (722), Expect = 5e-74, Method: Compositional matrix adjust. Identities = 148/335 (44%), Positives = 220/335 (65%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQGSVTEFLKPRLVDIEQISSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVI 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 VRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >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 = 282 bits (722), Expect = 5e-74, Method: Compositional matrix adjust. Identities = 144/307 (46%), Positives = 205/307 (66%), Gaps = 6/307 (1%) Query: 28 TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIIL 87 T + EPL RGF HTLGNALRR+L+SS+ G AI QIDGVLHE ++ +GV ED+T+I+L Sbjct: 22 TKVTLEPLERGFGHTLGNALRRILLSSMPGCAIIEAQIDGVLHEYTTKEGVQEDMTEILL 81 Query: 88 NIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 N+KG+ +K+ G +++ +GP VTAGDIQ +D+EV+NP HVI +L + + + Sbjct: 82 NLKGVAIKLHGRDEVTLSLSSKGPVTVTAGDIQLEHDVEVINPKHVIAHLTKSGELNLTM 141 Query: 148 TVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 V +G GY PA + IG + +DA +SPI++V+Y V+SAR Q D DKL + Sbjct: 142 KVVRGRGYQPASVRIPKEEDERSIGHLILDASFSPIRRVTYEVDSARVEQRTDLDKLIIE 201 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 I+T+G+I +++V A+ ILQDQL F+ E + KE K+ +P LL+ +++LE Sbjct: 202 IETNGTIAPDEAVRKAATILQDQLTAFVELEGRIETAKEK---KAAEIDPVLLQPIDDLE 258 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ ENI Y+GDLIQ+TE ++L+ N G+KSL EIK VL GL LG+ L +W Sbjct: 259 LTVRSANCLKAENIYYIGDLIQKTEVELLKTPNLGKKSLTEIKDVLTLRGLSLGIRLENW 318 Query: 325 PPESIEE 331 PP + E Sbjct: 319 PPAGLRE 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 = 282 bits (721), Expect = 5e-74, Method: Compositional matrix adjust. Identities = 147/333 (44%), Positives = 219/333 (65%), 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-HHRTEND--PIGLITIDALYS 178 D+ ++NPDHVIC+L + + M + V +G GYVPA +TE+D 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|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 = 282 bits (721), Expect = 6e-74, Method: Compositional matrix adjust. Identities = 151/326 (46%), Positives = 212/326 (65%), Gaps = 8/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP I LG R+++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 FLKPRIINVESLGA---GRSVVEMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NP+HVI NL + + M++ V KG GYVP R D IG 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 + + Sbjct: 182 AVESARVEQRTDLDKLIINIETNGVISAEEAIRQSARILVDQLSVFAALEGTETTSEALT 241 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 V ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N GRKSL E Sbjct: 242 QVPAV--DPILLRPVDDLELTVRSANCLKAENINYIGDLIQRSENELLKTPNLGRKSLNE 299 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP E+ Sbjct: 300 IKEVLASRGLTLGMRLDNWPPAGFEK 325 >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 = 282 bits (721), Expect = 6e-74, Method: Compositional matrix adjust. Identities = 147/335 (43%), Positives = 222/335 (66%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >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 = 282 bits (721), Expect = 6e-74, Method: Compositional matrix adjust. Identities = 147/333 (44%), Positives = 220/333 (66%), 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-HHRTEND--PIGLITIDALYS 178 D+ ++NPDHVIC+L + V M + V +G GYVPA +TE+D 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|308272953|emb|CBX29557.1| DNA-directed RNA polymerase subunit alpha [uncultured Desulfobacterium sp.] Length = 340 Score = 282 bits (721), Expect = 6e-74, Method: Compositional matrix adjust. Identities = 150/323 (46%), Positives = 218/323 (67%), Gaps = 6/323 (1%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 NWQE+I P+ ++ + N + EPL RGF T+GNALRR+++SSL GAAI +V+ Sbjct: 10 NWQEMIMPDKVQ---VTTNMPNYDKFVCEPLERGFGLTIGNALRRIMLSSLYGAAIVSVK 66 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN- 123 ID V HE S I GV ED+++IILN+K + K + D K V I G +TA DI + + Sbjct: 67 IDSVFHEFSVIPGVLEDVSEIILNLKCVRFKTADDEPKTVRIDATGECEITARDIISDDG 126 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 EVLNPD I +L DAV++ +TV G GY ++ ++ E+DP+G I ID+++SP+K+V Sbjct: 127 KCEVLNPDIHIASLSKDAVLKANMTVKVGKGYSLSESNKNEDDPVGTIPIDSVFSPVKRV 186 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP-KKEVK 242 +Y V +AR GQ DYDKL++ + TDGS++ ++++ +++I+++Q+ +FINF+E + EV+ Sbjct: 187 NYVVGNARVGQRTDYDKLTIEVWTDGSLSPVEALSYSAKIIKEQMSIFINFDEKLEPEVE 246 Query: 243 EDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + P FN L + VEELELSVRS NCL+ NI + L+ +TEA+MLR NFGRK Sbjct: 247 KKSEKRQKPQFNENLYRSVEELELSVRSANCLKNANIFKIYQLVNKTEAEMLRTKNFGRK 306 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL EIK VL MGL LGM L ++ Sbjct: 307 SLNEIKEVLSEMGLSLGMKLEEF 329 >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 = 281 bits (720), Expect = 7e-74, Method: Compositional matrix adjust. Identities = 141/312 (45%), Positives = 212/312 (67%), Gaps = 6/312 (1%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 R ++ EP RGF +TLGNALRRVL+SS+ G A T + I GV+HE S+I G+ ED+ D+I Sbjct: 21 RAKVVMEPFERGFGYTLGNALRRVLLSSIPGCAPTKISISGVVHEYSTIDGLQEDIVDLI 80 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+KG+ LK+ + +++ K G+VTAGDI++ +D+E++NP+HVI ++ + + Sbjct: 81 LNLKGVVLKLHSKNSTVLSLKKDTEGIVTAGDIESSHDVEIVNPEHVIAHITSGGRIEAQ 140 Query: 147 LTVSKGHGYVPAKHHRTEN---DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +TV KG GY+P+ + E+ IG I +DA +SP+++VSYT+E+AR Q D DKL + Sbjct: 141 ITVEKGRGYLPSVNRSREDKSLSSIGDILLDASFSPVRRVSYTIENARVEQRTDLDKLII 200 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 I+T+GS+ E+++ A+R+L +Q F + E ++ ++ +P LL+ V++L Sbjct: 201 DIETNGSVDPEEAIRYAARVLVEQFSFFADLESTLLPTEQP---RAPAIDPILLRPVDDL 257 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 EL+VRS NCL+ ENI Y+GDLIQRTEA++LR N GRKSL EIK VL + L LGM L + Sbjct: 258 ELTVRSANCLKVENIFYIGDLIQRTEAELLRTPNLGRKSLNEIKEVLASRDLSLGMKLEN 317 Query: 324 WPPESIEELAKK 335 WPP ++E K+ Sbjct: 318 WPPANLENYVKE 329 >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 = 281 bits (720), Expect = 7e-74, Method: Compositional matrix adjust. Identities = 146/333 (43%), Positives = 219/333 (65%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVNSTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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-HHRTEND--PIGLITIDALYS 178 D+ ++NPDH+IC+L + + M + V +G GYVPA +TE+D 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|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 = 281 bits (720), Expect = 8e-74, Method: Compositional matrix adjust. Identities = 145/307 (47%), Positives = 207/307 (67%), Gaps = 6/307 (1%) Query: 28 TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIIL 87 T + EPL RGF HTLGNALRR+L+SS+ G AI QIDGVLHE ++ +GV ED+T+I+L Sbjct: 22 TKVTLEPLERGFGHTLGNALRRILLSSMPGCAIIEAQIDGVLHEYTTKEGVQEDMTEILL 81 Query: 88 NIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 N+KG+ +K+ G + + +GP VTAGDIQ +D+EV+NP+HVI +L + + + Sbjct: 82 NLKGVAVKLHGRDEVTLNLSSKGPVTVTAGDIQLEHDVEVINPEHVIAHLTKSGELNLTM 141 Query: 148 TVSKGHGYVPAKHH--RTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 V +G GY A + E++ IG + +DA +SPI++V+Y V+SAR Q D DKL + Sbjct: 142 KVVRGRGYQSASMRIPKEEDERSIGHLILDASFSPIRRVTYEVDSARVEQRTDLDKLIIE 201 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 I+T+G+I +++V A+ ILQDQL F+ E + KE K+ +P LL+ +++LE Sbjct: 202 IETNGTIAPDEAVRKAATILQDQLTAFVELEGKIETAKEK---KAAEIDPVLLQPIDDLE 258 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ ENI Y+GDLIQ+TE ++L+ N G+KSL EIK VL GL LGM L +W Sbjct: 259 LTVRSANCLKAENIYYIGDLIQKTEVELLKTPNLGKKSLTEIKDVLTLRGLSLGMRLENW 318 Query: 325 PPESIEE 331 PP + E Sbjct: 319 PPAGLRE 325 >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 = 281 bits (720), Expect = 8e-74, Method: Compositional matrix adjust. Identities = 148/337 (43%), Positives = 221/337 (65%), Gaps = 16/337 (4%) Query: 2 IQKNWQELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +Q + E +KP NIE I + + EPL RGF HTLGNALRR+L+SS++G A Sbjct: 1 MQGSEIEFLKPRLVNIEQI-----SPSHAKITLEPLERGFGHTLGNALRRILLSSMQGYA 55 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T V+IDGVLHE S+ +GV ED+ +++LN+KG+ +K+ G + VT+ K G G V A DI Sbjct: 56 VTEVEIDGVLHEYSTKEGVQEDILEVLLNLKGLKVKVQGKNEVTVTLNKSGIGPVLAADI 115 Query: 120 QTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDA 175 D+E++ P HVIC L D +A + M++ + +G GYVPA + PIG + +DA Sbjct: 116 THNGDVEIVKPQHVICYLTDENASISMKIKIQRGRGYVPASSRMNLEEDERPIGRLLVDA 175 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 YSP+++++Y VE+AR Q D DKL + ++T+G+I E+++ ++ IL QL FI+ Sbjct: 176 CYSPVERIAYVVEAARVEQRTDLDKLVIDMETNGTINPEEAIRFSATILAKQLEAFIDLH 235 Query: 236 EPKK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 ++ E+KE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 236 HVRQPELKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLK 291 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + L LGM L +WPP ++ + Sbjct: 292 TPNLGKKSLTEIKDVLASRALSLGMRLENWPPANLSD 328 >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 = 281 bits (720), Expect = 9e-74, Method: Compositional matrix adjust. Identities = 143/305 (46%), Positives = 202/305 (66%), Gaps = 4/305 (1%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I GVLHE ++++GV ED+ +I+LN K + Sbjct: 31 EPLERGFGHTLGNALRRILLSSMDGYAVTEVEIQGVLHEYTTLEGVQEDVLEILLNFKQL 90 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 + + G + KRGPG VTA DI + E+ NP+ VI NL + M LTV +G Sbjct: 91 AIVLQGKDEATFALSKRGPGPVTAADIAIDHTAEIANPELVIANLTTGGELSMTLTVRRG 150 Query: 153 HGYVPAKHHR---TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 GY PA E+ PIG + IDA +SP+++V+ V+SAR Q D D+L + ++T+G Sbjct: 151 RGYEPASQRELEGAEDRPIGKLPIDASFSPVRRVAIEVQSARVEQRTDLDRLVIDLETNG 210 Query: 210 SITGEDSVALASRILQDQLGMFINFE-EPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 +I ++++ A+ IL+DQL F+ E E + + P++P LL+ V++LEL+VR Sbjct: 211 TIDPKETIQRAATILRDQLSSFVALEGTAPAETQVQESRDESPYDPILLRPVDDLELTVR 270 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPES 328 S NCL+ ENI +GDLIQRTE ++L+ N G+KSL EIK VL T GL LGM L +WPPE+ Sbjct: 271 SANCLKAENIYLIGDLIQRTEVELLKTPNLGKKSLTEIKDVLATRGLSLGMRLENWPPEN 330 Query: 329 IEELA 333 I EL+ Sbjct: 331 IAELS 335 >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 = 281 bits (719), Expect = 9e-74, Method: Compositional matrix adjust. Identities = 144/310 (46%), Positives = 212/310 (68%), Gaps = 13/310 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EPL RGF HTLGNALRR+L+SS+ G+AIT IDGVLHE S+I+GV ED+ D++LN+ Sbjct: 26 IVLEPLERGFGHTLGNALRRILLSSMPGSAITEASIDGVLHEYSTIEGVQEDVVDLLLNL 85 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + +K++ + +VT+ K GP VTAGDIQ + E++NP+ VI NL+ + M L V Sbjct: 86 KSVAIKLTVGNEAQVTLNKEGPCQVTAGDIQLTHGQEIINPELVIANLNEKGKLNMTLKV 145 Query: 150 SKGHGY----VPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +G G+ ++H E +G + ID +SP+KKV+Y V+SAR D DKL++ Sbjct: 146 ERGIGFHNTDAFVRYHEDEIEKKTVGKLKIDNSFSPVKKVAYFVDSARVENRTDLDKLTI 205 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFIN--FEEPKKEVKEDINVKSLPFNPALLKKVE 261 ++T+G+I E+++ +++ ILQ QL F++ FEE + + KE + F+P LL+ V+ Sbjct: 206 ELETNGTIDAEEAIRISASILQRQLHAFVDMKFEESRADNKERND-----FDPVLLRSVD 260 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +LEL+VRS NCL+ ENI Y+GDL+QRTE+++L+ N G+KSL EIK VL + L LGM L Sbjct: 261 DLELTVRSANCLKAENIHYIGDLVQRTESELLKTPNLGKKSLTEIKDVLASRSLSLGMKL 320 Query: 322 PDWPPESIEE 331 +WPP S+ E Sbjct: 321 ENWPPASLGE 330 >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 = 281 bits (719), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 147/332 (44%), Positives = 217/332 (65%), Gaps = 10/332 (3%) 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 VNDIEVLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAK-HHRTEND--PIGLITIDALY 177 D+E++NP+H+IC L DA + M + V G GY+PA + E D 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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 SEPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASL 326 >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 = 281 bits (718), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 144/310 (46%), Positives = 212/310 (68%), Gaps = 13/310 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EPL RGF HTLGNALRR+L+SS+ G+AIT IDGVLHE S+I+GV ED+ D++LN+ Sbjct: 26 IVLEPLERGFGHTLGNALRRILLSSMPGSAITEASIDGVLHEYSTIEGVQEDVVDLLLNL 85 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + +K++ + +VT+ K GP VTAGDIQ + E++NP+ VI NL+ + M L V Sbjct: 86 KSVAIKLTVGNEAQVTLNKEGPCQVTAGDIQLTHGQEIINPELVIANLNEKGKLNMTLKV 145 Query: 150 SKGHGY----VPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +G G+ ++H E +G + ID +SP+KKV+Y V+SAR D DKL++ Sbjct: 146 ERGIGFHNTDAFVRYHDDEIEKKTVGKLKIDNSFSPVKKVAYFVDSARVENRTDLDKLTI 205 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFIN--FEEPKKEVKEDINVKSLPFNPALLKKVE 261 ++T+G+I E+++ +++ ILQ QL F++ FEE + + KE + F+P LL+ V+ Sbjct: 206 ELETNGTIDAEEAIRISASILQRQLHAFVDMKFEESRADNKERND-----FDPVLLRSVD 260 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +LEL+VRS NCL+ ENI Y+GDL+QRTE+++L+ N G+KSL EIK VL + L LGM L Sbjct: 261 DLELTVRSANCLKAENIHYIGDLVQRTESELLKTPNLGKKSLTEIKDVLASRSLSLGMKL 320 Query: 322 PDWPPESIEE 331 +WPP S+ E Sbjct: 321 ENWPPASLGE 330 >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 = 281 bits (718), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 145/331 (43%), Positives = 218/331 (65%), 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-HHRTEND--PIGLITIDALYS 178 D+ ++NP+HV+C+L + + M + V +G GYVPA +TE+D 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|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 = 281 bits (718), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 143/310 (46%), Positives = 212/310 (68%), Gaps = 13/310 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EPL RGF HTLGNALRR+L+SS+ G+AIT IDGVLHE S+I+GV ED+ D++LN+ Sbjct: 26 IVLEPLERGFGHTLGNALRRILLSSMPGSAITEASIDGVLHEYSTIEGVQEDVVDLLLNL 85 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + +K++ + ++T+ K GP VTAGDIQ + E++NP+ VI NL+ + M L V Sbjct: 86 KSVAIKLTVGNEAQITLNKEGPCQVTAGDIQLTHGQEIINPELVIANLNEKGKLNMTLKV 145 Query: 150 SKGHGY----VPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +G G+ ++H E +G + ID +SP+KKV+Y V+SAR D DKL++ Sbjct: 146 ERGIGFHNTDAFVRYHDDEIEKKTVGKLKIDNSFSPVKKVAYFVDSARVENRTDLDKLTI 205 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFIN--FEEPKKEVKEDINVKSLPFNPALLKKVE 261 ++T+G+I E+++ +++ ILQ QL F++ FEE + + KE + F+P LL+ V+ Sbjct: 206 ELETNGTIDAEEAIRISASILQRQLHAFVDMKFEESRADNKERND-----FDPVLLRSVD 260 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +LEL+VRS NCL+ ENI Y+GDL+QRTE+++L+ N G+KSL EIK VL + L LGM L Sbjct: 261 DLELTVRSANCLKAENIHYIGDLVQRTESELLKTPNLGKKSLTEIKDVLASRSLSLGMKL 320 Query: 322 PDWPPESIEE 331 +WPP S+ E Sbjct: 321 ENWPPASLGE 330 >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 = 281 bits (718), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 145/290 (50%), Positives = 205/290 (70%), Gaps = 1/290 (0%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 A+P RGF T+GNALRRVL+SS+ GAAITAV+I+GVLHE SI GV ED TDIILN+K Sbjct: 28 AQPFERGFGTTIGNALRRVLLSSIEGAAITAVKIEGVLHEFQSIPGVVEDATDIILNLKQ 87 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 I +++GD+ K + + PG+VT+G I+T D+E+L+ D I + + ME+ + K Sbjct: 88 IPFRLNGDAPKAIYLRAEQPGIVTSGMIETDADVEILDKDVYIATISEGGKLDMEMRLKK 147 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GYV A + E+ +G I ID+++SP++K +Y+VE+AR GQ+ DYDKLS+ + T+GS+ Sbjct: 148 GRGYVSADKNFDEDLGLGFIPIDSVHSPVRKCNYSVEAARLGQITDYDKLSIELWTNGSV 207 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTN 271 D++ LA+++L+D + +FINFEE + E + K N L + VEELELSVRS N Sbjct: 208 NPADALGLAAKLLKDHMNIFINFEE-EIEASHAEDRKPEIRNENLNRSVEELELSVRSYN 266 Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 CL+ NI +G+L+Q+TEA+ML+ NFGRKSL EIK +L +MGL LGM + Sbjct: 267 CLKNANIQTIGELVQKTEAEMLKTKNFGRKSLNEIKEILASMGLSLGMKI 316 >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 = 280 bits (717), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 146/313 (46%), Positives = 209/313 (66%), Gaps = 13/313 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EP GF +TLGNALRRVL+SS+ G A T V I GV+HE S+I G+ ED+ D+ILN+ Sbjct: 24 VVMEPFEHGFGYTLGNALRRVLLSSIPGCAPTKVSISGVVHEYSTIDGLQEDVVDLILNL 83 Query: 90 KGINLKMSGDSHKRV-TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 KG+ LK+ + + V T+ K G+VTAGDI+ +D+E++NPDHVI ++ + ++T Sbjct: 84 KGVVLKLHNNKTQSVLTLKKSSEGIVTAGDIEATHDVEIVNPDHVIAHITSGGKIEAQIT 143 Query: 149 VSKGHGYVPAKHHRTEN---DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 V KG GY P+ + E+ IG I +DA +SPI++VSY VESAR Q D DKL + I Sbjct: 144 VEKGRGYWPSANRSKEDKSSSSIGDILLDASFSPIRRVSYAVESARVEQRTDLDKLIIDI 203 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEE---PKKEVKEDINVKSLPFNPALLKKVEE 262 +T+GS+ E+++ A+++L +Q F + E P ++ K + +P LL+ V++ Sbjct: 204 ETNGSVDPEEAIRYAAKVLVEQFSFFADLESTPLPTEQPKAPV------IDPILLRPVDD 257 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 LEL+VRS NCL+ ENI Y+GDLIQRTEA++LR N GRKSL EIK VL + L LGM L Sbjct: 258 LELTVRSANCLKVENIFYIGDLIQRTEAELLRTPNLGRKSLNEIKEVLASRDLSLGMKLE 317 Query: 323 DWPPESIEELAKK 335 +WPP ++E K+ Sbjct: 318 NWPPANLENYIKE 330 >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 = 280 bits (716), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 146/333 (43%), Positives = 220/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ E + P +I+ + + TL EPL RGF HTLG ALRR+L+SS+ GAAI Sbjct: 1 MQRSVNEFLTPRHIQVEQVSNTQAKVTL---EPLERGFGHTLGAALRRILLSSMPGAAIV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 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 PVKRVAYGVENARVEQRTDLDKLVIDLETNGTIEPEEAIRRSATILQQQLAVFVDL---E 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E + + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 235 NEAEPEPEEQEDEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM+L +WPP S+++ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMHLENWPPASLKK 327 >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 = 280 bits (716), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 148/318 (46%), Positives = 209/318 (65%), Gaps = 5/318 (1%) Query: 6 WQELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 W+ KP + + QE T A+P RGF T+GNALRR L+SS+ GAA+TAV Sbjct: 3 WRGFQKPKRL---AVDQETLTPTFGKFSAQPFERGFGTTIGNALRRTLLSSIEGAAVTAV 59 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+GVLHE SI GV ED TDIILN+K I K++GD K + + GVVT+G I+ + Sbjct: 60 KIEGVLHEFQSIAGVVEDATDIILNLKQIPFKLNGDGPKTLYLRADAAGVVTSGSIEADS 119 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 D+E+L+P IC + + ME+ + +G GYV A + + IG I +D+++SP++KV Sbjct: 120 DVEILDPSVYICTISEGGRIDMEMRLKRGRGYVSADKNFDSDLGIGFIPVDSVHSPVRKV 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR GQ+ DYDKL++ I T+G+I D++ L++++L+D + +FINFEE + Sbjct: 180 NYLVEAARLGQITDYDKLTLEIWTNGTILPADALGLSAKLLKDHMTIFINFEEEMEAGAS 239 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + L N L + VEELELSVRS NCL+ NI +G+LIQ+TEA+ML+ NFGRKSL Sbjct: 240 GDHDGPLLRNENLNRSVEELELSVRSYNCLKNANIATIGELIQKTEAEMLKTKNFGRKSL 299 Query: 304 VEIKGVLGTMGLFLGMNL 321 EIK +L MGL LGM + Sbjct: 300 NEIKEILAQMGLSLGMKI 317 >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 = 280 bits (715), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 151/327 (46%), Positives = 212/327 (64%), Gaps = 9/327 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG ++ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVEPLG---DHHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NP HVI NL + ++L V +G GYVP + ++ IG 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 AVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALE--GTESAAEA 239 Query: 246 NVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 P +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 240 AAARAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLN 299 Query: 305 EIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +E+ Sbjct: 300 EIKEVLASRGLTLGMKLENWPPAGLEK 326 >gi|224713514|gb|ACN62064.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus minor] Length = 309 Score = 280 bits (715), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 143/294 (48%), Positives = 207/294 (70%), Gaps = 9/294 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 20 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 79 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ +T+ K G G VTAGDI D+E++NPDHVIC+L D +A + M + V + Sbjct: 80 AVKVQSKDDVVLTLNKSGIGPVTAGDITHDGDVEIVNPDHVICHLTDKNASINMRIRVQR 139 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 140 GRGYVPASARIHAQDDDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLIIEMETN 199 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 200 GTIDPEEAIRRAATILAEQLDAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 255 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L Sbjct: 256 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRL 309 >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 = 280 bits (715), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 146/335 (43%), Positives = 222/335 (66%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ + + +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRLGENKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >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 = 279 bits (714), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 149/335 (44%), Positives = 214/335 (63%), Gaps = 11/335 (3%) 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYS 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 KEVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 EV+ V+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQR E+D+L+ N Sbjct: 238 TEVE----VQQAPQIDPVLLRPVDDLELTVRSANCLKAESIYYIGDLIQRNESDLLKAPN 293 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEEL 332 GRKSL EIK +L T GL LGM + +WPP +E++ Sbjct: 294 LGRKSLNEIKDILATKGLSLGMKVENWPPAGVEKV 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 = 279 bits (713), Expect = 5e-73, Method: Compositional matrix adjust. Identities = 144/305 (47%), Positives = 202/305 (66%), Gaps = 8/305 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EP RG+ HTLGNALRR+L+SS+ G A T V IDGVLHE S++ GV ED+ DI+LN+ Sbjct: 24 VVMEPFERGYGHTLGNALRRILLSSMVGYAPTEVGIDGVLHEYSTVDGVQEDVVDILLNL 83 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ K+ + + K G G V AGDI+ +D+E++NP+HVI +L + ME+ V Sbjct: 84 KGVVFKLHNRDVVNLKLVKEGEGAVRAGDIELPHDVEIINPEHVIAHLSPGGKLAMEIKV 143 Query: 150 SKGHGYVPAK-HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 KG GYVP + + IG + +DA +SPI++V+Y VESAR Q D DKL + I+T+ Sbjct: 144 EKGRGYVPGNVRNLGDAKTIGKLVLDASFSPIRRVAYAVESARVEQRTDLDKLIVDIETN 203 Query: 209 GSITGEDSVALASRILQDQLGMFINFE--EPKKEVKEDINVKSLPFNPALLKKVEELELS 266 G + E+++ A+R+L +QL +F + E P E + V +P LL+ V++LEL+ Sbjct: 204 GVVEPEEAIRYAARVLMEQLSVFADLEGTAPVAEASKPAQV-----DPVLLRPVDDLELT 258 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL EIK VL GL LGM L +WPP Sbjct: 259 VRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNEIKEVLAARGLTLGMKLENWPP 318 Query: 327 ESIEE 331 +E+ Sbjct: 319 AGLEK 323 >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 = 279 bits (713), Expect = 5e-73, Method: Compositional matrix adjust. Identities = 152/332 (45%), Positives = 216/332 (65%), Gaps = 10/332 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP +E ++ NR ++ EP+ RGF TLGNALRRVL+SS+ G AIT Sbjct: 1 MQNSPTEYLKPRIVEVDLINP---NRAKVVLEPMERGFGFTLGNALRRVLLSSIPGFAIT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY--VPAKHHRTENDPIGLITIDALYSP 179 +++E++N D VI N++ + +E V G GY VP + ++ +++ 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 EVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 EV+ V+ P +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQR E D+L+ N Sbjct: 238 EVE----VQQAPQIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRHENDLLKAPNL 293 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 GRKSL EIK +L T GL LGM + +WPP+ +E Sbjct: 294 GRKSLNEIKDILATKGLSLGMKVDNWPPQGVE 325 >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 = 279 bits (713), Expect = 5e-73, Method: Compositional matrix adjust. Identities = 143/298 (47%), Positives = 204/298 (68%), Gaps = 4/298 (1%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ GAAI QIDGVLHE S+I+GV ED+ +I+LN+K + Sbjct: 29 EPLERGFGHTLGNALRRILLSSMPGAAIVEAQIDGVLHEYSAIEGVREDVLEIMLNLKEV 88 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K++ S +T+ K+GP VVTA DIQ +D E++NPD VI +L A + M+L V KG Sbjct: 89 AIKLNETSEAELTLSKKGPAVVTAADIQLNHDTEIMNPDLVIAHLGEGAELSMKLKVEKG 148 Query: 153 HGYVPA-KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A + +E+ IG++ +DA +SP+K VSY V++AR Q D DKL + + TDG++ Sbjct: 149 IGYRAAVQSSDSESANIGVLKLDASFSPVKTVSYEVQNARVEQRTDLDKLILNVVTDGTL 208 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTN 271 ED++ A+ +L QL F++ + + V+E+ + F+P L+ V++LEL+VRS N Sbjct: 209 DPEDAIKQAATVLHYQLIAFVDLKHKEIVVQEE---EENEFDPIFLQPVDDLELTVRSAN 265 Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 CL+ E I Y+GDL+QR E+ +L+ N G+KSL EIK VL GL LG L +WPP S+ Sbjct: 266 CLKAEQIYYIGDLVQRAESSLLKTPNLGKKSLQEIKDVLAQRGLGLGTKLENWPPSSL 323 >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 = 279 bits (713), Expect = 6e-73, Method: Compositional matrix adjust. Identities = 150/327 (45%), Positives = 212/327 (64%), Gaps = 9/327 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG ++ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVEPLG---DHHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYASTEVTIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NP HVI +L + M++ V +G GYVP + ++ IG 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 AVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALE--GTESAAEA 239 Query: 246 NVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 P +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 240 AAARAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLN 299 Query: 305 EIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +E+ Sbjct: 300 EIKEVLASRGLTLGMKLENWPPAGLEK 326 >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 = 278 bits (712), Expect = 6e-73, Method: Compositional matrix adjust. Identities = 150/326 (46%), Positives = 212/326 (65%), Gaps = 7/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG ++ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVEPLG---DHHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NP HVI +L + M++ V +G GYVP + ++ IG 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 + + Sbjct: 182 AVESARVEQRTDLDKLVMNIETDGVISPEEAIRQSARILVDQLSVFAALEGTESAAEAAS 241 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 242 SRAP-QIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 300 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +E+ Sbjct: 301 IKEVLASRGLTLGMKLENWPPAGLEK 326 >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 = 278 bits (712), Expect = 7e-73, Method: Compositional matrix adjust. Identities = 149/337 (44%), Positives = 213/337 (63%), Gaps = 13/337 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +NW EL+KP E I + + + EPL RG+ T+GNALRRVL+SSL+GAA Sbjct: 13 RNWSELVKP---EQITRDSDPADAMYGKFVCEPLERGYGTTIGNALRRVLLSSLQGAAFV 69 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V++ GV HE ++I GV ED+TDI+LN+K + L M D + + + G V AGDI+T Sbjct: 70 SVKVSGVQHEFTTIPGVLEDVTDIVLNLKQVRLAMDTDEPQFLELSVNKKGAVKAGDIKT 129 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 + VLNPD I L D + E V G GYVPA H ++ IGLI +D+ ++P++ Sbjct: 130 NQHVMVLNPDLHIATLTEDLELTFEFEVRMGKGYVPADMHEGLSEEIGLIKLDSSFAPVR 189 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KV+YTVE AR GQ+ +YDKL + + TDGS+T ED++A +++I++DQ+ +FINF+E Sbjct: 190 KVAYTVEQARVGQMTNYDKLIIEVWTDGSVTPEDAIAYSAKIIKDQISVFINFDERISGE 249 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + S N L K ++ELELSVR+TNCL+ NI +G+L+Q++E +ML+ NFGRK Sbjct: 250 SSGNSSGSSDVNENLFKGIDELELSVRATNCLKSANITLVGELVQKSENEMLKTKNFGRK 309 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL M L GM ++ KKY++ Sbjct: 310 SLDEIKRVLCDMSLDFGM--------KVDGFEKKYQE 338 >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 = 278 bits (712), Expect = 7e-73, Method: Compositional matrix adjust. Identities = 150/327 (45%), Positives = 212/327 (64%), Gaps = 9/327 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG ++ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVEPLG---DHHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NP HVI +L + M++ V +G GYVP + ++ IG 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 AVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALE--GTESAAEA 239 Query: 246 NVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 P +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 240 AAARAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLN 299 Query: 305 EIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +E+ Sbjct: 300 EIKEVLASRGLTLGMKLENWPPAGLEK 326 >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 = 278 bits (711), Expect = 8e-73, Method: Compositional matrix adjust. Identities = 147/336 (43%), Positives = 224/336 (66%), Gaps = 15/336 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEEN--RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +Q ++ +KPN ++G E+ N R + EPL RGF HTLGNALRR+L+SS+ GAA Sbjct: 1 MQGFVKDFLKPN-----LVGIEQINATRAKVTLEPLERGFGHTLGNALRRILLSSMPGAA 55 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 IT V+IDGV +E S +GV E++ +I+LN+KG+ +K+ G + V++ K G G V A DI Sbjct: 56 ITEVEIDGVQNEYSIKEGVQEEILEILLNLKGLAVKLEGKNEVLVSLTKSGAGPVIAADI 115 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 +D+E++NP+HVIC+L + + M + + G GYVPA H + G + +DA Sbjct: 116 THDSDLEIVNPEHVICHLTGNTEISMRIKIELGRGYVPASSRIHSEEDKSANGRLFVDAT 175 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 +SP+++++Y+VESAR Q + DKL + ++TDG++ E+++ A+ IL QL F++ Sbjct: 176 FSPVERIAYSVESARVEQRTNLDKLVIDMETDGTLEPEEAIRQAAMILAGQLDEFVD--- 232 Query: 237 PKKEVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 ++ + + V+ P F+P LL+ V +LEL+VRS NCL+ E+I Y+GDL+QRTE ++L+M Sbjct: 233 -ERIISAPVEVEEKPEFDPILLRPVNDLELTVRSANCLKAESIYYIGDLVQRTEVELLKM 291 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N GRKSL EIK L + GL+LGM L +WPP S+ E Sbjct: 292 PNLGRKSLTEIKDDLVSRGLYLGMRLENWPPASLIE 327 >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 = 278 bits (710), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 145/305 (47%), Positives = 203/305 (66%), Gaps = 7/305 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EP RG+ HTLGNALRR+L+SS+ G A T V IDGVLHE S+I GV ED+ DI+LN+ Sbjct: 24 VVMEPFERGYGHTLGNALRRILLSSMPGYAPTEVSIDGVLHEYSTIDGVQEDVVDILLNL 83 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ K+ + + K G GVV A DI+ +D+E++NP+H+I +L + MEL V Sbjct: 84 KGVVFKLHNREEVVLHLRKEGKGVVRAADIEVSHDVEIINPEHIIAHLSAGGKLAMELKV 143 Query: 150 SKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 K GY+ A + R D IG + +DA +SP+++VSY VESAR Q D DKL M I+ Sbjct: 144 EKSRGYL-AGNLREFGDGGKSIGKLVLDASFSPVRRVSYAVESARVEQRTDLDKLIMDIE 202 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+G+I E+++ A+RIL +QL +F + ++ K++ +P LL+ V++LEL+ Sbjct: 203 TNGAIEPEEAIRTAARILMEQLSVFADLAGTAMPIEYQ---KTVQVDPLLLRPVDDLELT 259 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL EIK VL GL LGM L +WPP Sbjct: 260 VRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNEIKEVLAARGLTLGMKLENWPP 319 Query: 327 ESIEE 331 +E+ Sbjct: 320 AGLEK 324 >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 = 278 bits (710), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 144/332 (43%), Positives = 218/332 (65%), Gaps = 10/332 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + + ++P ++ + Q T + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQNSIMDFLRPRLVD---IEQISATHTKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 ++ ++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 REPEFKEEKPEFEPI---LLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + L LGM L +WPP SI Sbjct: 295 LGKKSLTEIKDVLASRSLSLGMRLENWPPSSI 326 >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 = 278 bits (710), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 149/327 (45%), Positives = 212/327 (64%), Gaps = 9/327 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG ++ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVEPLG---DHHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NP HVI +L + M++ V +G GYVP + ++ IG + +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 AVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALE--GTESAAEA 239 Query: 246 NVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 P +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 240 AAARAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLN 299 Query: 305 EIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +E+ Sbjct: 300 EIKEVLASRGLTLGMKLENWPPAGLEK 326 >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 = 278 bits (710), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 148/326 (45%), Positives = 213/326 (65%), Gaps = 7/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG ++ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVEPLG---DHHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NP+HVI +L + M++ V +G GYVP + ++ IG 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 + + Sbjct: 182 AVESARVEQRTDLDKLVMNIETDGVISPEEAIRQSARILVDQLSVFAALEGTESAAEAAS 241 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 242 SRAP-QIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 300 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +++ Sbjct: 301 IKEVLASRGLTLGMKLENWPPAGLDK 326 >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 = 277 bits (708), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 144/332 (43%), Positives = 217/332 (65%), Gaps = 10/332 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + + ++P ++ + Q T + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQNSIMDFLRPRLVD---IEQISATHTKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 ++ ++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 REPEFKEEKPEFEPI---LLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + L LGM L +WPP SI Sbjct: 295 LGKKSLTEIKDVLASRSLSLGMRLENWPPSSI 326 >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 = 276 bits (707), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 144/340 (42%), Positives = 218/340 (64%), Gaps = 14/340 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q +++ ++P + L + ++ EPL RGF HTLGNALRRVL+SS+ G A+ Sbjct: 1 MQGQFKDFLRPRLVGVEALS---DRHAMITLEPLERGFGHTLGNALRRVLLSSMPGYAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GVLHE ++I+GV ED+ DI+LN+K + +++ + + K+GPG+VTA DI Sbjct: 58 EVEIEGVLHEYTAIEGVQEDVVDILLNLKNLAVRLHSKDTATLHLSKQGPGLVTAADIGI 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP--AKHHRTENDPIGLITIDALYSP 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++ E Sbjct: 178 VRRVAYNVESARVEQRTDLDKLVMDIETNGVLEPEEAVRFAAGLLRDQLSVFVDLE--GG 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 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 +KSL EIK VL GL LGM L +WPP + Y+DK Sbjct: 296 KKSLNEIKEVLAQHGLALGMRLENWPP-------RGYDDK 328 >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 = 276 bits (707), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 151/318 (47%), Positives = 205/318 (64%), Gaps = 8/318 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I+ + + + ++ EP RG+ HTLGNALRRVL+SS+ G A+T V+I GV Sbjct: 6 LLKPRIID---VQRSSATQARVVMEPFERGYGHTLGNALRRVLLSSMPGYAVTEVKIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE SSI GV ED+ +I+LN+KG+ LK+ + + K G GVVTA DI+ D EV+ Sbjct: 63 LHEYSSIDGVQEDVVEILLNLKGLVLKLHNSREATLHLRKSGAGVVTAADIEVGADTEVI 122 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYT 186 NP+HVI +L + ME+ V +G GYV A + P+G I +DA +SPI +VSY Sbjct: 123 NPNHVIAHLAAGGKLDMEIKVEQGRGYVSAISRMQPGATRPVGHIALDASFSPISRVSYA 182 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VESAR Q D DKL M I+T+ +I E+++ A+RIL DQL +F E V++ Sbjct: 183 VESARVEQRTDLDKLIMDIETNSAIDPEEAIRYAARILMDQLSVFAALEGTPAPVEKPQT 242 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 K +P LL+ V++LEL+ RS+NCL+ ++I Y+GDLIQ TEAD+LR N GRKSL EI Sbjct: 243 PK---VDPMLLRPVDDLELTPRSSNCLKAQSIHYIGDLIQNTEADLLRTPNLGRKSLNEI 299 Query: 307 KGVLGTMGLFLGMNLPDW 324 K VL GL LGM L +W Sbjct: 300 KQVLAEHGLSLGMKLENW 317 >gi|90193996|gb|ABD92559.1| RpoA [Volucribacter psittacicida] Length = 302 Score = 276 bits (707), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 142/293 (48%), Positives = 205/293 (69%), Gaps = 9/293 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+ Sbjct: 14 VILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNL 73 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELT 148 KG+ +K+ +T+ K G G V AGDI D+E++NP+HVIC+L D +A ++M + Sbjct: 74 KGLAVKVQNKDDVLLTLSKSGIGPVVAGDIIHDGDVEIVNPEHVICHLTDENASIQMRIR 133 Query: 149 VSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 V +G GYVPA H + E PIG + +DA YSP+ +++Y VE+AR Q D DKL + + Sbjct: 134 VQRGRGYVPASARVHAQDEERPIGRLLVDACYSPVDRIAYNVEAARVEQRTDLDKLVIEL 193 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELE 264 +T+G+I ED++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LE Sbjct: 194 ETNGTIDPEDAIRRAATILAEQLDAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLE 249 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 250 LTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >gi|90194024|gb|ABD92573.1| RpoA [Actinobacillus genomosp. 1] Length = 303 Score = 276 bits (707), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 142/290 (48%), Positives = 204/290 (70%), Gaps = 9/290 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+SG +T+ K G G VTA DI D+E++NP HVIC+L D DA + M + V + Sbjct: 77 AVKVSGKDDIILTLNKSGIGPVTAADITHDGDVEIVNPHHVICHLTDKDAAISMRIRVQR 136 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 137 GRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLIIEMETN 196 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 197 GTIDPEEAIRRAATILAEQLDAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 253 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >gi|224713516|gb|ACN62065.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus minor] Length = 307 Score = 276 bits (706), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 139/291 (47%), Positives = 204/291 (70%), Gaps = 7/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 20 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 79 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ +T+ K G G VTAGDI D+E++NPDHVIC+L D +A + M + V + Sbjct: 80 AVKVQSKDDVVLTLNKSGIGPVTAGDITHDGDVEIVNPDHVICHLTDKNASINMRIRVQR 139 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 140 GRGYVPASARVHTQDDDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLIIEMETN 199 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G+I E+++ A+ IL +QL F++ + ++ V + + F+P LL+ V++LEL+VR Sbjct: 200 GTIDPEEAIRRAATILAEQLDAFVDLRDVRQPV---VKEEKPEFDPILLRPVDDLELTVR 256 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM Sbjct: 257 SANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGM 307 >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 = 276 bits (706), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 147/327 (44%), Positives = 212/327 (64%), Gaps = 10/327 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP +E + Q T + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 8 FLKPRLVE---IEQITATHTKVTLEPLERGFGHTLGNALRRILLSSMPGYAVTEVEIDGV 64 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+K + +K+ G +++ K G G VTA DI D+E++ Sbjct: 65 LHEYSTKEGVQEDILEILLNLKELAVKVHGKDEVFMSLNKSGIGSVTASDIIHDGDVEII 124 Query: 129 NPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 PDH+IC+L D +A ++M + V +G GY+PA H + PIG + +DA YSPI ++S Sbjct: 125 KPDHLICHLTDENASIQMRIKVQRGRGYIPASSRIHMEDDLRPIGCLLVDACYSPINRIS 184 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + + T+G+I E+++ A+ IL +QL F++ + K+ Sbjct: 185 YNVEAARVEQRTDLDKLIIEMKTNGTIDPEEAIRRAATILSEQLEAFVDLRDVKEPEI-- 242 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + F P LL+ V++LEL+VRS NCL+ E+I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 243 -KEEKPEFEPILLRPVDDLELTVRSANCLKAESIHYIGDLVQRTEVELLKTPNLGKKSLT 301 Query: 305 EIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK +L L LGM L WPP SI E Sbjct: 302 EIKDILAARNLSLGMKLEKWPPSSILE 328 >gi|157100341|emb|CAP03336.1| RpoA protein [Vibrio aestuarianus] Length = 323 Score = 276 bits (705), Expect = 4e-72, Method: Compositional matrix adjust. Identities = 144/329 (43%), Positives = 217/329 (65%), Gaps = 11/329 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISTTHAKVTL---EPLERGFGHTLGNALRRILLSSMAGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 N G+KSL EIK VL + GL LGM L +WP Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWP 323 >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 = 276 bits (705), Expect = 4e-72, Method: Compositional matrix adjust. Identities = 142/298 (47%), Positives = 202/298 (67%), Gaps = 3/298 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 E RGF T+GN+LRRVL+SSL GAA+T V+I+GVLHE S+I GV ED+T IILN+ Sbjct: 28 FTTEAFERGFGTTVGNSLRRVLLSSLTGAAVTTVKIEGVLHEFSTIPGVTEDVTSIILNV 87 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L + GD K + + K+GPG DI D+ +L PD I LD DA + +E+T+ Sbjct: 88 KSLRLALQGDKPKTIRLKKKGPGEAKGSDITHDGDVTILTPDLHIATLDKDASLDLEMTI 147 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G G+VPA+ ++ E PIG+I +D+++SPIK+V++ VE+AR G++ DYDKL++ I TDG Sbjct: 148 KHGRGFVPAERNKEEGLPIGVIAVDSIFSPIKRVNFHVENARVGRMTDYDKLTLEIWTDG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP--FNPALLKKVEELELSV 267 +I+ D+++ A+ IL++ L +FIN EE + + K + L N L + V ELELSV Sbjct: 208 TISPRDALSNAAGILREHLDIFINPEE-RSDAKPAAGSEDLSDEVNKNLYRSVNELELSV 266 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 R+ NCL+ NI + DL+Q+TEA+ML+ NFG+KSL EIK +L MGL LGM + P Sbjct: 267 RAANCLKNANIKTIADLVQKTEAEMLKTKNFGKKSLNEIKEILTEMGLSLGMKVDALP 324 >gi|90194032|gb|ABD92577.1| RpoA [Actinobacillus lignieresii] Length = 302 Score = 276 bits (705), Expect = 5e-72, Method: Compositional matrix adjust. Identities = 142/290 (48%), Positives = 204/290 (70%), Gaps = 9/290 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+SG +T+ K G G VTA DI D+E++NP HVIC+L D DA + M + V + Sbjct: 77 AVKVSGKDDIILTLNKSGIGPVTAADITHDGDVEIVNPHHVICHLTDKDASISMRIRVQR 136 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 137 GRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLIIEMETN 196 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 197 GTIDPEEAIRRAATILAEQLDAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 253 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >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 = 276 bits (705), Expect = 5e-72, Method: Compositional matrix adjust. Identities = 146/333 (43%), Positives = 214/333 (64%), Gaps = 11/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + +E +KP+ I + + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVKEFLKPSLISEKI----SQTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 56 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV-TIFKRGPGVVTAGDIQ 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 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL GL LGM L +WPP SI Sbjct: 295 NLGKKSLTEIKDVLAVHGLSLGMRLENWPPASI 327 >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 = 275 bits (704), Expect = 5e-72, Method: Compositional matrix adjust. Identities = 146/330 (44%), Positives = 221/330 (66%), Gaps = 14/330 (4%) Query: 2 IQKNWQELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +Q + E +KP +IE + L + +I EPL RGF HTLGNALRR+L+SS+ G A Sbjct: 1 MQGSVTEFLKPRLVDIEQLSLTHAK-----VILEPLERGFGHTLGNALRRILLSSIPGYA 55 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T V+IDG+LHE S+ +G+ ED+ +I+LN+K + +K+ + +T+ K G G VTA +I Sbjct: 56 VTEVEIDGILHEYSTKEGIREDIIEILLNLKELAVKVQSKDNVILTLNKSGLGPVTAANI 115 Query: 120 QTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKHHRTEND-PIGLITIDALY 177 +D++++ P H++C+L + +A + M + V +G GYVPA + D PIG + +DA Y Sbjct: 116 IHDSDVQIIKPQHILCHLTEENASINMRIKVQRGRGYVPASARIHKYDRPIGRLLVDACY 175 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE- 236 SP++ +SY VE+AR Q D DKL + I+T+G+I E+++ A+ IL +QL F++ + Sbjct: 176 SPVENISYNVEAARVEQRTDLDKLILEIETNGTIDPEEAIRRAATILAEQLEAFVDLRDI 235 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 236 SQPEVKEE----KPEFDPVLLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 291 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 N G+KSL EIK VL + GL LGM L +WPP Sbjct: 292 NLGKKSLTEIKDVLASRGLSLGMRLENWPP 321 >gi|257471550|ref|ZP_05635549.1| DNA-directed RNA polymerase subunit alpha [Buchnera aphidicola str. LSR1 (Acyrthosiphon pisum)] Length = 324 Score = 275 bits (703), Expect = 6e-72, Method: Compositional matrix adjust. Identities = 142/312 (45%), Positives = 207/312 (66%), Gaps = 7/312 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 Q T + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED Sbjct: 13 QISATHTKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQED 72 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVD 140 + +I+LN+K + +K+ G +T+ K G G +TA DI D+E++ P HVIC+L D + Sbjct: 73 VLEILLNLKALAVKVYGKDETLLTLHKSGIGSITAADIIHDGDVEIIKPQHVICHLTDEN 132 Query: 141 AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 A ++M + V +G GY+PA H + PIG + +DA YSPI ++SY VE+AR Q D Sbjct: 133 ASIKMRIKVQRGRGYIPASSRVHLEEDARPIGCLLVDACYSPINRISYNVEAARVEQRTD 192 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + P LL Sbjct: 193 LDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDIREPEFKEEKPEFEPI---LL 249 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + L L Sbjct: 250 RPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRSLSL 309 Query: 318 GMNLPDWPPESI 329 GM L +WPP SI Sbjct: 310 GMRLENWPPSSI 321 >gi|157100343|emb|CAP03337.1| RpoA protein [Vibrio aestuarianus] Length = 323 Score = 275 bits (703), Expect = 7e-72, Method: Compositional matrix adjust. Identities = 144/329 (43%), Positives = 217/329 (65%), Gaps = 11/329 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 N G+KSL EIK VL + GL LGM L +WP Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWP 323 >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 = 275 bits (703), Expect = 7e-72, Method: Compositional matrix adjust. Identities = 138/329 (41%), Positives = 219/329 (66%), Gaps = 6/329 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ +KP ++E L +NR ++ EPL RGF HTLGNALRR+L+SS+ G A+T V+I+ Sbjct: 6 KDFLKPRSVEIEPLS---DNRAKVVLEPLERGFGHTLGNALRRLLLSSMPGTAVTEVEIE 62 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV HE ++++G+HED DI+LN+K + ++++ +++ K+GPG VTA DI T +D+E Sbjct: 63 GVQHEYTAVEGIHEDTVDILLNLKDLAVRLNERDSVTLSVEKQGPGSVTAADIATDHDVE 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSY 185 + NPD I + + + L + +G GY+P E+ IG + +DA +SP+++VSY Sbjct: 123 IQNPDLHIATITHEQPFKASLKIERGRGYLPVTAREEEDTRTIGHLALDASFSPVRRVSY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL + ++T+G +T E++V A+ +L+DQL +F++ E E ++ Sbjct: 183 AVESARVEQRTDLDKLVLDVETNGVVTPEEAVKFAASLLRDQLSVFVDLEGGLLEGGDEQ 242 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + +P LL+ +++LEL+VRS NCL+ E+I ++GDL+QRTE ++L+ N G+KSL E Sbjct: 243 EEPEI--DPVLLRPIDDLELTVRSANCLKAESIHFVGDLVQRTEVELLKTPNLGKKSLNE 300 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEELAK 334 IK L GL LGM L +WPP S+ + A+ Sbjct: 301 IKDTLAEHGLSLGMQLDNWPPPSLGDRAR 329 >gi|308171330|gb|ADO15984.1| RpoA [Vibrio brasiliensis LMG 20546] Length = 318 Score = 275 bits (703), Expect = 8e-72, Method: Compositional matrix adjust. Identities = 144/323 (44%), Positives = 214/323 (66%), Gaps = 11/323 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T V+I+G Sbjct: 2 EFLKPRLVDIEQVSTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 VLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI D+E Sbjct: 59 VLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVE 118 Query: 127 VLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKK 182 + NP+HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+ K Sbjct: 119 IANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDK 178 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 ++Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + + Sbjct: 179 IAYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE 238 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KS Sbjct: 239 ---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKS 295 Query: 303 LVEIKGVLGTMGLFLGMNLPDWP 325 L EIK VL + GL LGM L +WP Sbjct: 296 LTEIKDVLASRGLSLGMRLENWP 318 >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 = 275 bits (702), Expect = 9e-72, Method: Compositional matrix adjust. Identities = 141/288 (48%), Positives = 203/288 (70%), Gaps = 9/288 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+SG +T+ K G G VTA DI D+E++NP HVIC+L D DA + M + V + Sbjct: 77 AVKVSGKDDIILTLNKSGIGPVTAADITHDGDVEIVNPHHVICHLTDKDASISMRIRVQR 136 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 137 GRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLIIEMETN 196 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 197 GTIDPEEAIRRAATILAEQLDAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL Sbjct: 253 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGL 300 >gi|90194014|gb|ABD92568.1| RpoA [Actinobacillus genomosp. 2] Length = 303 Score = 275 bits (702), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 140/290 (48%), Positives = 204/290 (70%), Gaps = 9/290 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+SG +T+ K G G VTA DI D+E++NP HVIC+L D DA + M + + + Sbjct: 77 AVKVSGKDDIILTLNKSGIGPVTAADITHDGDVEIVNPHHVICHLTDKDASISMRIRIQR 136 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 137 GRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLIIEMETN 196 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ E+KE+ F+P LL+ V++LEL+V Sbjct: 197 GTIDPEEAIRRAATILAEQLDAFVDLRDVRQPEIKEE----KPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 253 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >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 = 275 bits (702), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 147/334 (44%), Positives = 221/334 (66%), Gaps = 13/334 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q E R + EPL RGF HTLGNALRR+L+SS+ G AIT Sbjct: 1 MQNSVIEFLKPRLVD---IEQITETRAKVTLEPLERGFGHTLGNALRRILLSSMPGYAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI-Q 120 V+IDGVLHE S+ +G+ ED+ +I+LN+K + +++ G +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSTKEGIQEDVLEILLNLKKLAIRIEGKDSVTLTLKKSGIGPVIANDILY 117 Query: 121 TVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 N ++++ 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 -PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + E KE+ F+P LL+ V++LEL+VRS NCL+ E+I Y+GDL+QRTE ++L+ Sbjct: 238 IHQPEHKEE----KPEFDPILLRLVDDLELTVRSANCLKAESIHYIGDLVQRTEIELLKT 293 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LG L +WPP +I Sbjct: 294 PNLGKKSLTEIKDVLASRGLSLGTRLENWPPTNI 327 >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 = 274 bits (701), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 138/290 (47%), Positives = 201/290 (69%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 A+P RGF T+GNALRR L+SS+ GAA+TAV+I+GVLHE SI GV ED TDIILN+K Sbjct: 28 AQPFERGFGTTIGNALRRTLLSSIEGAAVTAVRIEGVLHEFQSITGVVEDATDIILNLKQ 87 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 I K++GD K + + GV+T+G I+ D+E+L+P+ IC + + ME+ + + Sbjct: 88 IPFKLAGDGPKALYLRSDAAGVITSGMIEADADVEILDPNVYICTISEGGKIDMEMRLKR 147 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GY+ A + + +G I +D+++SP++KV+Y VE+AR GQ+ DYDKLS+ I T+G++ Sbjct: 148 GRGYISADKNFDGDLGLGFIPVDSVHSPVRKVNYVVEAARLGQITDYDKLSIEIWTNGTV 207 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTN 271 D++ L++++L+D + +FINFEE + ++ + N L + VEELELSVRS N Sbjct: 208 LPADALGLSAKLLKDHMTIFINFEEEMEAGHDNGHDGPAMRNENLNRSVEELELSVRSYN 267 Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 CL+ NI +G+LIQ+TEA+ML+ NFGRKSL EIK +L MGL LGM + Sbjct: 268 CLKNANIATIGELIQKTEAEMLKTKNFGRKSLNEIKEILAQMGLSLGMKI 317 >gi|190341453|gb|ACE74803.1| RpoA [Cronobacter sakazakii] Length = 308 Score = 274 bits (701), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 140/291 (48%), Positives = 202/291 (69%), Gaps = 9/291 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + V + Sbjct: 82 AVRVQGKDEVVLTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIKVQR 141 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPASARIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 202 GTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 257 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I YMGDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 258 RSANCLKAEAIHYMGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >gi|90194062|gb|ABD92592.1| RpoA [Pasteurella multocida subsp. septica] Length = 304 Score = 274 bits (701), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 141/294 (47%), Positives = 203/294 (69%), Gaps = 9/294 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+ Sbjct: 15 VILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNL 74 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELT 148 KG+ +K+ +T+ K G G V A DI D+E++NP+HVIC+L D A + M + Sbjct: 75 KGLAVKVQNKDDVFLTLNKSGIGPVVAADITHDGDVEIVNPEHVICHLTDESASINMRIR 134 Query: 149 VSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 V +G GYVPA H + E PIG + +DA YSP+ +++Y VE+AR Q D DKL + + Sbjct: 135 VQRGRGYVPASARVHAQDEERPIGRLLVDACYSPVDRIAYNVEAARVEQRTDLDKLVIEL 194 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELE 264 +T+G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LE Sbjct: 195 ETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLE 250 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 L+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 251 LTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 304 >gi|90194054|gb|ABD92588.1| RpoA [Mannheimia varigena] Length = 302 Score = 274 bits (701), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 139/290 (47%), Positives = 204/290 (70%), Gaps = 9/290 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTDVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ +T+ K G G VTA DI D+E++NPDHVICNL D +A + M + V + Sbjct: 77 AVKVQNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPDHVICNLTDKNASINMRIRVQR 136 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H ++++ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 137 GRGYVPASARLHTQSDDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLVIEMETN 196 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G++ E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 197 GTLDPEEAIRRAATILAEQLAAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 253 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >gi|308171338|gb|ADO15988.1| RpoA [Vibrio caribbenthicus] Length = 323 Score = 274 bits (701), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 143/323 (44%), Positives = 214/323 (66%), Gaps = 11/323 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T V+I+G Sbjct: 7 EFLKPRLVDIEQVSTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEG 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 VLHE S+ +GV ED+ +++LN+KG+ ++++ G +T+ K G G V AGDI D+E Sbjct: 64 VLHEYSTKEGVQEDILEVLLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVE 123 Query: 127 VLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKK 182 + NP+HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+ K Sbjct: 124 IANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDK 183 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 ++Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + + Sbjct: 184 IAYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KS Sbjct: 244 ---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKS 300 Query: 303 LVEIKGVLGTMGLFLGMNLPDWP 325 L EIK VL + GL LGM L +WP Sbjct: 301 LTEIKDVLASRGLSLGMRLENWP 323 >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 = 274 bits (701), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 145/332 (43%), Positives = 217/332 (65%), Gaps = 16/332 (4%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E++ PN ++ + E + ++ EPL RGF HTLGNALRR+L+SS+ G+ IT I+G Sbjct: 7 EMLTPNVLK---VQAESPFKAKIVLEPLERGFGHTLGNALRRILLSSMPGSVITEASIEG 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+ DI+LN+K + +KM+ +T+ K+GP VTAGDIQ + +EV Sbjct: 64 VLHEYSTIEGVQEDVVDILLNLKLVAIKMTVGEEALITLNKQGPCQVTAGDIQLSHGLEV 123 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH------RTENDPIGLITIDALYSPIK 181 +NPD VI NL+ + M + V +G G+ E +G + ID +SP++ Sbjct: 124 VNPDLVIANLNEKGKLNMTMKVERGIGFHSTDSFIGHFDDEVERKSVGKLKIDNSFSPVR 183 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN--FEEPKK 239 KV+Y V+SAR D DKL++ ++T+G+I E+++ +++ ILQ QL F++ FEE + Sbjct: 184 KVAYYVDSARVENRTDLDKLTIELETNGTIDSEEAIRISASILQRQLHAFVDMRFEESRS 243 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + KE + F+P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G Sbjct: 244 DQKERND-----FDPILLRSVDDLELTVRSANCLKAENIHYIGDLVQRTENELLKTPNLG 298 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +KSL EIK VL + L LGM L +WPP ++ E Sbjct: 299 KKSLTEIKDVLASRSLSLGMKLENWPPANLGE 330 >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 = 274 bits (701), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 152/322 (47%), Positives = 210/322 (65%), Gaps = 12/322 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + +KP IE + + E + ++ EP RGF HTLGNALRR+L+SS+ GAA T V++ G Sbjct: 5 DFLKPRIIE---VQKISETQAKVVMEPFERGFGHTLGNALRRILLSSMAGAAPTEVKMSG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++I GV ED+ DI+LN+KG+ L++ G +T+ K G GVVTA DI ++EV Sbjct: 62 VLHEYATIDGVQEDVVDILLNLKGVVLRLHGVKEVVLTLKKEGFGVVTAADISANAEVEV 121 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSY 185 LNP+HVI +L + M++ V +G GYV A + N+ +G I +DA +SP+ +VSY Sbjct: 122 LNPEHVIAHLTAGGKLDMQIKVEQGRGYVSAISRQLPNETRAVGHIALDASFSPVSRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--EPKKEVKE 243 VESAR Q D DKL MTI+T+G+I E ++ A+RIL DQ +F E EP E KE Sbjct: 182 AVESARVEQRTDLDKLIMTIETNGAIDPEQAIRNAARILVDQFSVFAALEGTEPVVE-KE 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + +P LL+ V++LEL+ RS+NCL+ ++I Y+GDLIQ +E D+LR N GRKSL Sbjct: 241 HVP----QVDPILLRPVDDLELTPRSSNCLKAQSIHYIGDLIQYSENDLLRTPNLGRKSL 296 Query: 304 VEIKGVLGTMGLFLGMNLPDWP 325 EIK VL L LGM L +WP Sbjct: 297 NEIKQVLAEHNLSLGMKLENWP 318 >gi|90194008|gb|ABD92565.1| RpoA [Bibersteinia trehalosi] Length = 302 Score = 274 bits (701), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 139/290 (47%), Positives = 203/290 (70%), Gaps = 9/290 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ +T+ K G G VTA DI D+E++NPDHVIC+L D +A + M + V + Sbjct: 77 AVKVQNKDDIILTLTKSGIGPVTAADITADADVEIVNPDHVICHLTDKNASISMRIRVQR 136 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 137 GRGYVPASARVHSQHEDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLVIEMETN 196 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G++ E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 197 GTLDPEEAIRRAATILAEQLAAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 253 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >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 = 274 bits (700), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 151/323 (46%), Positives = 217/323 (67%), Gaps = 4/323 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M+ ++++++KP IE I G+ + + EP RGF T+GN+LRRVL+S++ G A+ Sbjct: 1 MVLMDFRKVMKPKKIEQI--GEATDRYAKFVIEPYERGFGITIGNSLRRVLLSTIEGTAV 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 TVNDIEVLNPD-HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 + + VLNPD H+ + + 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 GRKSLVEIKGVLGTMGLFLGMNL 321 GR+SL EIK VL +GL LGM+L Sbjct: 299 GRRSLEEIKKVLAELGLSLGMDL 321 >gi|90194056|gb|ABD92589.1| RpoA [Mannheimia ruminalis] Length = 302 Score = 274 bits (700), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 140/301 (46%), Positives = 206/301 (68%), Gaps = 9/301 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 Q R + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED Sbjct: 6 QVSSTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQED 65 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVD 140 + +++LN+KG+ +K+ +T+ K G G VTA DI D+E++NPDH+IC+L D + Sbjct: 66 ILEVLLNLKGLAVKVQNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPDHIICHLTDKN 125 Query: 141 AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 A + M + V +G GYVPA H + ++ PIG + +DA YSP+ +++Y VE+AR Q D Sbjct: 126 ASISMRIRVQRGRGYVPASARLHTQNDDRPIGRLLVDARYSPVDRIAYNVEAARVEQRTD 185 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPAL 256 DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ EVKE+ F+P L Sbjct: 186 LDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQPEVKEE----KPEFDPIL 241 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 L+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL Sbjct: 242 LRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLS 301 Query: 317 L 317 L Sbjct: 302 L 302 >gi|90194020|gb|ABD92571.1| RpoA [Actinobacillus arthritidis] Length = 303 Score = 274 bits (700), Expect = 1e-71, Method: Compositional matrix adjust. Identities = 139/290 (47%), Positives = 204/290 (70%), Gaps = 9/290 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+SG +T+ K G G VTA DI D+E++NP H+IC+L D DA + M + + + Sbjct: 77 AVKVSGKDDIILTLNKSGIGPVTAADITHDGDVEIVNPHHIICHLTDKDASISMRIRIQR 136 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 137 GRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLIIEMETN 196 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ E+KE+ F+P LL+ V++LEL+V Sbjct: 197 GTIDPEEAIRRAATILAEQLDAFVDLRDVRQPEIKEE----KPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 253 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >gi|90194046|gb|ABD92584.1| RpoA [Actinobacillus indolicus] Length = 303 Score = 274 bits (700), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 139/290 (47%), Positives = 203/290 (70%), Gaps = 9/290 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ +T+ K G G VTA DI D+E++NPDHVICNL D +A + M + V + Sbjct: 77 AVKVQNKDDIILTLTKSGIGPVTAADITHDGDVEIVNPDHVICNLTDKNASINMRIRVQR 136 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 137 GRGYVPASARVHTQDDDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLVIEMETN 196 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G++ E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 197 GTLDPEEAIRRAATILAEQLAAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 253 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >gi|90194012|gb|ABD92567.1| RpoA [Actinobacillus porcitonsillarum] Length = 303 Score = 274 bits (700), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 140/290 (48%), Positives = 204/290 (70%), Gaps = 9/290 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ +T+ K G G VTAGDI D+E++NPDHVIC+L D +A + M + V + Sbjct: 77 AVKVQSKDDVVLTLNKSGIGPVTAGDITHDGDVEIVNPDHVICHLTDKNASINMRIRVQR 136 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 137 GRGYVPASARVHAQDDDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLIIEMETN 196 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 197 GTIDPEEAIRRAATILAEQLDAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 253 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >gi|308171332|gb|ADO15985.1| RpoA [Vibrio ichthyoenteri ATCC 700023] Length = 323 Score = 273 bits (699), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 143/323 (44%), Positives = 214/323 (66%), Gaps = 11/323 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T V+I+G Sbjct: 7 EFLKPRLVDIEQISTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEG 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 VLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI D+E Sbjct: 64 VLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVE 123 Query: 127 VLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKK 182 + NP+HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+ K Sbjct: 124 ITNPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDK 183 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 ++Y+V++AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + + Sbjct: 184 IAYSVDAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KS Sbjct: 244 ---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKS 300 Query: 303 LVEIKGVLGTMGLFLGMNLPDWP 325 L EIK VL + GL LGM L +WP Sbjct: 301 LTEIKDVLASRGLSLGMRLENWP 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 = 273 bits (699), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 144/337 (42%), Positives = 218/337 (64%), Gaps = 2/337 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW EL++P +E + R + EPL RGF T+GNALRRVL+SSL+GAA +V Sbjct: 14 RNWAELVRPEQLEKDPKCNDMYGR--FVCEPLERGFGTTIGNALRRVLLSSLQGAAPVSV 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 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 +I+ VL +MGL G+ + ++ + L + ED+ Sbjct: 312 EDIRRVLESMGLDFGIRVDNFDELYQDWLKRNEEDEA 348 >gi|157100339|emb|CAP03335.1| RpoA protein [Vibrio aestuarianus] Length = 323 Score = 273 bits (699), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 143/329 (43%), Positives = 216/329 (65%), Gaps = 11/329 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGN LRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISTTHAKVTL---EPLERGFGHTLGNXLRRILLSSMXGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 N G+KSL EIK VL + GL LGM L +WP Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWP 323 >gi|308171334|gb|ADO15986.1| RpoA [Vibrio scophthalmi LMG 19158] Length = 321 Score = 273 bits (698), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 143/323 (44%), Positives = 214/323 (66%), Gaps = 11/323 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T V+I+G Sbjct: 5 EFLKPRLVDIEQISTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 VLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI D+E Sbjct: 62 VLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVE 121 Query: 127 VLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKK 182 + NP+HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+ K Sbjct: 122 ITNPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDK 181 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 ++Y+V++AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + + Sbjct: 182 IAYSVDAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE 241 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KS Sbjct: 242 ---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKS 298 Query: 303 LVEIKGVLGTMGLFLGMNLPDWP 325 L EIK VL + GL LGM L +WP Sbjct: 299 LTEIKDVLASRGLSLGMRLENWP 321 >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 = 273 bits (698), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 136/285 (47%), Positives = 204/285 (71%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+++SSL GAA+T+V+IDGVLHE S+I GV ED+ +II+N+KG+ Sbjct: 28 EPLERGYGTTLGNSLRRIMLSSLPGAAVTSVKIDGVLHEFSTIPGVKEDVAEIIINLKGL 87 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +++M G+ K V I +G GV+TAGDI D+E+L+PD I LD DAV+ MELT++KG Sbjct: 88 SIRMHGNEPKTVRIEAKGEGVITAGDIIADADVEILSPDTHIATLDTDAVLNMELTIAKG 147 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYVPA++++T PIG++ ID++++P+ KVSY VE+ R GQV DYDKL + + TDGSI Sbjct: 148 RGYVPAENNKTPGMPIGVLPIDSIFTPVTKVSYHVENTRVGQVTDYDKLVIEVFTDGSIV 207 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 +++++LA++I+ + L +FI + +V+ + + L +EEL+LSVRS NC Sbjct: 208 PDEAISLAAKIMNEHLNLFITLTDHVNDVEIMVQKEEDKKEKVLEMTIEELDLSVRSYNC 267 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+ I + +L Q++E DM+++ N GRKSL E++ L +GL L Sbjct: 268 LKRAGINTVDELAQKSEEDMMKVRNLGRKSLEEVQKKLEELGLGL 312 >gi|90194004|gb|ABD92563.1| RpoA [Lonepinella koalarum] Length = 302 Score = 273 bits (698), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 141/293 (48%), Positives = 203/293 (69%), Gaps = 9/293 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE SS +GV ED+ +++LN+ Sbjct: 14 VILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSSKEGVQEDILEVLLNL 73 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELT 148 KG+ +K+ +T+ K G G V A DI D+E++NPDHVIC+L D +A V M + Sbjct: 74 KGLAVKVQNKDDVFLTLNKSGIGPVVAADITHDGDVEIVNPDHVICHLTDENASVNMRIR 133 Query: 149 VSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 V +G GYVPA H + E PIG + +DA YSP+ +++Y VE+AR Q D DKL + + Sbjct: 134 VQRGRGYVPASARVHTQDEERPIGRLLVDACYSPVDRIAYNVEAARVEQRTDLDKLVIEL 193 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELE 264 +T+G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LE Sbjct: 194 ETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLE 249 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 250 LTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >gi|190341313|gb|ACE74733.1| RpoA [Enterobacter amnigenus] Length = 308 Score = 273 bits (698), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 139/291 (47%), Positives = 202/291 (69%), Gaps = 9/291 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + V + Sbjct: 82 AVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENAAISMRIKVQR 141 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPASARIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 202 GTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 257 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 258 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >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 = 273 bits (697), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 139/291 (47%), Positives = 202/291 (69%), Gaps = 9/291 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + V + Sbjct: 82 AVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENAAISMRIKVQR 141 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPASARIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 202 GTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 257 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 258 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >gi|90194022|gb|ABD92572.1| RpoA [Actinobacillus suis ATCC 33415] Length = 302 Score = 273 bits (697), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 140/290 (48%), Positives = 204/290 (70%), Gaps = 9/290 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+S +T+ K G G VTA DI D+E++NP+HVIC+L D +A + M + V + Sbjct: 77 AVKVSNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPNHVICHLTDKNASINMRIRVQR 136 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 137 GRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLIIEMETN 196 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 197 GTIDPEEAIRRAATILAEQLDAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 253 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >gi|90194016|gb|ABD92569.1| RpoA [Actinobacillus hominis] Length = 302 Score = 273 bits (697), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 140/290 (48%), Positives = 204/290 (70%), Gaps = 9/290 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+S +T+ K G G VTA DI D+E++NP+HVIC+L D +A + M + V + Sbjct: 77 AVKVSNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPNHVICHLTDKNASINMRIRVQR 136 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 137 GRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLIIEMETN 196 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 197 GTIDPEEAIRRAATILAEQLDAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 253 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >gi|190341325|gb|ACE74739.1| RpoA [Enterobacter cowanii] Length = 308 Score = 273 bits (697), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 139/291 (47%), Positives = 202/291 (69%), Gaps = 9/291 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + V + Sbjct: 82 AVRVQGKDEVILTLSKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASINMRIKVQR 141 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPASARIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 202 GTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 257 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 258 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >gi|90194030|gb|ABD92576.1| RpoA [Actinobacillus equuli subsp. haemolyticus] Length = 303 Score = 273 bits (697), Expect = 4e-71, Method: Compositional matrix adjust. Identities = 140/290 (48%), Positives = 204/290 (70%), Gaps = 9/290 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+S +T+ K G G VTA DI D+E++NP+HVIC+L D +A + M + V + Sbjct: 77 AVKVSNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPNHVICHLTDKNASINMRIRVQR 136 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 137 GRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLIIEMETN 196 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 197 GTIDPEEAIRRAATILAEQLDAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 253 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >gi|90194018|gb|ABD92570.1| RpoA [Actinobacillus ureae ATCC 25976] Length = 302 Score = 273 bits (697), Expect = 4e-71, Method: Compositional matrix adjust. Identities = 140/290 (48%), Positives = 204/290 (70%), Gaps = 9/290 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G+ ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVKIDGVLHEYSSKEGIQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+S +T+ K G G VTA DI D+E++NPDHVIC+L D +A + M + V + Sbjct: 77 AVKVSNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPDHVICHLTDKNASINMCIRVQR 136 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 137 GRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLIIEMETN 196 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 197 GTIDPEEAIRRAATILAEQLDAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 253 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >gi|190341335|gb|ACE74744.1| RpoA [Enterobacter helveticus] Length = 307 Score = 272 bits (696), Expect = 4e-71, Method: Compositional matrix adjust. Identities = 139/291 (47%), Positives = 202/291 (69%), Gaps = 9/291 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 21 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 80 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + V + Sbjct: 81 AVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIKVQR 140 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D DKL + ++T+ Sbjct: 141 GRGYVPASARIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETN 200 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 201 GTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 256 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 257 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 307 >gi|190341399|gb|ACE74776.1| RpoA [Cronobacter genomosp. 1] Length = 308 Score = 272 bits (696), Expect = 4e-71, Method: Compositional matrix adjust. Identities = 139/291 (47%), Positives = 202/291 (69%), Gaps = 9/291 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + V + Sbjct: 82 AVRVQGKDEVVLTLNKSGIGPVTAADINHDGDVEIVKPQHVICHLTDENASISMRIKVQR 141 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPASARIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 202 GTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 257 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 258 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >gi|190341461|gb|ACE74807.1| RpoA [Cronobacter sakazakii] Length = 301 Score = 272 bits (696), Expect = 4e-71, Method: Compositional matrix adjust. Identities = 139/291 (47%), Positives = 202/291 (69%), Gaps = 9/291 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 15 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 74 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + V + Sbjct: 75 AVRVQGKDEVVLTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIKVQR 134 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D DKL + ++T+ Sbjct: 135 GRGYVPASARIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETN 194 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 195 GTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 250 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 251 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 301 >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 = 272 bits (696), Expect = 4e-71, Method: Compositional matrix adjust. Identities = 139/291 (47%), Positives = 202/291 (69%), Gaps = 9/291 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + V + Sbjct: 82 AVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIKVQR 141 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPASARIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 202 GTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 257 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 258 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >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 = 272 bits (696), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 139/291 (47%), Positives = 202/291 (69%), Gaps = 9/291 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + V + Sbjct: 82 AVRVQGKDEVVLTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIKVQR 141 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPASARIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 202 GTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 257 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 258 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >gi|90193998|gb|ABD92560.1| RpoA [Avibacterium gallinarum] Length = 302 Score = 272 bits (696), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 139/293 (47%), Positives = 204/293 (69%), Gaps = 9/293 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+ Sbjct: 14 VILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNL 73 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELT 148 KG+ +K+ + +T+ K G G V A DI D+E++NP+HVIC+L D +A + M + Sbjct: 74 KGLAVKVQNKDNVFLTLSKSGIGPVVAADITYDGDVEIVNPEHVICHLTDENASINMCIR 133 Query: 149 VSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 V +G GYVPA H + E PIG + +DA YSP+++++Y VE+ R Q D DKL + + Sbjct: 134 VQRGRGYVPASARVHSQDEERPIGRLLVDACYSPVQRIAYNVEATRVEQRTDLDKLVIEL 193 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELE 264 +T+G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LE Sbjct: 194 ETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLE 249 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 250 LTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >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 = 272 bits (696), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 148/323 (45%), Positives = 207/323 (64%), Gaps = 5/323 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 +L++P + + VL R + PL RGF HTLGNALRRVL+SSL+GAA+T V+I+G Sbjct: 6 DLLRPEHYDLEVLSP---RRARISLGPLERGFGHTLGNALRRVLLSSLKGAAVTEVEIEG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE SSI+GV ED+ DI+LN+K + ++ G + VT+ KRGPG+VT DI + IEV Sbjct: 63 VLHEYSSIEGVQEDVVDILLNLKQLAVRAQGRNEVMVTLRKRGPGLVTGADIIAEHGIEV 122 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP-IGLITIDALYSPIKKVSYT 186 NP+ VI L D + M L G GY PA R ++ IG++ +DA YSP+ +VS+ Sbjct: 123 ANPEQVIATLTRDVELVMHLRFDTGRGYEPAATRRQSHEKRIGVLALDASYSPVHRVSFQ 182 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VESAR Q D D+L + ++T+G + +V A+RIL+ QL +F E + Sbjct: 183 VESARVEQRTDLDRLVLDVETNGVVEPLWAVQEAARILRQQLAVFGGAEAATEREAHAAP 242 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 V P L + V++LEL+VRS NCL+ E+I Y+GDL+Q+TE ++L+ N GRKSL EI Sbjct: 243 VHE-DLLPLLARPVDDLELTVRSANCLKAEDIFYIGDLVQKTEQELLKAPNLGRKSLTEI 301 Query: 307 KGVLGTMGLFLGMNLPDWPPESI 329 K VL GL LGM + +WPPE++ Sbjct: 302 KEVLDKNGLTLGMRIENWPPENL 324 >gi|190341307|gb|ACE74730.1| RpoA [Citrobacter koseri] gi|190341309|gb|ACE74731.1| RpoA [Citrobacter koseri] Length = 308 Score = 272 bits (696), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 139/291 (47%), Positives = 202/291 (69%), Gaps = 9/291 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + V + Sbjct: 82 AVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIKVQR 141 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPASTRIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 202 GTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 257 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 258 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >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 = 272 bits (696), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 154/338 (45%), Positives = 207/338 (61%), Gaps = 22/338 (6%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP +IE + + + EP G+AHTLGNALRRVL+SS+ G A T QI GV Sbjct: 6 LLKPRSIE-VETAEGNPYSATVTMEPFETGYAHTLGNALRRVLLSSMVGFAPTEAQIAGV 64 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S I GV ED+ DI+LN+KGI K+ +T+ K G GVVTA D +D+++L Sbjct: 65 VHEYSQIDGVKEDVVDILLNVKGIIFKLENRDEVTITLRKEGEGVVTAADFDLPHDVQIL 124 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND----PIGLITIDALYSPIKKVS 184 NP+HVI NL + M+L + KG GY P ++D IG I +DA +SPI +V+ Sbjct: 125 NPEHVIANLS-GGKLDMQLKIEKGRGYQPGDMRALKDDYSKGTIGRIIMDASFSPILRVA 183 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF-----INFE---- 235 Y VE+AR Q D DKL M I+T+G+I E+++ A+ ILQDQL +F I E Sbjct: 184 YRVENARVEQRTDLDKLVMNIETNGAILPEEALRQAAHILQDQLSVFGGLPTIGLEPVAP 243 Query: 236 -------EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 +P+ V+ + P +P L + V++LEL+VRS NCL+ ENI Y+GDLIQRT Sbjct: 244 QPAFGAMQPQAPVEAPMAKPQPPVDPILRRPVDDLELTVRSANCLKAENIYYIGDLIQRT 303 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 E ++L+ N GRKSL EIK VL GL LGM L +WPP Sbjct: 304 ENELLKTPNLGRKSLNEIKEVLAAHGLTLGMKLENWPP 341 >gi|90193990|gb|ABD92556.1| RpoA [Pasteurella multocida] gi|90194060|gb|ABD92591.1| RpoA [Pasteurella multocida subsp. gallicida] Length = 302 Score = 272 bits (696), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 140/293 (47%), Positives = 202/293 (68%), Gaps = 9/293 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+ Sbjct: 14 VILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNL 73 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELT 148 KG+ +K+ +T+ K G G V A DI D+E++NP+HVIC+L D A + M + Sbjct: 74 KGLAVKVQNKDDVFLTLNKSGIGPVVAADITHDGDVEIVNPEHVICHLTDESASINMRIR 133 Query: 149 VSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 V +G GYVPA H + E PIG + +DA YSP+ +++Y VE+AR Q D DKL + + Sbjct: 134 VQRGRGYVPASARVHAQDEERPIGRLLVDACYSPVDRIAYNVEAARVEQRTDLDKLVIEL 193 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELE 264 +T+G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LE Sbjct: 194 ETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLE 249 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 250 LTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >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 = 272 bits (695), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 154/338 (45%), Positives = 207/338 (61%), Gaps = 22/338 (6%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP +IE + + + EP G+AHTLGNALRRVL+SS+ G A T QI GV Sbjct: 6 LLKPRSIE-VETAEGNPYSATVTMEPFETGYAHTLGNALRRVLLSSMVGFAPTEAQIAGV 64 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S I GV ED+ DI+LN+KGI K+ +T+ K G GVVTA D +D+++L Sbjct: 65 VHEYSQIDGVKEDVVDILLNVKGIIFKLENRDEVTITLRKEGEGVVTAADFDLPHDVQIL 124 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND----PIGLITIDALYSPIKKVS 184 NP+HVI NL + M+L + KG GY P ++D IG I +DA +SPI +V+ Sbjct: 125 NPEHVIANLS-GGKLDMQLKIEKGRGYQPGDMRALKDDYSKGTIGRIIMDASFSPILRVA 183 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF-----INFE---- 235 Y VE+AR Q D DKL M I+T+G+I E+++ A+ ILQDQL +F I E Sbjct: 184 YRVENARVEQRTDLDKLVMNIETNGAILPEEALRQAAHILQDQLSVFGGLPTIGLEPVAP 243 Query: 236 -------EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 +P+ V+ + P +P L + V++LEL+VRS NCL+ ENI Y+GDLIQRT Sbjct: 244 QPAFGAMQPQAPVEAPMAKPQPPVDPILRRPVDDLELTVRSANCLKAENIYYIGDLIQRT 303 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 E ++L+ N GRKSL EIK VL GL LGM L +WPP Sbjct: 304 ENELLKTPNLGRKSLNEIKEVLAAHGLTLGMKLENWPP 341 >gi|190341387|gb|ACE74770.1| RpoA [Pantoea sp. E147] Length = 308 Score = 272 bits (695), Expect = 6e-71, Method: Compositional matrix adjust. Identities = 139/291 (47%), Positives = 201/291 (69%), Gaps = 9/291 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + V + Sbjct: 82 AVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENAAISMRIKVQR 141 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA YSP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPASARIHSEEDERPIGRLLVDACYSPVDRIAYNVEAARVEQRTDLDKLVIEMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 202 GTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 257 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 258 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >gi|90194028|gb|ABD92575.1| RpoA [Actinobacillus equuli subsp. equuli] Length = 300 Score = 272 bits (695), Expect = 6e-71, Method: Compositional matrix adjust. Identities = 140/290 (48%), Positives = 204/290 (70%), Gaps = 9/290 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 14 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 73 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+S +T+ K G G VTA DI D+E++NP+HVIC+L D +A + M + V + Sbjct: 74 AVKVSNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPNHVICHLTDKNASINMRIRVQR 133 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 134 GRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLIIEMETN 193 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 194 GTIDPEEAIRRAATILAEQLDAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 249 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 250 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 299 >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 = 272 bits (695), Expect = 6e-71, Method: Compositional matrix adjust. Identities = 149/337 (44%), Positives = 222/337 (65%), Gaps = 14/337 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q +E +KP +I + + TL EPL RGF HTLGNALRR+L+SS+ G AIT Sbjct: 1 MQSFEKEFLKPRSINIEKISEIHSKITL---EPLERGFGHTLGNALRRILLSSMPGCAIT 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 VNDI-EVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKHHRTEND----PIGLITIDA 175 + I ++NP+H+IC + D 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 EPKK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + + EVKE+ F+P+LL V++LEL+VRS NCL+ E+I Y+GDL+Q+TE ++L+ Sbjct: 238 DVHQPEVKEE----KPEFDPSLLNLVDDLELTVRSANCLKAESIHYIGDLVQKTEVELLK 293 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP+ + E Sbjct: 294 TPNLGKKSLTEIKDVLASRGLSLGMRLDNWPPKHLSE 330 >gi|90194010|gb|ABD92566.1| RpoA [Actinobacillus minor NM305] Length = 303 Score = 272 bits (695), Expect = 6e-71, Method: Compositional matrix adjust. Identities = 137/289 (47%), Positives = 202/289 (69%), Gaps = 7/289 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ +T+ K G G VTAGDI D+E++NPDHVIC+L D +A + M + V + Sbjct: 77 AVKVQSKDDVVLTLNKSGIGPVTAGDITHDGDVEIVNPDHVICHLTDKNASINMRIRVQR 136 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 137 GRGYVPASARVHTQDDDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLIIEMETN 196 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G+I E+++ A+ IL +QL F++ + ++ V + + F+P LL+ V++LEL+VR Sbjct: 197 GTIDPEEAIRRAATILAEQLDAFVDLRDVRQPV---VKEEKPEFDPILLRPVDDLELTVR 253 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 254 SANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >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 = 272 bits (695), Expect = 6e-71, Method: Compositional matrix adjust. Identities = 138/290 (47%), Positives = 198/290 (68%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 A+P RGF T+GNALRR L+SS+ GAA+TAV+I+GVLHE SI GV ED TDIILN+K Sbjct: 28 AQPFERGFGTTIGNALRRTLLSSIEGAAVTAVKIEGVLHEFQSIPGVVEDATDIILNLKQ 87 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + K++GD K + + PGVVT+G I+ D+E+L+ D I + + ME+ + + Sbjct: 88 VPFKLNGDGPKALYVRADQPGVVTSGMIEADADVEILDKDIYIATVSEGGKLEMEMRLKR 147 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G G+V A + + IG I +D+++SP++KV+Y VE+AR GQ+ DYDKL++ + T+G++ Sbjct: 148 GRGFVSADKNHDNDLGIGFIPVDSVHSPVRKVNYFVEAARLGQITDYDKLTLEVMTNGTV 207 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTN 271 D+V LA+++L+D + +FINFEE + + N L + VEELELSVRS N Sbjct: 208 LPADAVGLAAKLLKDHMSIFINFEEEIEAESHSEEGRVQLRNENLNRSVEELELSVRSYN 267 Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 CL+ NI +G+L+Q+TEA+ML+ NFGRKSL EIK +L MGL LGM + Sbjct: 268 CLKNANIQTIGELVQKTEAEMLKTKNFGRKSLNEIKEILAQMGLSLGMKI 317 >gi|308171336|gb|ADO15987.1| RpoA [Vibrio sinaloensis DSM 21326] Length = 321 Score = 272 bits (695), Expect = 6e-71, Method: Compositional matrix adjust. Identities = 143/322 (44%), Positives = 213/322 (66%), Gaps = 11/322 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T V+I+G Sbjct: 6 EFLKPRLVDIEQVSTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 VLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI D+E Sbjct: 63 VLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVE 122 Query: 127 VLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKK 182 + NP+HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+ K Sbjct: 123 IANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDK 182 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 ++Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + + Sbjct: 183 IAYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE 242 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KS Sbjct: 243 ---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKS 299 Query: 303 LVEIKGVLGTMGLFLGMNLPDW 324 L EIK VL + GL LGM L +W Sbjct: 300 LTEIKDVLASRGLSLGMRLENW 321 >gi|90194006|gb|ABD92564.1| RpoA [Mannheimia haemolytica] Length = 302 Score = 272 bits (695), Expect = 7e-71, Method: Compositional matrix adjust. Identities = 138/290 (47%), Positives = 203/290 (70%), Gaps = 9/290 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ +T+ K G G VTA DI D+E++NPDHVIC+L D +A + M + V + Sbjct: 77 AVKVQNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPDHVICHLTDKNASINMRIRVQR 136 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 137 GRGYVPASARLHTQNDDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLVIEMETN 196 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G++ E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 197 GTLDPEEAIRRAATILAEQLAAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 253 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >gi|90194064|gb|ABD92593.1| RpoA [Pasteurella canis] Length = 302 Score = 271 bits (694), Expect = 7e-71, Method: Compositional matrix adjust. Identities = 139/293 (47%), Positives = 203/293 (69%), Gaps = 9/293 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+ Sbjct: 14 VILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNL 73 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELT 148 KG+ +K+ +T+ K G G V A DI D+E++NP+H+IC+L D +A + M + Sbjct: 74 KGLAVKVQNKDDVFLTLNKSGIGPVVAADITHDGDVEIVNPEHIICHLTDDNASINMRIR 133 Query: 149 VSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 V +G GYVPA H + E PIG + +DA YSP+ +++Y VE+AR Q D DKL + + Sbjct: 134 VQRGRGYVPASARVHAQDEERPIGRLLVDACYSPVDRIAYNVEAARVEQRTDLDKLVIEL 193 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELE 264 +T+G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LE Sbjct: 194 ETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLE 249 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 250 LTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >gi|190341367|gb|ACE74760.1| RpoA [Enterobacter radicincitans] Length = 308 Score = 271 bits (694), Expect = 7e-71, Method: Compositional matrix adjust. Identities = 139/291 (47%), Positives = 202/291 (69%), Gaps = 9/291 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + V + Sbjct: 82 AVRVQGKDDVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASINMRIKVQR 141 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPASARIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 202 GTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 257 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 258 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 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 = 271 bits (694), Expect = 8e-71, Method: Compositional matrix adjust. Identities = 139/291 (47%), Positives = 202/291 (69%), Gaps = 9/291 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + V + Sbjct: 82 AVRVQGKDDVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIKVQR 141 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPASTRIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 202 GTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 257 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 258 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >gi|90194048|gb|ABD92585.1| RpoA [Actinobacillus porcinus] Length = 303 Score = 271 bits (694), Expect = 8e-71, Method: Compositional matrix adjust. Identities = 139/293 (47%), Positives = 203/293 (69%), Gaps = 9/293 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE SS +GV ED+ +++LN+ Sbjct: 14 VILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSSKEGVQEDILEVLLNL 73 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELT 148 KG+ +K+ +T+ K G G V A DI D+E++NPDHV+C+L D +A + M + Sbjct: 74 KGLAVKVQNKDDVFLTLNKSGIGPVVAADITHDGDVEIVNPDHVLCHLTDENASINMRIR 133 Query: 149 VSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 V +G GYVPA H + E PIG + +DA YSP+ +++Y VE+AR Q D DKL + + Sbjct: 134 VQRGRGYVPASARAHTQDEERPIGRLLVDACYSPVDRIAYNVEAARVEQRTDLDKLVIEL 193 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELE 264 +T+G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LE Sbjct: 194 ETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLE 249 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 250 LTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >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 = 271 bits (694), Expect = 8e-71, Method: Compositional matrix adjust. Identities = 142/303 (46%), Positives = 200/303 (66%), Gaps = 6/303 (1%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EP RG+ HTLGNALRRVL+SS+ G A T V I GV+HE S+I GV ED+ +++LN+KG+ Sbjct: 2 EPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGVVHEYSTIDGVQEDVVNLLLNLKGV 61 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 K+ V++ K G GVVTA DI+ +D+E++NP HVI +L + M++ V +G Sbjct: 62 VFKLHNRDEVTVSLRKEGEGVVTAADIELPHDVEIINPGHVIASLSAGGKLDMQIKVEQG 121 Query: 153 HGYVPAKHHRTENDP---IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 GYVP + ++ IG + +DA ++P+++VSY VESAR Q D DKL M I+T+G Sbjct: 122 RGYVPGNVRKFGDESSKVIGRVVLDASFAPVRRVSYAVESARVEQRTDLDKLVMNIETNG 181 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-FNPALLKKVEELELSVR 268 I+ E+++ ++RIL DQL +F E E + P +P LL+ V++LEL+VR Sbjct: 182 VISPEEAIRQSARILVDQLSVFAALE--GTESAAEAAAARAPQIDPILLRPVDDLELTVR 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|90194052|gb|ABD92587.1| RpoA [Mannheimia glucosida] Length = 304 Score = 271 bits (694), Expect = 8e-71, Method: Compositional matrix adjust. Identities = 138/290 (47%), Positives = 203/290 (70%), Gaps = 9/290 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ +T+ K G G VTA DI D+E++NPDHVIC+L D +A + M + V + Sbjct: 77 AVKVQNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPDHVICHLTDKNASINMRIRVQR 136 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 137 GRGYVPASARLHTQNDDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLVIEMETN 196 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G++ E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 197 GTLDPEEAIRRAATILAEQLAAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 253 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >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 = 271 bits (694), Expect = 9e-71, Method: Compositional matrix adjust. Identities = 149/328 (45%), Positives = 209/328 (63%), Gaps = 9/328 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP +++ + + + NR ++ EP RG+ HTLGNALRR+L+SS+ G A T QI G+ Sbjct: 6 LLKPTSVD-VSVDESNPNRAVITLEPFERGYGHTLGNALRRILLSSMVGFAPTEAQITGI 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND----PIGLITIDALYSPIKKVS 184 NPDHVI +L + M++ + KG GY P +D IG I +DA +SPI +V+ Sbjct: 125 NPDHVIAHLS-GGRLEMQVKIEKGRGYQPGDVRAFRDDYSKSSIGRIIMDASFSPILRVA 183 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVK 242 Y V +AR Q D DKL MTI+T+G+I E+++ + RILQDQL +F I+ E+ +K Sbjct: 184 YQVMAARVAQRTDLDKLEMTIETNGAIGPEEALRESVRILQDQLAVFGAIHPEQGTDGIK 243 Query: 243 -EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 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|190341305|gb|ACE74729.1| RpoA [Citrobacter koseri] Length = 308 Score = 271 bits (693), Expect = 9e-71, Method: Compositional matrix adjust. Identities = 139/291 (47%), Positives = 201/291 (69%), Gaps = 9/291 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + V + Sbjct: 82 AVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIKVQR 141 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPASTRIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F P LL+ V++LEL+V Sbjct: 202 GTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKEE----KPEFAPILLRPVDDLELTV 257 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 258 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >gi|126643071|ref|YP_001086055.1| DNA-directed RNA polymerase subunit alpha [Acinetobacter baumannii ATCC 17978] Length = 310 Score = 271 bits (692), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 138/302 (45%), Positives = 215/302 (71%), Gaps = 5/302 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 MI EPL RGF HTLGNALRR+L+SSL GAA+ V+I+GV HE S+++G+ +D+ +++LN+ Sbjct: 1 MILEPLERGFGHTLGNALRRILLSSLPGAAVVEVEIEGVEHEYSTLEGLQQDIVELLLNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+++K+ + +T+ K+GPG +TA D++ +++EV+NP+H+I L ++M L V Sbjct: 61 KGLSIKLFDQNEAYLTLEKQGPGDITAADLRLPHNVEVVNPEHLIGTLSATGSLKMRLKV 120 Query: 150 SKGHGY--VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 S+G GY ++ E P+G + +DA YSPIK+VSYTVE+AR Q D DKL + ++T Sbjct: 121 SQGRGYETSDSRFPEGETRPVGRLQLDASYSPIKRVSYTVENARVEQRTDLDKLVIDLET 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ ILQ Q+ +F++ ++ + V ++ + +P LL+ V++LEL+V Sbjct: 181 NGTVDPEEAIRKAATILQQQIAIFVDLQKDQTPVAQEPREE---VDPILLRPVDDLELTV 237 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 RS NCL+ ENI Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP Sbjct: 238 RSANCLKAENIYYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASKGLQLGMRLENWPPA 297 Query: 328 SI 329 S+ Sbjct: 298 SL 299 >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 = 271 bits (692), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 137/302 (45%), Positives = 215/302 (71%), Gaps = 5/302 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RGF HTLGNALRR+L+SSL GAA+ V+I+GV HE S+++G+ +D+ +++LN+ Sbjct: 26 VILEPLERGFGHTLGNALRRILLSSLPGAAVVEVEIEGVEHEYSTLEGLQQDIVELLLNL 85 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+++K+ + +T+ K+GPG +TA D++ +++EV+NP+H+I L ++M L V Sbjct: 86 KGLSIKLFDQNEAYLTLEKQGPGDITAADLRLPHNVEVVNPEHLIGTLSASGSIKMRLKV 145 Query: 150 SKGHGY--VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 S+G GY ++ E P+G + +DA YSPIK+VSYTVE+AR Q D DKL + ++T Sbjct: 146 SQGRGYETSDSRFPEGETRPVGRLQLDASYSPIKRVSYTVENARVEQRTDLDKLVIDLET 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ ILQ Q+ +F++ ++ + V ++ + +P LL+ V++LEL+V Sbjct: 206 NGTVDPEEAIRKAATILQQQIAIFVDLQKDQAPVAQEPREE---VDPILLRPVDDLELTV 262 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 RS NCL+ ENI Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP Sbjct: 263 RSANCLKAENIYYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASKGLQLGMRLENWPPA 322 Query: 328 SI 329 S+ Sbjct: 323 SL 324 >gi|90193992|gb|ABD92557.1| RpoA [Histophilus somni] Length = 302 Score = 271 bits (692), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 140/293 (47%), Positives = 203/293 (69%), Gaps = 9/293 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+ Sbjct: 14 VILEPLERGFGHTLGNALRRILLSSMPGYAVTEVEIDGVLHEYSSKEGVQEDIIEVLLNL 73 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELT 148 KG+ +K+ + +T+ K G G V A DI D+E++NPDHVIC+L D +A + M + Sbjct: 74 KGLAVKVQNKDNVFLTLSKSGIGPVVAADITHDGDVEIVNPDHVICHLTDENASINMRIR 133 Query: 149 VSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 V +G GYVPA H E PIG + +DA YSP+ +++Y V++AR Q D DKL + + Sbjct: 134 VQRGRGYVPASSRVHSLDEERPIGRLLVDACYSPVDRIAYNVQAARVEQRTDLDKLVIEL 193 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELE 264 +T+G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LE Sbjct: 194 ETNGTIEPEEAIRRAATILAEQLDAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLE 249 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 250 LTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLVSRGLSL 302 >gi|262370553|ref|ZP_06063878.1| RNA polymerase [Acinetobacter johnsonii SH046] gi|262314353|gb|EEY95395.1| RNA polymerase [Acinetobacter johnsonii SH046] Length = 335 Score = 271 bits (692), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 138/302 (45%), Positives = 215/302 (71%), Gaps = 5/302 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RGF HTLGNALRR+L+SSL GAA+ V+I+GV HE S+++G+ +D+ +++LN+ Sbjct: 26 VILEPLERGFGHTLGNALRRILLSSLPGAAVVEVEIEGVEHEYSTLEGLQQDIVELLLNL 85 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+++K+ + +T+ K+GPG VTA D++ +++EV+NP+H+I L ++M L V Sbjct: 86 KGLSIKLFDQNEAYLTLEKQGPGDVTAADLRLPHNVEVVNPEHLIGTLSASGSLKMRLKV 145 Query: 150 SKGHGY--VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 S+G GY ++ E P+G + +DA YSPIK+VSYTVE+AR Q D DKL + ++T Sbjct: 146 SQGRGYETSDSRFPEGETRPVGRLQLDASYSPIKRVSYTVENARVEQRTDLDKLVIDLET 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ ILQ Q+ +F++ ++ + V ++ + +P LL+ V++LEL+V Sbjct: 206 NGTVDPEEAIRKAATILQQQIAIFVDLQKDQAPVAQEPREE---VDPILLRPVDDLELTV 262 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 RS NCL+ ENI Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP Sbjct: 263 RSANCLKAENIYYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASKGLQLGMRLENWPPA 322 Query: 328 SI 329 S+ Sbjct: 323 SL 324 >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 = 271 bits (692), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 137/302 (45%), Positives = 215/302 (71%), Gaps = 5/302 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RGF HTLGNALRR+L+SSL GAA+ V+I+GV HE S+++G+ +D+ +++LN+ Sbjct: 26 VILEPLERGFGHTLGNALRRILLSSLPGAAVVEVEIEGVEHEYSTLEGLQQDIVELLLNL 85 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+++K+ + +T+ K+GPG +TA D++ +++EV+NPDH+I L ++M L V Sbjct: 86 KGLSIKLFDQNEAYLTLEKQGPGDITAADLRLPHNVEVVNPDHLIGTLSASGSLKMRLKV 145 Query: 150 SKGHGY--VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G GY ++ E P+G + +DA YSPIK+VSYTVE+AR Q D DKL + ++T Sbjct: 146 AQGRGYETSDSRFPEGETRPVGRLQLDASYSPIKRVSYTVENARVEQRTDLDKLVIDLET 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ ILQ Q+ +F++ ++ + V ++ + +P LL+ V++LEL+V Sbjct: 206 NGTVDPEEAIRKAATILQQQIAIFVDLQKDQTPVAQEPREE---VDPILLRPVDDLELTV 262 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 RS NCL+ ENI Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP Sbjct: 263 RSANCLKAENIYYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASKGLQLGMRLENWPPA 322 Query: 328 SI 329 S+ Sbjct: 323 SL 324 >gi|90194002|gb|ABD92562.1| RpoA [Phocoenobacter uteri] Length = 302 Score = 270 bits (691), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 137/290 (47%), Positives = 203/290 (70%), Gaps = 9/290 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ +T+ K G G V A DI D+E++NP+HVIC+L D DA + M + V + Sbjct: 77 AVKVQNKDDIVLTLNKSGIGPVIAADITHDGDVEIVNPEHVICHLTDKDASINMRIRVQR 136 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H ++++ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 137 GRGYVPASARVHSQSDDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLIIEMETN 196 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G++ E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 197 GTLDPEEAIRRAATILAEQLAAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 253 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >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 = 270 bits (691), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 141/307 (45%), Positives = 206/307 (67%), Gaps = 5/307 (1%) Query: 23 EEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 EE T + +PL RG+ T+GNALRRVL+SSL G AITAV+IDGV HE S+I GV E Sbjct: 11 EEATETFGRFVVQPLERGYGVTIGNALRRVLLSSLPGVAITAVRIDGVQHEFSTIPGVTE 70 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDV 139 D+ +IILN+KG+ K + + + +GP V TA DI + + EVLNPDH I L Sbjct: 71 DVAEIILNLKGVRFKAKDTTDANIRLSLKGPHVWTARDIGEATSHYEVLNPDHYIATLAE 130 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 A V +EL + +G GYVPA+ ++ +DPIG+I IDA+++PIK V YT++ R GQ ++Y+ Sbjct: 131 GAEVNLELRMGRGRGYVPAEENKLPDDPIGVIAIDAIFTPIKNVRYTIKPTRVGQKIEYE 190 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EPKKEV-KEDINVKSLPFNPALL 257 +L + I TDGS++ E+++ A+ IL+D + +FI E EP+ EV K++++ + L Sbjct: 191 RLELEITTDGSVSPEEALVQAATILRDHINLFITMESEPQPEVKKKEVDAEVQRIRELLS 250 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + V+EL+LSVR+ NCL+ NI +GDL++R E++ML+ NFGRKSL E+ VL GL Sbjct: 251 QPVDELDLSVRAQNCLKAANIRTIGDLVRRQESEMLKFRNFGRKSLQELIAVLEERGLHF 310 Query: 318 GMNLPDW 324 GM++ + Sbjct: 311 GMDVDKY 317 >gi|258591343|emb|CBE67642.1| DNA-directed RNA polymerase alpha chain [NC10 bacterium 'Dutch sediment'] Length = 342 Score = 270 bits (691), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 150/336 (44%), Positives = 213/336 (63%), Gaps = 24/336 (7%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQK ++ + KP +E L AEP RGF T+GNALRR L+S++ GAA+ Sbjct: 1 MIQK-FKGIQKPKRLE-CELESLTSTYGKFFAEPFERGFGLTIGNALRRTLLSAIEGAAV 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 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF------ 234 +KV++ VE R GQV DY+KL++ + TDGS+ D++A A++IL+D L +F NF Sbjct: 179 RKVNFRVEDTRVGQVTDYNKLTLEVWTDGSVLPRDAIAYAAKILKDHLSIFTNFEEEPEG 238 Query: 235 -----EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 +E +K++ +++N + V+ELELSVRS NCL+ +I Y+ +L+ R+E Sbjct: 239 EGVVVDEARKQLLDNLN-----------RSVDELELSVRSANCLKHSDIRYIYELVVRSE 287 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 A+ML+ NFGRKSL EIK +L MGL LGM L P Sbjct: 288 AEMLKTKNFGRKSLNEIKEILTGMGLTLGMKLEGLP 323 >gi|179184854|gb|ACB78162.1| RNA polymerase alpha subunit [Aliivibrio finisterrensis] Length = 306 Score = 270 bits (691), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 140/291 (48%), Positives = 203/291 (69%), Gaps = 7/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 19 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 78 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V + Sbjct: 79 AVKVEGKDEVIITLNKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNAEISMRIRVER 138 Query: 152 GHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVP A+ H E++ PIG + IDA YSP+ K+SY+VE+AR Q D DKL + ++T+ Sbjct: 139 GRGYVPSTARIHTEEDERPIGRLLIDATYSPVDKISYSVEAARVEQRTDLDKLVIDMETN 198 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+VR Sbjct: 199 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 255 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM Sbjct: 256 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGM 306 >gi|197288305|gb|ACH57435.1| RpoA [Aliivibrio finisterrensis] Length = 313 Score = 270 bits (690), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 140/291 (48%), Positives = 203/291 (69%), Gaps = 7/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 25 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 84 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V + Sbjct: 85 AVKVEGKDEVIITLNKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNAEISMRIRVER 144 Query: 152 GHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVP A+ H E++ PIG + IDA YSP+ K+SY+VE+AR Q D DKL + ++T+ Sbjct: 145 GRGYVPSTARIHTEEDERPIGRLLIDATYSPVDKISYSVEAARVEQRTDLDKLVIDMETN 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+VR Sbjct: 205 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 261 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM Sbjct: 262 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGM 312 >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 = 270 bits (690), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 147/330 (44%), Positives = 212/330 (64%), Gaps = 15/330 (4%) 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 Sbjct: 178 RRVSFTVDAARVKQKVNLDKLNITIETNGSVNAEVAIKRAAIILQEQLSSF-------VE 230 Query: 241 VKEDINVKSLP----FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ ++LP F+P LL V+ELEL+VRS NCL+ E I Y+GDLIQ++E D+LR Sbjct: 231 LELVEEEEALPTSEDFDPQLLAAVDELELTVRSANCLKAEQIYYIGDLIQKSEQDLLRTP 290 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 N GRKSL EIK VL GL L ++ +WPP Sbjct: 291 NLGRKSLNEIKEVLTEKGLNLATSIENWPP 320 >gi|32423696|gb|AAP81239.1| RNA polymerase alpha subunit [Candidatus Portiera aleyrodidarum] Length = 329 Score = 270 bits (689), Expect = 3e-70, Method: Compositional matrix adjust. Identities = 143/323 (44%), Positives = 207/323 (64%), Gaps = 7/323 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E ++P+ I + N ++ EPL RGF HTLGNALRR+L+S + G A+ +I G Sbjct: 6 EFVRPSKINVEAISN---NHAIISLEPLERGFGHTLGNALRRILLSYMPGCAVVEAEIKG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE S I G+ ED+ +IILNIK I +K+ G + + K G GVV AGDI+ D+EV Sbjct: 63 VQHEYSVIDGIKEDVIEIILNIKEIAIKLYGIDEIELELKKIGSGVVKAGDIKARQDVEV 122 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDHVI +L+ + M+L +G GY PA + G I IDA +SP+K+V+Y V Sbjct: 123 INPDHVIAHLNDHGELNMKLRFVRGRGYEPAYLRNKSDKNYGRIQIDAKFSPVKRVAYFV 182 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EPKKEVKEDI- 245 ESAR Q D+DKL + ++T+G++ E+++ +++IL++QL F++ E KK V+ ++ Sbjct: 183 ESARVEQKTDFDKLIIELETNGTLDPEEAIRTSAKILRNQLDFFVDLSCENKKHVENEVE 242 Query: 246 --NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + ALL VE+LEL+VRS NCL+ ENI Y+GDL++RTE ++L+ N G+KSL Sbjct: 243 HDRRTDTKIDKALLLPVEDLELTVRSANCLKAENIFYIGDLVKRTEGELLKTPNLGKKSL 302 Query: 304 VEIKGVLGTMGLFLGMNLPDWPP 326 EIK VL GL LGM++ WPP Sbjct: 303 NEIKKVLKVRGLALGMHIDLWPP 325 >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 = 270 bits (689), Expect = 3e-70, Method: Compositional matrix adjust. Identities = 152/354 (42%), Positives = 216/354 (61%), Gaps = 34/354 (9%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 ++KP +E + R +M EP RG+ HTLGNALRRVL+SS+ G A T VQI GV Sbjct: 5 MLKPRLVEVQEISGPSHARVVM--EPFERGYGHTLGNALRRVLLSSMVGYAPTEVQIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAK-HHRTENDPIGLITIDALYSPIKKVSYTV 187 NPDHVI L + M++ V +G GYVP + ++ IG I +DA +SP+++VSY V Sbjct: 123 NPDHVIATLTEGGKLDMQIKVEQGRGYVPGNMRNLGDSKTIGRIVLDASFSPVRRVSYAV 182 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--EPKKEVKEDI 245 ESAR Q D D+L + I+T+G+I E++V ++ IL DQL +F + E +P + Sbjct: 183 ESARVEQRTDLDRLLIDIETNGAIAPEEAVRKSAAILVDQLQVFASIEGNDPAVPIGGSQ 242 Query: 246 ---------NVKSLP--------------------FNPALLKKVEELELSVRSTNCLRGE 276 +V S+P +P LL+ V++LEL+VRS NCL+ E Sbjct: 243 TPMGATIGGHVSSVPSGVEGLGAGGAAGFGASTGTIDPILLRPVDDLELTVRSANCLKAE 302 Query: 277 NIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 NI Y+GDLIQRTE ++L+ N GRKSL EIK VL + GL LGM L DWPP +E Sbjct: 303 NIYYIGDLIQRTENELLKTPNLGRKSLNEIKEVLASRGLTLGMRLDDWPPAGLE 356 >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 = 270 bits (689), Expect = 3e-70, Method: Compositional matrix adjust. Identities = 137/288 (47%), Positives = 196/288 (68%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QI+GVLHE S++ GV ED+T+IILN+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIEGVLHEFSTVPGVVEDVTNIILNV 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +GPG VTA DIQ +DIEVLNPD I L+ DA RM LT Sbjct: 83 KKLALKIYSDEEKTLEIDVKGPGTVTAADIQADSDIEVLNPDLHIATLESDAHFRMRLTA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GY PA ++ E+ PIG++ ID++Y+P+ +VSY VE+ R GQ+ +YDKL++ + TDG Sbjct: 143 RTGRGYNPADANKREDQPIGVLPIDSIYTPVTRVSYYVENTRVGQMTNYDKLTLDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI E +VAL ++IL + L +F+N + ++ + + + L +EEL+LSVRS Sbjct: 203 SIEPEKAVALGAKILTEHLNIFVNLTDEAQKAEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +TE DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLEELGLGL 310 >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 = 270 bits (689), Expect = 3e-70, Method: Compositional matrix adjust. Identities = 137/302 (45%), Positives = 215/302 (71%), Gaps = 5/302 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RGF HTLGNALRR+L+SSL GAA+ V+I+GV HE S+++G+ +D+ +++LN+ Sbjct: 26 VILEPLERGFGHTLGNALRRILLSSLPGAAVVEVEIEGVEHEYSTLEGLQQDIVELLLNL 85 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+++K+ + +T+ K+GPG +TA D++ +++EV+NP+H+I L ++M L V Sbjct: 86 KGLSIKLFDQNEAYLTLEKQGPGDITAADLRLPHNVEVVNPEHLIGTLSATGSLKMRLKV 145 Query: 150 SKGHGY--VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 S+G GY ++ E P+G + +DA YSPIK+VSYTVE+AR Q D DKL + ++T Sbjct: 146 SQGRGYETSDSRFPEGETRPVGRLQLDASYSPIKRVSYTVENARVEQRTDLDKLVIDLET 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ ILQ Q+ +F++ ++ + V ++ + +P LL+ V++LEL+V Sbjct: 206 NGTVDPEEAIRKAATILQQQIAIFVDLQKDQTPVAQEPREE---VDPILLRPVDDLELTV 262 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 RS NCL+ ENI Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP Sbjct: 263 RSANCLKAENIYYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASKGLQLGMRLENWPPA 322 Query: 328 SI 329 S+ Sbjct: 323 SL 324 >gi|294842678|ref|ZP_06787361.1| DNA-directed RNA polymerase subunit alpha [Acinetobacter sp. 6014059] Length = 335 Score = 270 bits (689), Expect = 3e-70, Method: Compositional matrix adjust. Identities = 137/302 (45%), Positives = 215/302 (71%), Gaps = 5/302 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RGF HTLGNALRR+L+SSL GAA+ V+I+GV HE S+++G+ +D+ +++LN+ Sbjct: 26 VILEPLERGFGHTLGNALRRILLSSLPGAAVVEVEIEGVEHEYSTLEGLQQDIVELLLNL 85 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+++K+ + +T+ K+GPG +TA D++ +++EV+NP+H+I L ++M L V Sbjct: 86 KGLSIKLFDQNEAYLTLEKQGPGDITAADLRLPHNVEVVNPEHLIGTLSATGSLKMRLKV 145 Query: 150 SKGHGY--VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 S+G GY ++ E P+G + +DA YSPIK+VSYTVE+AR Q D DKL + ++T Sbjct: 146 SQGRGYETSDSRFPEGETRPVGRLQLDASYSPIKRVSYTVENARVEQRTDLDKLVIDLET 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ ILQ Q+ +F++ ++ + V ++ + +P LL+ V++LEL+V Sbjct: 206 NGTVDPEEAIRKAATILQQQIAIFVDLQKDQTPVAQEPREE---VDPILLRPVDDLELTV 262 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 RS NCL+ ENI Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP Sbjct: 263 RSANCLKAENIYYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASKGLQLGMRLENWPPA 322 Query: 328 SI 329 S+ Sbjct: 323 SL 324 >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 = 269 bits (688), Expect = 3e-70, Method: Compositional matrix adjust. Identities = 144/314 (45%), Positives = 211/314 (67%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q TL EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQVSQTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 NPDHVICNL-DVDAVVRMELTVSKGHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVS 184 NP+HVIC+L D +A + M + V +G GYVP A+ H E++ 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 YSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE-- 235 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >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 = 269 bits (688), Expect = 4e-70, Method: Compositional matrix adjust. Identities = 136/302 (45%), Positives = 215/302 (71%), Gaps = 5/302 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RGF HTLGNALRR+L+SSL GAA+ V+I+GV HE S+++G+ +D+ +++LN+ Sbjct: 26 VILEPLERGFGHTLGNALRRILLSSLPGAAVVEVEIEGVEHEYSTLEGLQQDIVELLLNL 85 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+++K+ + +T+ K+GPG +TA D++ +++EV+NP+H+I L ++M L V Sbjct: 86 KGLSIKLFDQNEAYLTLEKQGPGEITAADLRLPHNVEVVNPEHLIGTLSASGSLKMRLKV 145 Query: 150 SKGHGY--VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G GY ++ E P+G + +DA YSPIK+VSYTVE+AR Q D DKL + ++T Sbjct: 146 AQGRGYETSDSRFPEGETRPVGRLQLDASYSPIKRVSYTVENARVEQRTDLDKLVIDLET 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ ILQ Q+ +F++ ++ + V ++ + +P LL+ V++LEL+V Sbjct: 206 NGTVDPEEAIRKAATILQQQIAIFVDLQKDQTPVAQEPREE---VDPILLRPVDDLELTV 262 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 RS NCL+ ENI Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP Sbjct: 263 RSANCLKAENIYYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASKGLQLGMRLENWPPA 322 Query: 328 SI 329 S+ Sbjct: 323 SL 324 >gi|190341379|gb|ACE74766.1| RpoA [Escherichia vulneris] Length = 308 Score = 269 bits (688), Expect = 4e-70, Method: Compositional matrix adjust. Identities = 138/290 (47%), Positives = 201/290 (69%), Gaps = 9/290 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + V + Sbjct: 82 AVRVQGKDDVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIKVQR 141 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPASARIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 202 GTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 257 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 258 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 307 >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 = 269 bits (688), Expect = 4e-70, Method: Compositional matrix adjust. Identities = 144/314 (45%), Positives = 211/314 (67%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q TL EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQVSQTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 NPDHVICNL-DVDAVVRMELTVSKGHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVS 184 NP+HVIC+L D +A + M + V +G GYVP A+ H E++ 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 YSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE-- 235 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 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 = 269 bits (687), Expect = 5e-70, Method: Compositional matrix adjust. Identities = 144/314 (45%), Positives = 210/314 (66%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q TL EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQVSQTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 NPDHVICNL-DVDAVVRMELTVSKGHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVS 184 NP+HVIC+L D +A + M + V +G GYVP A+ H E++ 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 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE-- 235 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >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 = 269 bits (687), Expect = 5e-70, Method: Compositional matrix adjust. Identities = 142/314 (45%), Positives = 208/314 (66%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q TL EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQVSQTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 NPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE-- 235 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >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 = 269 bits (687), Expect = 5e-70, Method: Compositional matrix adjust. Identities = 144/314 (45%), Positives = 210/314 (66%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q TL EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQVSQTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 NPDHVICNL-DVDAVVRMELTVSKGHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVS 184 NP+HVIC+L D +A + M + V +G GYVP A+ H E++ 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 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE-- 235 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >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 = 269 bits (687), Expect = 5e-70, Method: Compositional matrix adjust. Identities = 137/288 (47%), Positives = 196/288 (68%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDGVLHE S+I GV ED+T IILNI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDGVLHEFSTIDGVVEDVTAIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +G GVVTA DI +D+E+LNPD I L +RM +T Sbjct: 83 KKLALKIYSDEEKTLEIDAQGEGVVTAADITHDSDVEILNPDLHIATLAEGGRLRMRMTA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYVPA+ ++ E+ PIG+I ID++Y+P+ +VSY VE+ R GQV DYDKL++ + TDG Sbjct: 143 KRGRGYVPAEANKREDQPIGVIPIDSIYTPVSRVSYQVENTRVGQVTDYDKLTIDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI ++++AL ++IL + L +F++ + + + + + L +EEL+LSVRS Sbjct: 203 SIGPKEAIALGAKILTEHLNIFVSLTDEAQNAEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L Q+TE DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVQELTQKTEEDMMKVRNLGRKSLEEVKAKLAELGLSL 310 >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 = 269 bits (687), Expect = 5e-70, Method: Compositional matrix adjust. Identities = 136/302 (45%), Positives = 215/302 (71%), Gaps = 5/302 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RGF HTLGNALRR+L+SSL GAA+ V+I+GV HE S+++G+ +D+ +++LN+ Sbjct: 26 VILEPLERGFGHTLGNALRRILLSSLPGAAVVEVEIEGVEHEYSTLEGLQQDIVELLLNL 85 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+++K+ + +T+ K+GPG +TA D++ +++EV+NP+H+I L ++M L V Sbjct: 86 KGLSIKLFDQNEAYLTLEKQGPGDITAADLRLPHNVEVVNPEHLIGTLSASGSLKMRLKV 145 Query: 150 SKGHGY--VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G GY ++ E P+G + +DA YSPIK+VSYTVE+AR Q D DKL + ++T Sbjct: 146 AQGRGYETSDSRFPEGETRPVGRLQLDASYSPIKRVSYTVENARVEQRTDLDKLVIDLET 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ ILQ Q+ +F++ ++ + V ++ + +P LL+ V++LEL+V Sbjct: 206 NGTVDPEEAIRKAATILQQQIAIFVDLQKDQTPVAQEPREE---VDPILLRPVDDLELTV 262 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 RS NCL+ ENI Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP Sbjct: 263 RSANCLKAENIYYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASKGLQLGMRLENWPPA 322 Query: 328 SI 329 S+ Sbjct: 323 SL 324 >gi|90193994|gb|ABD92558.1| RpoA [Gallibacterium anatis] Length = 300 Score = 269 bits (687), Expect = 6e-70, Method: Compositional matrix adjust. Identities = 137/288 (47%), Positives = 199/288 (69%), Gaps = 7/288 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ +T+ K G G V A DI D+E++NPDH+IC+L D +A + M + V + Sbjct: 77 AVKVQNKDDVFLTLTKSGIGPVVAADITHDGDVEIVNPDHIICHLTDENASINMRIRVQR 136 Query: 152 GHGYVPAKHH-RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 G GYVPA E PIG + +DA YSP+ +++Y VE+AR Q D DKL + ++T+G+ Sbjct: 137 GRGYVPASSRTHDEERPIGRLLVDACYSPVDRIAYNVEAARVEQRTDLDKLVIEMETNGT 196 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSVRS 269 + E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+VRS Sbjct: 197 LDPEEAIRRAATILAEQLDAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTVRS 252 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 253 ANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 300 >gi|90194026|gb|ABD92574.1| RpoA [Actinobacillus capsulatus] Length = 303 Score = 268 bits (686), Expect = 6e-70, Method: Compositional matrix adjust. Identities = 139/290 (47%), Positives = 202/290 (69%), Gaps = 9/290 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+S +T+ K G G VTA DI D+E++NP+HVIC+L D A + M + V + Sbjct: 77 AVKVSNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPNHVICHLTDKSASINMRIRVQR 136 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYV A H + E+ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 137 GRGYVSASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLIIEMETN 196 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 197 GTIDPEEAIRRAATILAEQLDAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 253 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >gi|90194000|gb|ABD92561.1| RpoA [Nicoletella semolina] Length = 302 Score = 268 bits (686), Expect = 6e-70, Method: Compositional matrix adjust. Identities = 138/290 (47%), Positives = 202/290 (69%), Gaps = 9/290 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ +T+ K G G V A DI D+E++NP+HVIC+L D +A + M + V + Sbjct: 77 AVKVQNKDDVILTLTKSGIGPVIAADIVHDGDVEIVNPNHVICHLTDNNASINMRIRVRR 136 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + +N PIG + +DA +SP+ ++SY VE+AR Q D DKL + ++T+ Sbjct: 137 GRGYVPASALVHTQDDNRPIGRLLVDARFSPVDRISYNVEAARVEQRTDLDKLVIEMETN 196 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G++ E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 197 GTLDPEEAIRRAATILAEQLAAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 253 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 302 >gi|90194050|gb|ABD92586.1| RpoA [Haemophilus parasuis] Length = 302 Score = 268 bits (686), Expect = 7e-70, Method: Compositional matrix adjust. Identities = 136/287 (47%), Positives = 200/287 (69%), Gaps = 9/287 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 16 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 75 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ +T+ K G G VTA DI D+E++NPDHVICNL D +A + M + V + Sbjct: 76 AVKVQNKDDIILTLTKSGIGPVTAADITHDGDVEIVNPDHVICNLTDKNASISMRIRVQR 135 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 136 GRGYVPASARVHTQDDDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLVIEMETN 195 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G++ E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 196 GTLDPEEAIRRAATILAEQLAAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 251 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 252 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLALVA 298 >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 = 268 bits (686), Expect = 7e-70, Method: Compositional matrix adjust. Identities = 144/334 (43%), Positives = 212/334 (63%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q ++ +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGFVEDFLKPRLVDIQQISATHAKITL---EPLERGFGHTLGNALRRILLSSISGCAVT 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 VNDIEVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALY 177 N E++N H+ICNL DA + + + V++G GY+ AK + D IG + +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 ++ + F P LL+ V++LEL+VRS NCL+ E+I Y+GDL+Q+TE ++L+ N Sbjct: 238 REPEI---KEEKPEFEPVLLRPVDDLELTVRSANCLKAESIHYIGDLVQKTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP+S+ E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMKLDNWPPKSLLE 328 >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 = 268 bits (686), Expect = 7e-70, Method: Compositional matrix adjust. Identities = 135/302 (44%), Positives = 215/302 (71%), Gaps = 5/302 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RGF HTLGNALRR+L+SSL GAA+ V+I+GV HE S+++G+ +D+ +++LN+ Sbjct: 26 VILEPLERGFGHTLGNALRRILLSSLPGAAVVEVEIEGVEHEYSTLEGLQQDIVELLLNL 85 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+++K+ + +T+ K+GPG +TA D++ +++EV+NP+H+I L ++M L V Sbjct: 86 KGLSIKLFDQNEAYLTLEKQGPGDITAADLRLPHNVEVVNPEHLIGTLSASGSIKMRLKV 145 Query: 150 SKGHGY--VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G GY ++ E P+G + +DA YSPI++VSYTVE+AR Q D DKL + ++T Sbjct: 146 AQGRGYETSDSRFPEGETRPVGRLQLDASYSPIQRVSYTVENARVEQRTDLDKLIIDLET 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ ILQ Q+ +F++ ++ + V ++ + +P LL+ V++LEL+V Sbjct: 206 NGTVDPEEAIRKAATILQQQIAIFVDLQKDQAPVAQEPREE---VDPILLRPVDDLELTV 262 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 RS NCL+ ENI Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP Sbjct: 263 RSANCLKAENIYYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASKGLQLGMRLENWPPA 322 Query: 328 SI 329 S+ Sbjct: 323 SL 324 >gi|58384667|gb|AAW72682.1| DNA-directed RNA polymerase alpha chain [Buchnera aphidicola (Cinara cedri)] Length = 329 Score = 268 bits (686), Expect = 8e-70, Method: Compositional matrix adjust. Identities = 144/334 (43%), Positives = 212/334 (63%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q ++ +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGFVEDFLKPGLVDIQQISATHAKITL---EPLERGFGHTLGNALRRILLSSISGCAVT 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 VNDIEVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALY 177 N E++N H+ICNL DA + + + V++G GY+ AK + D IG + +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 ++ + F P LL+ V++LEL+VRS NCL+ E+I Y+GDL+Q+TE ++L+ N Sbjct: 238 REPEI---KEEKPEFEPVLLRPVDDLELTVRSANCLKAESIHYIGDLVQKTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP+S+ E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMKLDNWPPKSLLE 328 >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 = 268 bits (685), Expect = 9e-70, Method: Compositional matrix adjust. Identities = 136/288 (47%), Positives = 196/288 (68%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDGVLHE S+I GV ED+T IILNI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDGVLHEFSTIDGVVEDVTAIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +G GVVTA DI +D+E+LNPD I L +RM +T Sbjct: 83 KKLALKIYSDEEKTLEIDAQGEGVVTAADITHDSDVEILNPDLHIATLAEGGRLRMRMTA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYVPA+ ++ E+ PIG+I ID++Y+P+ +V+Y VE+ R GQV DYDKL++ + TDG Sbjct: 143 KRGRGYVPAEANKREDQPIGVIPIDSIYTPVSRVAYQVENTRVGQVTDYDKLTIDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI ++++AL ++IL + L +F++ + + + + + L +EEL+LSVRS Sbjct: 203 SIGPKEAIALGAKILTEHLNIFVSLTDEAQNAEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L Q+TE DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVQELTQKTEEDMMKVRNLGRKSLEEVKAKLAELGLSL 310 >gi|58416068|emb|CAH57448.1| RNA polymerase alpha-subunit [Vibrio sp. R-23695] Length = 308 Score = 268 bits (685), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 139/290 (47%), Positives = 202/290 (69%), Gaps = 7/290 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V + Sbjct: 82 AVKVEGKDEVIITLNKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNAEISMRIKVER 141 Query: 152 GHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVP A+ H E++ PIG + IDA YSP+ K+SY+VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPSTARIHTEEDERPIGRLLIDATYSPVDKISYSVEAARVEQRTDLDKLVIDMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+VR Sbjct: 202 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 258 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >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 = 268 bits (684), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 147/326 (45%), Positives = 209/326 (64%), Gaps = 7/326 (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 + Sbjct: 178 KRVSFTVDAARVKQKVNLDKLNIMIETNGSVNAEVAIKRVATILQEQLS---SFVELELV 234 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +E S F+P LL V+ELEL+VRS NCL+ E I Y+GDLIQ++E D+LR N GR Sbjct: 235 EEEVSLPTSEDFDPQLLAAVDELELTVRSANCLKAEQIYYIGDLIQKSEQDLLRTPNLGR 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPP 326 KSL EIK VL GL LG N+ +WPP Sbjct: 295 KSLNEIKEVLTEKGLSLGTNIENWPP 320 >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 = 268 bits (684), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 137/302 (45%), Positives = 214/302 (70%), Gaps = 5/302 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RGF HTLGNALRR+L+SSL GAA+ V+I+GV HE S+++G+ +D+ +++LN+ Sbjct: 26 VILEPLERGFGHTLGNALRRILLSSLPGAAVVEVEIEGVEHEYSTLEGLQQDIVELLLNL 85 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+++K+ + +T+ K+G G VTA D++ +++EV+NPDH+I L ++M L V Sbjct: 86 KGLSIKLFDQNEAYLTLEKQGAGDVTAADLRLPHNVEVVNPDHLIGTLSASGSLKMRLKV 145 Query: 150 SKGHGY--VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G GY ++ E P+G + +DA YSPIK+VSYTVE+AR Q D DKL + ++T Sbjct: 146 AQGRGYETSDSRFPEGETRPVGRLQLDASYSPIKRVSYTVENARVEQRTDLDKLVIDLET 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ ILQ Q+ +F++ ++ + V ++ + +P LL+ V++LEL+V Sbjct: 206 NGTVDPEEAIRKAATILQQQIAIFVDLQKDQTPVAQEPREE---VDPILLRPVDDLELTV 262 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 RS NCL+ ENI Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP Sbjct: 263 RSANCLKAENIYYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASKGLQLGMRLENWPPA 322 Query: 328 SI 329 S+ Sbjct: 323 SL 324 >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 = 268 bits (684), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 145/333 (43%), Positives = 213/333 (63%), Gaps = 7/333 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 EL++P ++ V+ R + PL RGF HTLG+ LRRVL+SSL+GAA+T V+I+G Sbjct: 6 ELLRPQGVDVEVISA---RRARLALGPLERGFGHTLGSGLRRVLLSSLKGAAVTEVEIEG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE SSI+GV ED+ DI+LN+K + ++ G VT+ KRGPG +T DI + + IEV Sbjct: 63 VLHEYSSIEGVQEDVVDILLNLKMLAVRAHGRGDAVVTLRKRGPGQMTGADIVSEHGIEV 122 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP-IGLITIDALYSPIKKVSYT 186 NP+ VI L D + + L + +G GY A R ++ 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 +E+ E Sbjct: 183 VENARVEQRTDLDRLILDVETNGVVDPVWAVQEAARIFRSQLGVLAGAE--TREIPEASQ 240 Query: 247 VK-SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 V+ S P L++ V++LEL+VRS NCL+ E+I Y+GDL+Q++E ++L+ N GRKSL E Sbjct: 241 VQVSQSLTPLLIRPVDDLELTVRSANCLKAEDIFYIGDLVQKSEQELLKAPNLGRKSLNE 300 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 IK VL GL LGM L WPPE++ + + D Sbjct: 301 IKEVLVAHGLTLGMRLDSWPPENLPPVPGRAAD 333 >gi|148793282|gb|ABR12705.1| DNA-directed RNA polymerase alpha subunit [Photobacterium kishitanii] Length = 308 Score = 268 bits (684), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 137/293 (46%), Positives = 200/293 (68%), Gaps = 7/293 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+ Sbjct: 19 VILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNL 78 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELT 148 KG+ +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + Sbjct: 79 KGLAVKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNAELSMRIK 138 Query: 149 VSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 V +G GYVPA H + PIG + +DA YSP+ +++Y VE+AR Q D DKL + + Sbjct: 139 VERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDRIAYAVEAARVEQRTDLDKLVIDM 198 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 +T+G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL Sbjct: 199 ETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLEL 255 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 256 TVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >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 = 268 bits (684), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 155/342 (45%), Positives = 220/342 (64%), Gaps = 25/342 (7%) Query: 2 IQKNWQELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +Q +E +KP NIE I E + EPL RGF HTLGNALRRVL+SS+ G A Sbjct: 1 MQSPEKEFLKPRLINIEKI-----SEVHAKITLEPLERGFGHTLGNALRRVLLSSMPGCA 55 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T V+IDGVLHE +G+ ED+ +I+LN+K + + + G +++ K G G V A DI Sbjct: 56 VTEVEIDGVLHEYGIKEGIREDVLEILLNLKTLAIAIEGKDSMILSLKKSGVGPVVASDI 115 Query: 120 QTVNDI-EVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPA--KHHRTEND-----PIGL 170 + I +++NP HVIC + D A++ M + V +G GYVPA K + ++ PIG Sbjct: 116 LYDSSIVKIVNPAHVICVITDDHAILSMRIKVQRGRGYVPAFSKFNSILDEQQTAIPIGR 175 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 + +DA YSP+++VSYTVE+AR + D DKL + ++T+G+I E+++ A+ IL DQL Sbjct: 176 LVLDACYSPVERVSYTVEAARVEKRTDLDKLIIDMETNGTIDPEEAIRRAATILSDQLST 235 Query: 231 FI---NFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 FI N +P E+KED F+PALL V++LEL+VRS NCL+ E+I Y+GDL+Q+ Sbjct: 236 FIDLNNVYQP--EIKED----KPEFDPALLHLVDDLELTVRSANCLKAESIHYIGDLVQK 289 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 TE ++L+ N G+KSL EIK VL + GL LGM L WPP+S Sbjct: 290 TEVELLKTPNLGKKSLTEIKDVLASRGLSLGMCLEKWPPKSF 331 >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 = 268 bits (684), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 146/316 (46%), Positives = 205/316 (64%), Gaps = 16/316 (5%) 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN------FEEPKKEV 241 ESAR G+ DYDKL++ I TDGSIT D+++ A++IL + +F++ F++ E Sbjct: 179 ESARVGKRDDYDKLTLEIWTDGSITPNDALSFAAKILVEHFKVFMSTDMDAQFDDVMVEK 238 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++D N K L +EEL+LSVRS NCL+ I + +L ++EADM+R+ N GRK Sbjct: 239 EDDKNEKKLEMT------IEELDLSVRSYNCLKRAGINTVQELTDKSEADMMRVRNLGRK 292 Query: 302 SLVEIKGVLGTMGLFL 317 SL E+K L +GL L Sbjct: 293 SLEEVKNKLADLGLSL 308 >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 = 267 bits (683), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 146/316 (46%), Positives = 205/316 (64%), Gaps = 16/316 (5%) 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN------FEEPKKEV 241 ESAR G+ DYDKL++ I TDGSIT D+++ A++IL + +F++ F++ E Sbjct: 179 ESARVGKRDDYDKLTLEIWTDGSITPNDALSFAAKILVEHFKVFMSTDMDAQFDDVMVEK 238 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++D N K L +EEL+LSVRS NCL+ I + +L ++EADM+R+ N GRK Sbjct: 239 EDDKNEKKLEMT------IEELDLSVRSYNCLKRAGINTVQELTDKSEADMMRVRNLGRK 292 Query: 302 SLVEIKGVLGTMGLFL 317 SL E+K L +GL L Sbjct: 293 SLEEVKNKLAELGLSL 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 = 267 bits (683), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 144/319 (45%), Positives = 212/319 (66%), Gaps = 10/319 (3%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 QGSVTEFLKPRLVDIEQVSMTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVTE 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 NDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVP--AKHHRTEND-PIGLITIDALYS 178 D+E+ NP+HVIC+L D +A + M + V +G GYVP A+ H E++ 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 VPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFL 317 G+KSL EIK VL + GL L Sbjct: 295 GKKSLTEIKDVLASRGLSL 313 >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 = 267 bits (683), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 135/303 (44%), Positives = 203/303 (66%), Gaps = 9/303 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDG+LHE S+ +GV ED+ +I+LN+KG+ Sbjct: 29 EPLERGFGHTLGNALRRILLSSMPGFAVTEVEIDGILHEYSTKEGVQEDIIEILLNLKGL 88 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV-DAVVRMELTVSK 151 +++ G +T+ K G GVVTA DI ND+E++N DH+IC L +A + M + V Sbjct: 89 AIRVYGKDQVYLTLVKTGIGVVTAADINHGNDVEIINLDHIICTLTCKNASISMRIKVQC 148 Query: 152 GHGYVPAKHHR-----TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 G GYVP + + +G + +DA YSP++++ Y VE+AR + D DKL + ++ Sbjct: 149 GRGYVPVISRTNVISDNKENYVGKLLVDACYSPVERMIYKVEAARVEKRTDLDKLVIEME 208 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+G++ E+++ A+ IL +QL F+ + ++ + + F+P LL+ V++LEL+ Sbjct: 209 TNGTLDPEEAIRRAATILSNQLESFVYLRDIREPEIK---EEKPEFDPILLRPVDDLELT 265 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 VRS NCL+ E I Y+GDL+Q+TE ++LR N G+KSL EIK VL L LGMNL +WPP Sbjct: 266 VRSANCLKAEMIHYIGDLVQKTEVELLRTPNLGKKSLTEIKDVLAAKNLSLGMNLENWPP 325 Query: 327 ESI 329 ++I Sbjct: 326 DNI 328 >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 = 267 bits (683), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 139/291 (47%), Positives = 202/291 (69%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNADIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + V+E I K F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVR--VQEPIEEKP-EFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >gi|58415862|emb|CAH57345.1| RNA polymerase alpha-subunit [Vibrio gazogenes] Length = 309 Score = 267 bits (682), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 140/291 (48%), Positives = 204/291 (70%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D +A V M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLNDDNAEVAMRIKVQ 141 Query: 151 KGHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVP A+ H E+D PIG + +DA YSP+ K++YTVE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTDEDDRPIGRLLVDATYSPVDKIAYTVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G+I E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTIEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >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 = 267 bits (682), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 137/302 (45%), Positives = 214/302 (70%), Gaps = 5/302 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RGF HTLGNALRR+L+SSL GAA+ V+I+GV HE S+++G+ +D+ +++LN+ Sbjct: 26 VILEPLERGFGHTLGNALRRILLSSLPGAAVVEVEIEGVEHEYSTLEGLQQDIVELLLNL 85 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+++K+ + +T+ K+G G VTA D++ +++EV+NPDH+I L ++M L V Sbjct: 86 KGLSIKLFDQNEAYLTLEKQGAGDVTAADLRLPHNVEVVNPDHLIGTLSSSGSLKMRLKV 145 Query: 150 SKGHGY--VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G GY ++ E P+G + +DA YSPIK+VSYTVE+AR Q D DKL + ++T Sbjct: 146 AQGRGYETSDSRFPEGETRPVGRLQLDASYSPIKRVSYTVENARVEQRTDLDKLVIDLET 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ ILQ Q+ +F++ ++ + V ++ + +P LL+ V++LEL+V Sbjct: 206 NGTVDPEEAIRKAATILQQQIAIFVDLQKDQTPVAQEPREE---VDPILLRPVDDLELTV 262 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 RS NCL+ ENI Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP Sbjct: 263 RSANCLKAENIYYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASKGLQLGMRLENWPPA 322 Query: 328 SI 329 S+ Sbjct: 323 SL 324 >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 = 267 bits (682), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 145/316 (45%), Positives = 205/316 (64%), Gaps = 16/316 (5%) 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN------FEEPKKEV 241 ESAR G+ DYDKL++ I TDGSIT D+++ A++IL + +F++ F++ E Sbjct: 179 ESARVGKRDDYDKLTLEIWTDGSITPNDALSFAAKILVEHFKVFMSTDMDAQFDDVMVEK 238 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++D N K L +EEL+LSVRS NCL+ I + +L ++EADM+R+ N GRK Sbjct: 239 EDDKNEKKLEMT------IEELDLSVRSYNCLKRAGINTVQELTDKSEADMMRVRNLGRK 292 Query: 302 SLVEIKGVLGTMGLFL 317 SL E+K L +GL L Sbjct: 293 SLEEVKNKLAELGLSL 308 >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 = 267 bits (682), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 138/290 (47%), Positives = 201/290 (69%), Gaps = 7/290 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V + Sbjct: 82 AVKVEGKDEVIITLNKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNAEISMRIKVER 141 Query: 152 GHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVP A+ H E++ PIG + +DA YSP+ K+SY VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPSTARIHTEEDERPIGRLLVDATYSPVDKISYAVEAARVEQRTDLDKLVIDMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+VR Sbjct: 202 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 258 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >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 = 267 bits (682), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 138/290 (47%), Positives = 201/290 (69%), Gaps = 7/290 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V + Sbjct: 82 AVKVEGKDEVIITLNKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNAEISMRIKVER 141 Query: 152 GHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVP A+ H E++ PIG + +DA YSP+ K+SY VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPSTARIHTEEDERPIGRLLVDATYSPVDKISYAVEAARVEQRTDLDKLVIDMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+VR Sbjct: 202 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 258 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >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 = 267 bits (682), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 139/291 (47%), Positives = 202/291 (69%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDDVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNADIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + V+E I K F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVR--VQEPIEEKP-EFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >gi|90194058|gb|ABD92590.1| RpoA [Mannheimia granulomatis] Length = 303 Score = 266 bits (681), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 135/282 (47%), Positives = 198/282 (70%), Gaps = 9/282 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGL 76 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ +T+ K G G VTA DI D+E++NPDHVICNL D +A + M + V + Sbjct: 77 AVKVQNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPDHVICNLTDKNASINMRIRVQR 136 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 137 GRGYVPASARLHTQNDDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLDKLVIEMETN 196 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSV 267 G++ E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+V Sbjct: 197 GTLDPEEAIRRAATILAEQLAAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK V Sbjct: 253 RSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDV 294 >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 = 266 bits (681), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 136/288 (47%), Positives = 195/288 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDGVLHE S+I GV ED+T IILNI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDGVLHEFSTIDGVVEDVTTIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +G GVVTA DI +D+E+LNPD I L D +RM +T Sbjct: 83 KKLALKIYSDEEKTLEIDVQGEGVVTAADITHDSDVEILNPDLQIATLAKDGRLRMRMTA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY PA ++ E+ PIG+I ID++Y+P+ +VSY VE+ R GQ+ +YDKL++ + TDG Sbjct: 143 KRGRGYTPADANKREDQPIGVIPIDSIYTPVSRVSYQVENTRVGQMTNYDKLTIDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI +++++L ++IL + L +F+N + + + I + L +EEL+LSVRS Sbjct: 203 SIGPKEAISLGAKILTEHLNIFVNLTDEAQHAEIMIEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L Q+TE DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVQELAQKTEEDMMKVRNLGRKSLEEVKAKLEELGLSL 310 >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 = 266 bits (680), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 137/294 (46%), Positives = 202/294 (68%), Gaps = 8/294 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 15 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 74 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 75 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 134 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 135 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMET 194 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 195 NGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 251 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L Sbjct: 252 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRL 305 >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 = 266 bits (680), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 149/319 (46%), Positives = 208/319 (65%), Gaps = 3/319 (0%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 NW E+I+P + ++ IAEPL RGF TLGNALRRVL+SSL GAA+TA++ Sbjct: 4 NWNEVIRPRAL-VCDTKTATDSYGKFIAEPLERGFGITLGNALRRVLLSSLEGAAVTAIR 62 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 ID VLHE S++ GV ED+TDIILN+K + K+ K +T+ G VTA ++ D Sbjct: 63 IDNVLHEFSTVSGVVEDVTDIILNVKQLRFKLLSPGEKVLTLKASSVGPVTAASLECPPD 122 Query: 125 IEVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 ++VLN D VI L DA + MEL V G Y A+ ++ +D I +I +D+L++P+ KV Sbjct: 123 VKVLNSDCVIATLGREDAELNMELRVDIGRAYRLAEENKKADDVIDMIPVDSLFNPVVKV 182 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK- 242 +YTVE AR Q ++DKL + + TDGS+ ED+VA A++I++DQL +FINFE+ ++ V Sbjct: 183 NYTVEQARVVQDTNFDKLILEVWTDGSVKPEDAVAFAAKIIKDQLAIFINFEDVEEPVAL 242 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 E + S L K VEELELSVRS NCL +I + DL+ R+E ++L+ NFG+KS Sbjct: 243 ESVEDGSEELFALLSKSVEELELSVRSYNCLNNIDIRTIADLVARSENELLKTKNFGKKS 302 Query: 303 LVEIKGVLGTMGLFLGMNL 321 L+EIK +L M L LGM+L Sbjct: 303 LLEIKEILKEMNLTLGMDL 321 >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 = 266 bits (680), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 136/290 (46%), Positives = 198/290 (68%), Gaps = 7/290 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V + Sbjct: 82 AVKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNAELSMRIKVER 141 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA YSP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPASARIHTEEDERPIGRLLVDATYSPVDRIAYAVEAARVEQRTDLDKLVIDMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+VR Sbjct: 202 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 258 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >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 = 266 bits (680), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 144/319 (45%), Positives = 205/319 (64%), Gaps = 16/319 (5%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E + A+P RGF T+GN+LRRVL+SS+ GAAITAV+I+GV HE S I GV ED TD Sbjct: 20 ERYGMFTAQPFQRGFGTTIGNSLRRVLLSSIEGAAITAVRIEGVEHEFSPIPGVVEDATD 79 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+K I K+S D K V + G V +G I+T D+EVL+ D + + + Sbjct: 80 IILNLKQIPFKISSDGIKTVRLSVDSHGDVRSGQIETDADVEVLDRDVHVATVSEGGKLN 139 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +E+ + G GYV A + E+ +G I ID+++SP++KV++ VE+AR GQ+ DYDKL++ Sbjct: 140 IEMRLKSGRGYVSADKNFDEDLALGYIPIDSVHSPVRKVNFAVEAARLGQMTDYDKLTLE 199 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 + T+G+++ +DS+ A+++L+D + +FINFEE ++ +E N L + VEELE Sbjct: 200 VWTNGAVSPQDSIGYAAKLLKDHMTIFINFEEVPEQTEEISERGMDKMNEVLNRSVEELE 259 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL--- 321 LSVRS NCL+ NI +G+L+Q+TEA+MLR NFGRKSL EIK +L MGL LGM + Sbjct: 260 LSVRSYNCLKNANIQSIGELVQKTEAEMLRTKNFGRKSLNEIKEILANMGLSLGMRIDQH 319 Query: 322 -------------PDWPPE 327 PD+ PE Sbjct: 320 GRLVAPPPSAGGGPDFGPE 338 >gi|197288307|gb|ACH57436.1| RpoA [Vibrio gallaecicus] Length = 311 Score = 266 bits (680), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 137/294 (46%), Positives = 201/294 (68%), Gaps = 8/294 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 21 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 80 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 81 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 140 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 141 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 200 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 201 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 257 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L Sbjct: 258 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRL 311 >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 = 266 bits (680), Expect = 4e-69, Method: Compositional matrix adjust. Identities = 145/316 (45%), Positives = 205/316 (64%), Gaps = 16/316 (5%) 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN------FEEPKKEV 241 ESAR G+ DYDKL++ I TDGSIT D+++ A++IL + +F++ F++ E Sbjct: 179 ESARVGKRDDYDKLTLEIWTDGSITPNDALSFAAKILVEHFKVFMSTDMDAQFDDVMVEK 238 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++D N K L +EEL+LSVRS NCL+ I + +L ++EADM+R+ N GRK Sbjct: 239 EDDKNEKKLEMT------IEELDLSVRSYNCLKRAGINTVQELTDKSEADMMRVRNLGRK 292 Query: 302 SLVEIKGVLGTMGLFL 317 SL E+K L +GL L Sbjct: 293 SLEEVKNKLTDLGLSL 308 >gi|58415734|emb|CAH57281.1| RNA polymerase alpha-subunit [Salinivibrio costicola subsp. costicola] Length = 308 Score = 266 bits (680), Expect = 4e-69, Method: Compositional matrix adjust. Identities = 136/290 (46%), Positives = 200/290 (68%), Gaps = 7/290 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +T+ K G G V AGDI +E+ NP+HVIC+L D +A + M + V + Sbjct: 82 AVKVEGKDEVILTLTKSGAGPVVAGDITHDGGVEIANPEHVICHLTDANAEISMRIKVER 141 Query: 152 GHGYVPAKHH-RTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA +E+D PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPASARIDSEDDERPIGRLLVDATFSPVDRIAYNVEAARVEQRTDLDKLVIDMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+VR Sbjct: 202 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 258 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GLFLG Sbjct: 259 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLFLG 308 >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 = 266 bits (680), Expect = 4e-69, Method: Compositional matrix adjust. Identities = 145/323 (44%), Positives = 211/323 (65%), Gaps = 4/323 (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 TVNDIEVLNPD-HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 ++VLNPD H+ D +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 GRKSLVEIKGVLGTMGLFLGMNL 321 GRKSL EIK VL +GL LGM+L Sbjct: 299 GRKSLEEIKKVLSELGLSLGMDL 321 >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 = 266 bits (679), Expect = 4e-69, Method: Compositional matrix adjust. Identities = 136/302 (45%), Positives = 214/302 (70%), Gaps = 5/302 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RGF HTLGNALRR+L+SSL GAA+ V+I+GV HE S+++G+ +D+ +++LN+ Sbjct: 26 VILEPLERGFGHTLGNALRRILLSSLPGAAVVEVEIEGVEHEYSTLEGLQQDIVELLLNL 85 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+++K+ + +T+ K+G G VTA D++ +++EV+NP+H+I L ++M L V Sbjct: 86 KGLSIKLFDQNEAYLTLEKQGAGDVTAADLRLPHNVEVVNPEHLIGTLSASGSLKMRLKV 145 Query: 150 SKGHGY--VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G GY ++ E P+G + +DA YSPIK+VSYTVE+AR Q D DKL + ++T Sbjct: 146 AQGRGYETSDSRFPEGETRPVGRLQLDASYSPIKRVSYTVENARVEQRTDLDKLIIDLET 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ ILQ Q+ +F++ ++ + V ++ + +P LL+ V++LEL+V Sbjct: 206 NGTVDPEEAIRKAATILQQQIAIFVDLQKDQAPVAQEPREE---VDPILLRPVDDLELTV 262 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 RS NCL+ ENI Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP Sbjct: 263 RSANCLKAENIYYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASKGLQLGMRLENWPPA 322 Query: 328 SI 329 S+ Sbjct: 323 SL 324 >gi|295315349|gb|ADF97760.1| RpoA [Vibrio sp. KTW-12] Length = 311 Score = 266 bits (679), Expect = 4e-69, Method: Compositional matrix adjust. Identities = 135/291 (46%), Positives = 199/291 (68%), Gaps = 7/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 23 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 82 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V + Sbjct: 83 AVKVEGKDEVILTLSKSGAGPVKAGDITHDGDVEIANPEHVICHLTDDNAEISMRIKVER 142 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 143 GRGYVPASARIHTDDDERPIGRLLVDATFSPVDRIAYAVEAARVEQRTDLDKLVIEMETN 202 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+VR Sbjct: 203 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 259 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 S NCL+ E I Y+GDL+QRT+ ++L+ N G+KSL EIK VL + GL LGM Sbjct: 260 SANCLKAEAIHYIGDLVQRTDVELLKTPNLGKKSLTEIKDVLASRGLSLGM 310 >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 = 266 bits (679), Expect = 4e-69, Method: Compositional matrix adjust. Identities = 143/317 (45%), Positives = 208/317 (65%), Gaps = 3/317 (0%) Query: 6 WQELIKPNNIEYIVLGQE-EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 W+ KP + V G+ E A+P RGF T+GN LRR L+SS+ GAA+TAV+ Sbjct: 3 WRGFQKPKRLA--VEGETLTEKYGKFSAQPFERGFGTTIGNGLRRTLLSSIEGAAVTAVR 60 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 ++GVLHE SI GV ED TDIILN+K I K++G+ K + + PGVVT+G I+ D Sbjct: 61 LEGVLHEFQSITGVVEDATDIILNLKQIPFKLNGEGPKALYLRVDQPGVVTSGMIEADGD 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +E+L+ D I + + ME+ + +G GYV A + + IG I +D+++SP++KV+ Sbjct: 121 VEILDKDVYIATVSEGGKMDMEMRLKRGRGYVSADKNFDPDLGIGFIPVDSVHSPVRKVN 180 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 YTV++AR GQ+ DYDKL++ I T+G++ D++ L++++L+D + +FINFEE + + Sbjct: 181 YTVDAARLGQITDYDKLTIEIWTNGTVLPADALGLSAKLLKDHMTIFINFEEEMEAGLDG 240 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + N L + VEELELSVRS NCL+ NI +G+LIQ+TEA+ML+ NFGRKSL Sbjct: 241 SHDGPAMRNDNLNRSVEELELSVRSYNCLKNANIATIGELIQKTEAEMLKTKNFGRKSLN 300 Query: 305 EIKGVLGTMGLFLGMNL 321 EIK +L MGL LGM + Sbjct: 301 EIKEILAQMGLSLGMKI 317 >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 = 266 bits (679), Expect = 4e-69, Method: Compositional matrix adjust. Identities = 135/288 (46%), Positives = 196/288 (68%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDGVLHE S+I+GV ED+T IILN+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDGVLHEFSTIEGVVEDVTAIILNV 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +G GVVTA DI +D+E+LNPD I L +RM +T Sbjct: 83 KKLALKIYSDEEKTLEIDVQGEGVVTAADITHDSDVEILNPDLHIATLAEGGRLRMRMTA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYVPA+ ++ E+ PIG+I ID++Y+P+ +VSY VE+ R GQV DYDKL++ + TDG Sbjct: 143 RRGRGYVPAEANKREDQPIGVIPIDSIYTPVSRVSYQVENTRVGQVTDYDKLTIDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI +++++L ++IL + L +F+ + + + + + L +EEL+LSVRS Sbjct: 203 SIGPKEAISLGAKILTEHLNIFVGLTDEAQNAEIMVEKEDDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L Q+TE DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVQELTQKTEEDMMKVRNLGRKSLEEVKAKLAELGLSL 310 >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 = 266 bits (679), Expect = 5e-69, Method: Compositional matrix adjust. Identities = 136/288 (47%), Positives = 195/288 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDGVLHE S+I GV ED+T IILNI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDGVLHEFSTIDGVVEDVTAIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +G GVVTA DI +D+E+LNPD I L +RM +T Sbjct: 83 KKLALKIYSDEEKTLEIDVQGEGVVTAADITHDSDVEILNPDLHIATLAEGGRLRMRMTA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYVPA+ ++ E+ PIG+I ID++Y+P+ +VSY VE+ R GQV DYDKL++ + TDG Sbjct: 143 KRGRGYVPAEANKREDQPIGVIPIDSIYTPVSRVSYQVENTRVGQVTDYDKLTIDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI +++++L ++IL + L +F+ + + + + + L +EEL+LSVRS Sbjct: 203 SIGPKEAISLGAKILTEHLNIFVGLTDEAQNAEIMVEKEDDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L Q+TE DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVQELTQKTEEDMMKVRNLGRKSLEEVKAKLAELGLSL 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 = 265 bits (678), Expect = 5e-69, Method: Compositional matrix adjust. Identities = 135/290 (46%), Positives = 198/290 (68%), Gaps = 7/290 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +T+ K G G V AGDI D+E+ NP+HVIC++ D +A + M + V + Sbjct: 82 AVKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIANPEHVICHITDDNAELSMRIKVER 141 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA YSP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPASARIHTEEDERPIGRLLVDATYSPVDRIAYAVEAARVEQRTDLDKLVIDMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+VR Sbjct: 202 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 258 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >gi|58415728|emb|CAH57278.1| RNA polymerase alpha-subunit [Photobacterium leiognathi subsp. leiognathi] Length = 292 Score = 265 bits (678), Expect = 6e-69, Method: Compositional matrix adjust. Identities = 135/290 (46%), Positives = 198/290 (68%), Gaps = 7/290 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 6 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 65 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +T+ K G G V AGDI D+E+ NP+HVIC++ D +A + M + V + Sbjct: 66 AVKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIANPEHVICHITDDNAELSMRIKVER 125 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA YSP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 126 GRGYVPASARIHTEEDERPIGRLLVDATYSPVDRIAYAVEAARVEQRTDLDKLVIDMETN 185 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+VR Sbjct: 186 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 242 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 243 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 292 >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 = 265 bits (677), Expect = 7e-69, Method: Compositional matrix adjust. Identities = 135/290 (46%), Positives = 198/290 (68%), Gaps = 7/290 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V + Sbjct: 82 AVKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNADISMRIKVER 141 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPASARIHTEEDERPIGRLLVDATFSPVDRIAYAVEAARVEQRTDLDKLVIDMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+VR Sbjct: 202 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 258 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >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 = 265 bits (677), Expect = 7e-69, Method: Compositional matrix adjust. Identities = 145/312 (46%), Positives = 204/312 (65%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I I E +N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EFEKPN-IHKI---DENDNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAK--HHRTENDPIGLITIDALYSPIKKVSY 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|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 = 265 bits (676), Expect = 9e-69, Method: Compositional matrix adjust. Identities = 135/290 (46%), Positives = 198/290 (68%), Gaps = 7/290 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V + Sbjct: 82 AVKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNAELSMRIKVER 141 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPASARIHTEEDERPIGRLLVDATFSPVDRIAYAVEAARVEQRTDLDKLVIDMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+VR Sbjct: 202 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 258 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >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 = 265 bits (676), Expect = 9e-69, Method: Compositional matrix adjust. Identities = 133/289 (46%), Positives = 195/289 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAA+ +++IDGVLHE S++ GV ED+T+IILNI Sbjct: 23 FIVEPLERGYGITLGNSLRRILLSSLPGAAVNSIKIDGVLHEFSTVPGVVEDVTEIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K ++L + G+ K + I G G +TAGDI T D+E+LNPD I L+ D ME+ + Sbjct: 83 KSLSLLIHGEGSKVIYIDANGEGPITAGDIITDQDVEILNPDLHIATLNGDHRFYMEMVI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 SKG GYV A ++ PIG++ +D++Y+P+KKV+YTVE+ R GQ+ DYDKL++ + TDG Sbjct: 143 SKGRGYVSADKNKQAGQPIGVVPVDSIYTPVKKVNYTVENTRVGQITDYDKLTLEVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI +++++L ++IL + L +F++ + K + + + L +EEL+LSVRS Sbjct: 203 SINPDEAISLGAKILSEHLNLFVDLSDQAKHTEIMVEKEETKKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 NCL+ I + DL RTE DM+++ N GRKSL E+ L +GLFL Sbjct: 263 YNCLKRAGINTVEDLTNRTEEDMMKVRNLGRKSLEEVLQKLQALGLFLA 311 >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 = 265 bits (676), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 135/290 (46%), Positives = 198/290 (68%), Gaps = 7/290 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +T+ K G G V AGDI D+E+ NP+HVIC++ D +A + M + V + Sbjct: 82 AVKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIANPEHVICHITDDNAELSMRIKVER 141 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA +SP+ ++SY VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPASARIHTEEDERPIGRLLVDATFSPVDRISYAVEAARVEQRTDLDKLVIDMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+VR Sbjct: 202 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 258 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >gi|58415864|emb|CAH57346.1| RNA polymerase alpha-subunit [Vibrio halioticoli] Length = 309 Score = 265 bits (676), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 138/291 (47%), Positives = 202/291 (69%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDDVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNADIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + V+E I K F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVR--VQEPIEEKP-EFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ + G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPSLGKKSLTEIKDVLASRGLSLG 309 >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 = 265 bits (676), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 135/290 (46%), Positives = 200/290 (68%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDGVLHE S++ GV ED+T+IILN+ Sbjct: 23 FVIEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDGVLHEFSTVPGVIEDVTEIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG++LK+ D K + I G G VTAGDI+ +D+E+LNPD I L A + M + Sbjct: 83 KGLSLKIHSDEEKVLEIDAEGEGNVTAGDIRADSDVEILNPDLHIATLASGARLHMRVFA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 ++G GYVPA ++ E+ PIG+I +D++Y+PI +V+Y+VE+ R GQV +YDKL++ + TDG Sbjct: 143 NRGRGYVPADRNKKEDQPIGVIPVDSIYTPITRVNYSVENTRVGQVTNYDKLTLEVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI E++V+L ++IL + L +F+ + K+ + + + L +EEL+LSVRS Sbjct: 203 SIRPEEAVSLGAKILTEHLDLFVGLTDEAKDAEIMVEKEEDKKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 NCL+ I + +LI +TE DM+++ N GRKSL E++ L +GL L M Sbjct: 263 YNCLKRAGINTVQELITKTEEDMMKVRNLGRKSLEEVQEKLEELGLGLRM 312 >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 = 265 bits (676), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 154/344 (44%), Positives = 217/344 (63%), Gaps = 22/344 (6%) Query: 6 WQELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 ++E P +E+ QE T ++ EPL RG+ TLGN+LRRVL+SSL G A+ A+ Sbjct: 4 YKEFQMPKKVEF---DQESLTDTYGKLVIEPLERGYGITLGNSLRRVLLSSLDGVAVYAI 60 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFK-RGPGVVTAGDIQT 121 +I+ LHE SSIKGV ED+ DIILN+K + K + DS K++ K +GP VTA IQT Sbjct: 61 RINDALHEFSSIKGVKEDILDIILNVKKLRFKYYAQDSDKKIATIKIKGPADVTAESIQT 120 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 EVLN IC+LD DA + M L + KG GYVP++ + + P+ IT+DA++SP+K Sbjct: 121 DGTYEVLNKSQYICSLDQDAQMEMVLYIRKGRGYVPSEAIKDDELPVDAITVDAIFSPVK 180 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK--- 238 KV++ VE R G++ DYD+L + I TDGSIT E +++ AS IL I F+E + Sbjct: 181 KVNFRVEKTRVGELTDYDRLILEIWTDGSITPERAISDASSILIKHFEYLIFFKEAELQN 240 Query: 239 KEV-------KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 KE+ +ED+N L N +LK +E+LELSVR+ NCL+ I + +L+QRTE + Sbjct: 241 KEIHETVPNPEEDLNFDLL--NENILKPIEDLELSVRAYNCLKSAGINTIAELVQRTEGE 298 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 +++ NFGR+SL EIK VL MGL LGM + PE +E+ +K Sbjct: 299 LMKTKNFGRRSLEEIKEVLTNMGLKLGMRI---NPELLEKFKEK 339 >gi|58415736|emb|CAH57282.1| RNA polymerase alpha-subunit [Vibrio aerogenes] Length = 293 Score = 265 bits (676), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 135/291 (46%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 6 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 65 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D +A + M + V Sbjct: 66 AVRVAEGKDEVFITLHKSGSGPVVAGDITHDGDVEIVNPEHVICHLTDDNAEIAMRIKVE 125 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 126 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 185 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G+I E+++ A+ +L +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 186 NGTIEPEEAIRRAATVLAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 242 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 243 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 293 >gi|179184358|gb|ACB78144.1| RNA polymerase alpha subunit [Vibrio gallaecicus] Length = 315 Score = 264 bits (675), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 141/321 (43%), Positives = 210/321 (65%), Gaps = 11/321 (3%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 QGSVTEFLKPRLVDIEQINTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVTE 57 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI Sbjct: 58 VEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLG 318 G+KSL EIK VL + GL LG Sbjct: 295 LGKKSLTEIKDVLASRGLSLG 315 >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 = 264 bits (675), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 133/289 (46%), Positives = 195/289 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL G+A+ +++IDGVLHE S++ GV ED+T+IILNI Sbjct: 23 FIVEPLERGYGITLGNSLRRILLSSLPGSAVNSIKIDGVLHEFSTVPGVVEDVTEIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K ++L + G+ K + I G G +TAGDI T D+E+LNPD I L+ D ME+ + Sbjct: 83 KSLSLLVHGEGSKVIYIDANGEGPITAGDIITDQDVEILNPDLHIATLNGDHRFYMEMVI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 SKG GYV A ++ PIG+I +D++Y+P+KKV+YTVE+ R GQ+ DYDKL++ + TDG Sbjct: 143 SKGRGYVSADKNKQAGQPIGVIPVDSIYTPVKKVNYTVENTRVGQITDYDKLTLEVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI +++++L ++IL + L +F++ + K + + + L +EEL+LSVRS Sbjct: 203 SINPDEAISLGAKILSEHLNLFVDLSDQAKHTEIMVEKEETKKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 NCL+ I + DL RTE DM+++ N GRKSL E+ L +GLFL Sbjct: 263 YNCLKRAGINTVEDLTNRTEEDMMKVRNLGRKSLEEVLQKLQALGLFLA 311 >gi|179184639|gb|ACB78155.1| RNA polymerase alpha subunit [Vibrio comitans] Length = 304 Score = 264 bits (675), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 136/291 (46%), Positives = 200/291 (68%), Gaps = 9/291 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 18 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 77 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 78 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNADIAMRIKVE 137 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 138 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMET 197 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + KE + F+P LL+ V++LEL+V Sbjct: 198 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEKE----REPRFDPILLRPVDDLELTV 253 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + G LG Sbjct: 254 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGWSLG 304 >gi|58416032|emb|CAH57430.1| RNA polymerase alpha-subunit [Vibrio sp. R-21419] Length = 308 Score = 264 bits (675), Expect = 1e-68, Method: Compositional matrix adjust. Identities = 135/290 (46%), Positives = 197/290 (67%), Gaps = 7/290 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDVLEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V + Sbjct: 82 AVKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNADISMRIKVER 141 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA +SP+ +++Y VE+AR Q D DKL + + T+ Sbjct: 142 GRGYVPASARIHTEEDERPIGRLLVDATFSPVDRIAYAVEAARVEQRTDLDKLVIDMQTN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+VR Sbjct: 202 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 258 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >gi|58415758|emb|CAH57293.1| RNA polymerase alpha-subunit [Vibrio campbellii] Length = 309 Score = 263 bits (673), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 135/291 (46%), Positives = 201/291 (69%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 +++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 SVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H+ + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHNEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >gi|164608448|gb|ABY62527.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae] Length = 309 Score = 263 bits (673), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 134/291 (46%), Positives = 201/291 (69%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL +F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDVFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >gi|58415996|emb|CAH57412.1| RNA polymerase alpha-subunit [Vibrio penaeicida] Length = 309 Score = 263 bits (673), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 136/291 (46%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 +K++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVKVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++YTVE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDKIAYTVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ ++ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLDPEEAIRRSATILAEQLDAFVDLRDIRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >gi|179184696|gb|ACB78157.1| RNA polymerase alpha subunit [Vibrio inusitatus] Length = 294 Score = 263 bits (673), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 137/290 (47%), Positives = 201/290 (69%), Gaps = 8/290 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 8 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 67 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 68 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDGNADIAMRIKVE 127 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 128 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMET 187 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + V+E I K F+P LL+ V++LEL+V Sbjct: 188 NGTLEPEEAIRRAATILAEQLDAFVDLRDVR--VQEPIEEKP-EFDPILLRPVDDLELTV 244 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + G L Sbjct: 245 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGXSL 294 >gi|179184326|gb|ACB78143.1| RNA polymerase alpha subunit [Vibrio breoganii] Length = 311 Score = 263 bits (672), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 141/316 (44%), Positives = 209/316 (66%), Gaps = 11/316 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T V+I+G Sbjct: 2 EFLKPRLVDIEQINTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 VLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI D+E Sbjct: 59 VLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVE 118 Query: 127 VLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKK 182 + NP+HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+ K Sbjct: 119 IANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDK 178 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 ++Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + K Sbjct: 179 IAYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEK 238 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KS Sbjct: 239 ---EEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKS 295 Query: 303 LVEIKGVLGTMGLFLG 318 L EIK VL + GL LG Sbjct: 296 LTEIKDVLASRGLSLG 311 >gi|58415964|emb|CAH57396.1| RNA polymerase alpha-subunit [Vibrio nigripulchritudo] Length = 309 Score = 263 bits (672), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 136/291 (46%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 +K++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVKVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++YTVE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDKIAYTVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ ++ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLDPEEAIRRSATILAEQLDAFVDLRDIRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >gi|179184592|gb|ACB78153.1| RNA polymerase alpha subunit [Vibrio breoganii] Length = 314 Score = 263 bits (672), Expect = 3e-68, Method: Compositional matrix adjust. Identities = 141/316 (44%), Positives = 209/316 (66%), Gaps = 11/316 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T V+I+G Sbjct: 5 EFLKPRLVDIEQINTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 VLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI D+E Sbjct: 62 VLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVE 121 Query: 127 VLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKK 182 + NP+HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+ K Sbjct: 122 IANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDK 181 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 ++Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + K Sbjct: 182 IAYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEK 241 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KS Sbjct: 242 ---EEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKS 298 Query: 303 LVEIKGVLGTMGLFLG 318 L EIK VL + GL LG Sbjct: 299 LTEIKDVLASRGLSLG 314 >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 = 263 bits (672), Expect = 3e-68, Method: Compositional matrix adjust. Identities = 135/291 (46%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H+ + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHNEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >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 = 263 bits (672), Expect = 3e-68, Method: Compositional matrix adjust. Identities = 134/291 (46%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >gi|58415744|emb|CAH57286.1| RNA polymerase alpha-subunit [Vibrio alginolyticus] Length = 309 Score = 263 bits (672), Expect = 3e-68, Method: Compositional matrix adjust. Identities = 134/291 (46%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +++LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEVLLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H+ + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHNEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASCGLSLG 309 >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 = 263 bits (671), Expect = 4e-68, Method: Compositional matrix adjust. Identities = 134/290 (46%), Positives = 197/290 (67%), Gaps = 7/290 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +T+ K G G V AGDI +E+ NP+HVIC+L D +A + M + V + Sbjct: 82 AVKVEGKDEVILTLNKSGAGPVVAGDITHDGGVEIANPEHVICHLTDSNAEISMRIKVER 141 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA +SP+ +++Y VE+AR Q D DKL + ++T+ Sbjct: 142 GRGYVPASARIHTEEDERPIGRLLVDATFSPVDRIAYNVEAARVEQRTDLDKLVIDMETN 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+VR Sbjct: 202 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 258 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 308 >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 = 263 bits (671), Expect = 4e-68, Method: Compositional matrix adjust. Identities = 136/291 (46%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + K + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEK---EEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >gi|179184612|gb|ACB78154.1| RNA polymerase alpha subunit [Vibrio breoganii] Length = 314 Score = 263 bits (671), Expect = 4e-68, Method: Compositional matrix adjust. Identities = 141/320 (44%), Positives = 210/320 (65%), Gaps = 11/320 (3%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 QGSVTEFLKPRLVDIEQINTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVTE 57 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI Sbjct: 58 VEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 + K + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEK---EEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFL 317 G+KSL EIK VL + GL L Sbjct: 295 LGKKSLTEIKDVLASRGLSL 314 >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 = 263 bits (671), Expect = 4e-68, Method: Compositional matrix adjust. Identities = 135/291 (46%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >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 = 263 bits (671), Expect = 4e-68, Method: Compositional matrix adjust. Identities = 135/291 (46%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >gi|189308771|gb|ACD87087.1| RpoA [Vibrio sp. PP-200] Length = 302 Score = 263 bits (671), Expect = 4e-68, Method: Compositional matrix adjust. Identities = 135/291 (46%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 15 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 74 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 75 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEITNPEHVICHLTDGNAEIAMRIKVE 134 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 135 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMET 194 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 195 NGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 251 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 252 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 302 >gi|58416062|emb|CAH57445.1| RNA polymerase alpha-subunit [Vibrio sp. R-23692] Length = 309 Score = 262 bits (670), Expect = 4e-68, Method: Compositional matrix adjust. Identities = 134/291 (46%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +++LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEVLLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H+ + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHNEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >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 = 262 bits (670), Expect = 4e-68, Method: Compositional matrix adjust. Identities = 135/291 (46%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEITNPEHVICHLTDGNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >gi|300244653|gb|ADJ93835.1| RNA polymerase alpha subunit [Vibrio sp. G21] Length = 309 Score = 262 bits (670), Expect = 4e-68, Method: Compositional matrix adjust. Identities = 134/291 (46%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVYITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ +L +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATVLAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >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 = 262 bits (670), Expect = 5e-68, Method: Compositional matrix adjust. Identities = 135/291 (46%), Positives = 199/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEISMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 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 = 262 bits (670), Expect = 5e-68, Method: Compositional matrix adjust. Identities = 135/291 (46%), Positives = 199/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >gi|179184509|gb|ACB78150.1| RNA polymerase alpha subunit [Vibrio sp. RD 9.17] Length = 303 Score = 262 bits (670), Expect = 5e-68, Method: Compositional matrix adjust. Identities = 135/291 (46%), Positives = 199/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 16 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 75 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 76 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 135 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 136 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 195 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 196 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 253 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 303 >gi|58416028|emb|CAH57428.1| RNA polymerase alpha-subunit [Vibrio sp. R-21415] Length = 309 Score = 262 bits (670), Expect = 5e-68, Method: Compositional matrix adjust. Identities = 135/291 (46%), Positives = 199/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEISMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >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 = 262 bits (670), Expect = 5e-68, Method: Compositional matrix adjust. Identities = 134/288 (46%), Positives = 198/288 (68%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDGVLHE S+I GV ED+T+IILN+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDGVLHEFSTIPGVIEDVTEIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG++LK+ D K + I G G V AGDI+ +D+E+LNPD I L DA + M + Sbjct: 83 KGLSLKIHSDEEKILEIDVEGEGRVVAGDIRADSDVEILNPDLHIATLSSDARLHMRIHA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYV A +++E+ PIG+I +D++Y+PI +V+Y+VE+ R GQV +YDKL++ + TDG Sbjct: 143 GRGRGYVQADKNKSEDQPIGVIPVDSIYTPITRVNYSVENTRVGQVTNYDKLTLEVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI E++V+L ++IL + L +F+ + K+ + + + L +EEL+LSVRS Sbjct: 203 SIRPEEAVSLGAKILTEHLMLFVGLTDEAKDAEIMVEKEEDKKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +LI +TE DM+++ N GRKSL E++ L +GL L Sbjct: 263 YNCLKRAGINTVQELITKTEEDMMKVRNLGRKSLEEVQEKLEELGLGL 310 >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 = 262 bits (670), Expect = 5e-68, Method: Compositional matrix adjust. Identities = 135/291 (46%), Positives = 199/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >gi|179184786|gb|ACB78160.1| RNA polymerase alpha subunit [Vibrio gallaecicus] Length = 306 Score = 262 bits (670), Expect = 5e-68, Method: Compositional matrix adjust. Identities = 135/291 (46%), Positives = 199/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 19 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 78 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 79 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 138 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 139 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 198 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 199 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 255 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 256 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 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 = 262 bits (670), Expect = 5e-68, Method: Compositional matrix adjust. Identities = 134/291 (46%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +G+ ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGIQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEITNPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >gi|179184539|gb|ACB78151.1| RNA polymerase alpha subunit [Vibrio gigantis] Length = 314 Score = 262 bits (669), Expect = 6e-68, Method: Compositional matrix adjust. Identities = 140/320 (43%), Positives = 209/320 (65%), Gaps = 11/320 (3%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 QGSVTEFLKPRLVDIEQINTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVTE 57 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI Sbjct: 58 VEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFL 317 G+KSL EIK VL + GL L Sbjct: 295 LGKKSLTEIKDVLASRGLSL 314 >gi|58415962|emb|CAH57395.1| RNA polymerase alpha-subunit [Vibrio nereis] Length = 309 Score = 262 bits (669), Expect = 6e-68, Method: Compositional matrix adjust. Identities = 134/291 (46%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +++LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEVLLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >gi|179184569|gb|ACB78152.1| RNA polymerase alpha subunit [Vibrio crassostreae] Length = 315 Score = 262 bits (669), Expect = 6e-68, Method: Compositional matrix adjust. Identities = 140/321 (43%), Positives = 209/321 (65%), Gaps = 11/321 (3%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 QGSVTEFLKPRLVDXEQINTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVTE 57 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI Sbjct: 58 VEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLG 318 G+KSL EIK VL + GL LG Sbjct: 295 LGKKSLTEIKDVLASRGLSLG 315 >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 = 262 bits (669), Expect = 7e-68, Method: Compositional matrix adjust. Identities = 134/300 (44%), Positives = 198/300 (66%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 V+ E+ + EPL RG+ TLGN+LRR+L+SSL G A+T+++IDGVLHE S++ GV Sbjct: 12 VISSEDNTYGKFVVEPLERGYGITLGNSLRRILLSSLPGIAVTSIKIDGVLHEFSTVPGV 71 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+IILN+KG+ L + GD K V I G G VTA DI+ D+E+LNP+H I L Sbjct: 72 VEDVTEIILNVKGLALNLHGDGPKVVYIDADGEGEVTAADIKADADVEILNPEHKIATLS 131 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + MEL++ KG GYV A+ ++ PIG+I +D++Y+P+ KV+YTVE+ R GQV DY Sbjct: 132 GDHKLYMELSLDKGRGYVSAEKNKHPGQPIGVIPVDSIYTPVSKVNYTVENTRVGQVTDY 191 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL++ + T+GSI +++++L ++I+ + L +FI+ + K + + + L Sbjct: 192 DKLTLEVWTNGSIKPDEAISLGAKIMSEHLNLFIDLSDNAKNAEIMVEKEETKKEKVLEM 251 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +EEL+LSVRS NCL+ I + DL RTE DM+++ N GRKSL E+ L +GL L Sbjct: 252 TIEELDLSVRSYNCLKRAGINTVEDLTNRTEEDMMKVRNLGRKSLEEVFNKLKALGLALA 311 >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 = 261 bits (668), Expect = 7e-68, Method: Compositional matrix adjust. Identities = 139/281 (49%), Positives = 190/281 (67%), Gaps = 8/281 (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 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLI 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 INFE-EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 + + P +EV+E K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE Sbjct: 181 ADLQGTPVEEVEE----KAPPIDPVLLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTET 236 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 ++L+ N GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 237 ELLKTPNLGRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 277 >gi|58415946|emb|CAH57387.1| RNA polymerase alpha-subunit [Vibrio natriegens] Length = 309 Score = 261 bits (668), Expect = 8e-68, Method: Compositional matrix adjust. Identities = 134/291 (46%), Positives = 199/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GY+PA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 142 RGRGYIPASARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >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 = 261 bits (668), Expect = 8e-68, Method: Compositional matrix adjust. Identities = 135/291 (46%), Positives = 199/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 +K++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVKVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ ++ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLDPEEAIRRSATILAEQLDAFVDLRDIRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >gi|58415738|emb|CAH57283.1| RNA polymerase alpha-subunit [Vibrio aestuarianus] Length = 309 Score = 261 bits (667), Expect = 1e-67, Method: Compositional matrix adjust. Identities = 134/291 (46%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEITNPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+V++AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVDAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >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 = 261 bits (667), Expect = 1e-67, Method: Compositional matrix adjust. Identities = 134/291 (46%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEITNPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+V++AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVDAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >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 = 261 bits (667), Expect = 1e-67, Method: Compositional matrix adjust. Identities = 133/288 (46%), Positives = 198/288 (68%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDGVLHE S+I+GV ED+T I+LN+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDGVLHEFSTIEGVVEDVTTIVLNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +G GVVTAGD+ +D++VLNPD I L A +RM +T Sbjct: 83 KQLALKIYSDEDKTLEIDTQGEGVVTAGDLTHDSDVDVLNPDLHIATLTTGAHLRMRITA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYVPA+ ++++ IG+I ID++Y+P+ +V+Y VE+ R GQV +YDKL++ + TDG Sbjct: 143 KRGRGYVPAEGNKSDELAIGVIPIDSIYTPVSRVNYQVENTRVGQVTNYDKLTLDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI E++V+L ++IL + L +F+ + + + + + L +EEL+LSVRS Sbjct: 203 SIRPEEAVSLGAKILTEHLNIFVGLTDQAQNAEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L Q+TE DM+++ N GRKSL E++ LG +GL L Sbjct: 263 YNCLKRAGINTVQELTQKTEEDMMKVRNLGRKSLEEVQEKLGELGLGL 310 >gi|58415896|emb|CAH57362.1| RNA polymerase alpha-subunit [Vibrio ichthyoenteri ATCC 700023] Length = 297 Score = 261 bits (667), Expect = 1e-67, Method: Compositional matrix adjust. Identities = 134/291 (46%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 10 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 69 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 70 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEITNPEHVICHLTDDNAEIAMRIKVE 129 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+V++AR Q D DKL + ++T Sbjct: 130 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVDAARVEQRTDLDKLVIDMET 189 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 190 NGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 246 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 247 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 297 >gi|125743179|gb|ABN54790.1| RpoA [Vibrio sp. RLUH-CZ] Length = 307 Score = 261 bits (667), Expect = 1e-67, Method: Compositional matrix adjust. Identities = 134/291 (46%), Positives = 199/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T +I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 20 EPLERGFGHTLGNALRRILLSSMPGCAVTEXEIEGVLHEYSTKEGVQEDILEILLNLKGL 79 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 80 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 139 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 140 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMET 199 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 200 NGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 256 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 257 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 307 >gi|58415948|emb|CAH57388.1| RNA polymerase alpha-subunit [Vibrio navarrensis] Length = 309 Score = 261 bits (666), Expect = 1e-67, Method: Compositional matrix adjust. Identities = 134/291 (46%), Positives = 199/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYAVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >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 = 261 bits (666), Expect = 1e-67, Method: Compositional matrix adjust. Identities = 140/281 (49%), Positives = 188/281 (66%), Gaps = 8/281 (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 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLI 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 INFE-EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 N + P +EV+E K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE Sbjct: 181 ANLQGTPVEEVEE----KAPPIDPVLLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTET 236 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 ++L+ N GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 237 ELLKTPNLGRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 277 >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 = 261 bits (666), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 135/291 (46%), Positives = 198/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 + ++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + V Sbjct: 82 AVHVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTNDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >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 = 260 bits (665), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 133/288 (46%), Positives = 199/288 (69%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T+V+IDGVLHE S++ GV+ED+TDIILN+ Sbjct: 23 FVVEPLERGYGITLGNSLRRILLSSLPGAAVTSVKIDGVLHEFSTVPGVYEDVTDIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LKM D K + I GPG V AG+I T D+E+LNP+ I L DA + ME+ V Sbjct: 83 KELCLKMYTDEEKVLRIESEGPGEVKAGNIITDADVEILNPELHIATLSDDARLVMEINV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GYVPA+ ++ ++ IG+I +D+ +SP+++V+Y +E R GQ+ DYDKL++ + T+G Sbjct: 143 AKGRGYVPAERNKKDDHVIGIIPVDSAFSPVRRVNYYIEDTRVGQITDYDKLTLEVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI +++ +L+++IL + L +FI E K+V+ + + + L +EEL+LSVRS Sbjct: 203 SIRPDEATSLSAKILSEHLRLFIGLTENIKDVEIMVEKEEEEKDKILEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L QRTE DM+++ N G+KSL E+ L +GL L Sbjct: 263 YNCLKRAGINTVEELTQRTEEDMIKVRNLGKKSLEEVINKLAELGLSL 310 >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 = 260 bits (665), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 133/291 (45%), Positives = 201/291 (69%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+V++AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVDAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >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 = 260 bits (665), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 142/314 (45%), Positives = 204/314 (64%), Gaps = 8/314 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I I E N I EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EFEKPN-IHKI---DESNNYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 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 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKV 183 ++LNPD I + A M +T KG GYV A ++T N 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|58415796|emb|CAH57312.1| RNA polymerase alpha-subunit [Vibrio coralliilyticus] Length = 287 Score = 260 bits (665), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 134/290 (46%), Positives = 199/290 (68%), 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 LKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 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++ + + + + F+P LL+ V++LEL+VR Sbjct: 181 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 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|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 = 260 bits (665), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 138/310 (44%), Positives = 206/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L ++ + +I EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKPK-IETVELNEDAKYGKFVI-EPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 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|58415820|emb|CAH57324.1| RNA polymerase alpha-subunit [Vibrio diazotrophicus] gi|58415824|emb|CAH57326.1| RNA polymerase alpha-subunit [Vibrio diazotrophicus] Length = 309 Score = 260 bits (665), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 133/291 (45%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDSNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+V++AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVDAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >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 = 260 bits (665), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 133/292 (45%), Positives = 200/292 (68%), Gaps = 8/292 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T +I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 19 EPLERGFGHTLGNALRRILLSSMPGCAVTEAEIEGVLHEYSTKEGVQEDILEILLNLKGL 78 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D +A + M + V Sbjct: 79 AVRVADGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTDDNAEIAMRIKVQ 138 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+V +AR Q D DKL + ++T Sbjct: 139 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVAAARVEQRTDLDKLVIDMET 198 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 199 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 255 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM Sbjct: 256 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGM 307 >gi|124514416|gb|EAY55929.1| DNA-directed RNA polymerase, alpha subunit [Leptospirillum rubarum] Length = 324 Score = 260 bits (664), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 145/304 (47%), Positives = 203/304 (66%), Gaps = 22/304 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +IAEP RG+ TLGN+LRR+L+SS++GAAITAV+ GV HE S+I GV ED++DIILN+ Sbjct: 27 VIAEPFERGYGTTLGNSLRRILLSSIKGAAITAVRFRGVFHEFSNIPGVLEDVSDIILNL 86 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + +K V + G VTAGDI T I++L+P H I LD A + M+L + Sbjct: 87 KEVRVKSHEPEPHWVHLKVSGQKYVTAGDISTGGVIDILDPGHHIATLDKGASLEMDLRI 146 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A+ ++TE+ +G+I IDA+++P+KKV++TV+S R G++ DYDKL++ I+TDG Sbjct: 147 ETGRGYVSAERNKTESLEVGVIPIDAVFTPLKKVNFTVDSTRVGRMTDYDKLTLDIETDG 206 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE------- 262 S+T E++++ A++IL+D L MF V ED + +P +P KVEE Sbjct: 207 SLTPEEALSQAAQILKDHLDMF---------VIEDTD-HLIPDSPKPTMKVEEIGDDLLT 256 Query: 263 -----LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LELSVR++NCL+ I +GDLIQ+TE ++L+ NFGRKSL EIK VL MGL L Sbjct: 257 RNVLDLELSVRASNCLKNAEIKTVGDLIQKTENELLKTKNFGRKSLNEIKTVLSNMGLTL 316 Query: 318 GMNL 321 GM L Sbjct: 317 GMEL 320 >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 = 260 bits (664), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 136/295 (46%), Positives = 196/295 (66%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ Sbjct: 14 EEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDV 73 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILNIKG+ LKM GD K + I GP VTAGDI +D+E+LN D ICN+ A Sbjct: 74 AQIILNIKGLALKMYGDEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICNVSEGAS 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+ Sbjct: 134 FHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLT 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 M I TDGSI ++++LA++I+ + L +F+N + K + + + L +EE Sbjct: 194 MEIWTDGSIEPLEAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 253 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E+K L +GL L Sbjct: 254 LDLSVRSYNCLKRAGINTVQELTNKSEPEMIKVRNLGRKSLEEVKVKLHDLGLGL 308 >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 = 260 bits (664), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 131/290 (45%), Positives = 200/290 (68%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDGVLHE S++ GV ED+T+IILN+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDGVLHEFSTVPGVIEDVTEIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG++LK+ D K + I G G+VTAGDI+ +D+E+LNPD I L A + + + Sbjct: 83 KGLSLKIHSDEEKVLEIDAEGEGIVTAGDIRADSDVEILNPDLHIATLASGARLHLRIFA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 ++G GYV A ++ ++ PIG+I +D++Y+PI +V+Y+VE+ R GQV +YDKL++ + TDG Sbjct: 143 NRGRGYVQADRNKRDDQPIGVIPVDSIYTPITRVNYSVENTRVGQVTNYDKLTLEVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI E++V+L ++IL + L +F+ + K+ + + + L +EEL+LSVRS Sbjct: 203 SIRPEEAVSLGAKILTEHLDLFVGLTDEAKDAEIMVEKEEDKKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 NCL+ I + +LI ++E DM+++ N GRKSL E++ L +GL L M Sbjct: 263 YNCLKRAGINTVQELITKSEEDMMKVRNLGRKSLEEVQEKLEELGLGLRM 312 >gi|179184433|gb|ACB78147.1| RNA polymerase alpha subunit [Vibrio sp. CECT 7223] Length = 308 Score = 260 bits (664), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 134/290 (46%), Positives = 198/290 (68%), Gaps = 8/290 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 308 >gi|58415844|emb|CAH57336.1| RNA polymerase alpha-subunit [Vibrio fluvialis] Length = 309 Score = 259 bits (663), Expect = 3e-67, Method: Compositional matrix adjust. Identities = 133/291 (45%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+V++AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVDAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFGPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >gi|45644721|gb|AAS73109.1| predicted DNA-directed RNA polymerase alpha subunit [uncultured marine gamma proteobacterium EBAC20E09] Length = 321 Score = 259 bits (663), Expect = 3e-67, Method: Compositional matrix adjust. Identities = 136/296 (45%), Positives = 199/296 (67%), Gaps = 7/296 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ GAA+T V I+G+ HE S+I+GV ED+ DI+LNIK + Sbjct: 29 EPLERGFGHTLGNALRRILLSSMPGAAVTDVAIEGISHEYSTIEGVREDVIDILLNIKDM 88 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV-VRMELTVSK 151 +K+ + + GP V A ++E+++ D I + VD V ++M LTV Sbjct: 89 PIKLIEGDAAEIILDVTGPCDVLASSFAAPGNLELVDQDFHIATI-VDKVNLKMTLTVKT 147 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GY PA E+ +G + +DA YSP+++VSYTV++AR G+ D DKL + ++TDG++ Sbjct: 148 GRGYEPADLREDEDRAVGALKVDASYSPVRRVSYTVDNARSGKRTDLDKLVIELETDGTL 207 Query: 212 TGEDSVALASRILQDQLGMFINFEE-PKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 + ++ ++ ILQ QLG F++ + ++E K+D N F+P LL+ +EELEL+VRST Sbjct: 208 DPKMAIEHSATILQQQLGAFVDLDAIAEQEAKKDQN----DFDPILLRSIEELELTVRST 263 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 NCL+ E+I +GDLI R+E D+L+ N G+KSL EIK VL + L LGMN+ +WPP Sbjct: 264 NCLKAESIFLIGDLIHRSEFDLLKTPNLGKKSLNEIKDVLASKNLSLGMNVENWPP 319 >gi|206602703|gb|EDZ39184.1| DNA-directed RNA polymerase, alpha subunit [Leptospirillum sp. Group II '5-way CG'] Length = 324 Score = 259 bits (663), Expect = 3e-67, Method: Compositional matrix adjust. Identities = 142/300 (47%), Positives = 205/300 (68%), Gaps = 14/300 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +IAEP RG+ TLGN+LRR+L+SS++GAAITAV+ GV HE S+I GV ED++DIILN+ Sbjct: 27 VIAEPFERGYGTTLGNSLRRILLSSIKGAAITAVRFRGVFHEFSNIPGVLEDVSDIILNL 86 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + +K V + G VTAGDI T I++L+P H I LD A + M+L + Sbjct: 87 KEVRVKSHESEPHWVHLKVSGQKYVTAGDISTGGVIDILDPGHHIATLDKGASLEMDLRI 146 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A+ +++E+ +G+I IDA+++P+KKV++TV+S R G++ DYDKL++ I+TDG Sbjct: 147 ETGRGYVSAERNKSESLEVGVIPIDAVFTPLKKVNFTVDSTRVGRMTDYDKLTLDIETDG 206 Query: 210 SITGEDSVALASRILQDQLGMFINF-------EEPKKEVK-EDINVKSLPFNPALLKKVE 261 S+T E++++ A++IL+D L MF+ + PK +K E+I + L + V Sbjct: 207 SLTPEEALSQAAQILKDHLDMFVIEDTDHLIPDSPKPTMKVEEIG------DDLLTRNVL 260 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +LELSVR++NCL+ I +GDLIQ+TE ++L+ NFGRKSL EIK VL MGL LGM L Sbjct: 261 DLELSVRASNCLKNAEIKTVGDLIQKTENELLKTKNFGRKSLNEIKTVLSNMGLTLGMEL 320 >gi|58415822|emb|CAH57325.1| RNA polymerase alpha-subunit [Vibrio diazotrophicus] Length = 309 Score = 259 bits (662), Expect = 4e-67, Method: Compositional matrix adjust. Identities = 133/291 (45%), Positives = 199/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDSNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+V+ AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVDPARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >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 = 259 bits (662), Expect = 4e-67, Method: Compositional matrix adjust. Identities = 137/281 (48%), Positives = 188/281 (66%), Gaps = 8/281 (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 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLI 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 INFE-EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 + + P +EV+E K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE Sbjct: 181 ADLQGTPVEEVEE----KAPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTET 236 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 ++L+ N GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 237 ELLKTPNLGRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 277 >gi|58415894|emb|CAH57361.1| RNA polymerase alpha-subunit [Vibrio hispanicus] Length = 309 Score = 259 bits (662), Expect = 5e-67, Method: Compositional matrix adjust. Identities = 132/291 (45%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D ++ + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDSNSEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+V++AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVDAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >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 = 259 bits (661), Expect = 5e-67, Method: Compositional matrix adjust. Identities = 136/291 (46%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 + ++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + V Sbjct: 82 AVSVAEGKDEVFITLKKSGSGPVVAGDIIHDGDVEIANPEHVICHLTDDKAEIAMRIKVQ 141 Query: 151 KGHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVP A+ H E++ PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPSSARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >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 = 259 bits (661), Expect = 5e-67, Method: Compositional matrix adjust. Identities = 135/295 (45%), Positives = 195/295 (66%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ Sbjct: 14 EEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDV 73 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILNIKG+ LKM G K + I GP VTAGDI +D+E+LN D IC++ A Sbjct: 74 TQIILNIKGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGAT 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+ Sbjct: 134 FHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLT 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 M I TDGSI ++++L+++I+ + L +F+N + K + + + L +EE Sbjct: 194 MEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 253 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E+K L +GL L Sbjct: 254 LDLSVRSYNCLKRAGINTVQELTNKSEPEMIKVRNLGRKSLEEVKAKLHDLGLGL 308 >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 = 259 bits (661), Expect = 5e-67, Method: Compositional matrix adjust. Identities = 138/301 (45%), Positives = 202/301 (67%), Gaps = 2/301 (0%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ T+GNALRR L+SSL GAA+TAV+IDGVLHE S+I GV ED+ +IILN+K Sbjct: 24 VIEPLERGYGITVGNALRRTLLSSLPGAAVTAVKIDGVLHEFSTIPGVLEDVPEIILNLK 83 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 G+ +KMS K + I +G V A DI+ DIE+ NPDH I L+ DA + ME+TVS Sbjct: 84 GLAIKMSSPGPKVMYIEAQGECEVKAKDIKADADIEICNPDHHIATLNSDARLFMEITVS 143 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 +G GYVPA+ ++ N PIG+I +D++Y+P+ KV+Y VE+ R GQV DYDKL+M I T+G+ Sbjct: 144 QGKGYVPAERNKQPNQPIGVIPVDSIYTPVVKVNYKVENTRVGQVTDYDKLTMEIWTNGT 203 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 I ++++ +A++IL + +F + +++ + + N L +EELELSVRS Sbjct: 204 IRPDEALTVAAKILIEHFNLFTDLSNIPTKIETVVKQEPPKRNKLLDMTIEELELSVRSY 263 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 NCL+ I + DL+ +TE +M+++ N G+KSL E+ L ++GL L + D P+ E Sbjct: 264 NCLKRAGINTVEDLVNKTEEEMMKVRNLGKKSLEEVIQKLHSLGLSLKKS--DSTPKEEE 321 Query: 331 E 331 E Sbjct: 322 E 322 >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 = 259 bits (661), Expect = 5e-67, Method: Compositional matrix adjust. Identities = 137/307 (44%), Positives = 207/307 (67%), Gaps = 2/307 (0%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KP IE +VL E+ + + EPL RG+ TLGN+LRR+L+SSL GAA+T+V+IDGVLH Sbjct: 6 KPK-IETVVLA-EDNSYGKFVVEPLERGYGITLGNSLRRILLSSLPGAAVTSVKIDGVLH 63 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+TDIILN+K ++L+M D K + + G G VTAGDI T D+E+LNP Sbjct: 64 EFSTLPGVVEDVTDIILNLKQLSLRMHSDEPKVLRLHAEGEGEVTAGDIHTDADVEILNP 123 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I LD + E+TVSKG GYVPA ++T + PIG+I +D+++SPI++V+YT+E Sbjct: 124 DLHIATLDKGGRLIAEITVSKGRGYVPADQNKTPDMPIGVIPVDSIFSPIRRVNYTIEHT 183 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R G +YDKL++ + T+G+I +++ + A++IL++ L +FI+ E E++ + Sbjct: 184 RVGNKTNYDKLTLEVWTNGAIRPDEACSWAAKILKEHLELFISLTEDADEIEVMQEKEDD 243 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 N + +EEL+LSVRS NCL+ I + +L+ +T+ +M+++ N G+KSL E+K L Sbjct: 244 ERNKLMEMTIEELDLSVRSYNCLKRAGINTIAELVSKTDEEMMKVRNLGKKSLEEVKTKL 303 Query: 311 GTMGLFL 317 GL L Sbjct: 304 AAFGLSL 310 >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 = 259 bits (661), Expect = 6e-67, Method: Compositional matrix adjust. Identities = 132/288 (45%), Positives = 192/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILNI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTSIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +G GVV A D+ +D+E+LNPD I L +A +RM LT Sbjct: 83 KKLALKIYSDEEKTLEIDVQGEGVVKAADVTHDSDVEILNPDLHIATLGSNAHLRMRLTA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY PA ++ E+ PIG+I ID++Y+P+ ++SY VE+ R GQ+ +YDKL+ + TDG Sbjct: 143 RRGRGYTPADQNKREDQPIGVIPIDSIYTPVSRISYQVENTRVGQMTNYDKLTFDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 S +D+VAL ++IL + L +F+ + + + + + L +EEL+LSVRS Sbjct: 203 STGPQDAVALGAKILTEHLNIFVGLTDEAQNAEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +TE DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKHKLEDLGLGL 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 = 258 bits (660), Expect = 7e-67, Method: Compositional matrix adjust. Identities = 130/288 (45%), Positives = 197/288 (68%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA ++IDGVLHE S++ GV ED+T+IILN+ Sbjct: 24 FVIEPLERGYGITLGNSLRRMLLSSLPGAAAKTIKIDGVLHEFSTVPGVKEDVTEIILNL 83 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + +K+ D K V I G G VTAGDI + D+E++NPD I L + + ME+ + Sbjct: 84 KELAVKLYTDEPKIVRIEAEGKGEVTAGDIISDGDVEIMNPDLHIATLSDNGKLNMEIEL 143 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYVP+ ++ N PIG+I +D++++P+KKVSY VE+ R GQV DYDKL+M + T+G Sbjct: 144 VKGKGYVPSDKNKEPNQPIGIIPVDSIFTPVKKVSYNVENTRVGQVTDYDKLTMEVWTNG 203 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I+ +++++LA++IL D +F +F E +++ + + L +EEL+LSVRS Sbjct: 204 TISPKEAISLAAKILIDHFNLFTSFAENYNDMEVLVEKSEKKTDKPLDMTIEELDLSVRS 263 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL+Q+TE +M+++ N G+KSLVE++ L +GL L Sbjct: 264 YNCLKRAGINTVQDLVQKTEEEMMKVRNLGKKSLVEVEQKLKALGLSL 311 >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 = 258 bits (660), Expect = 7e-67, Method: Compositional matrix adjust. Identities = 137/310 (44%), Positives = 206/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L ++ + +I EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKPK-IETVELNEDAKYGKFVI-EPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 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|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 = 258 bits (660), Expect = 7e-67, Method: Compositional matrix adjust. Identities = 132/291 (45%), Positives = 201/291 (69%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 +++ + + +T+ K G G V AGDI D+E++NP+HVIC+L D +A + M + V Sbjct: 82 AVRLGENKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+V++AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVDAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >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 = 258 bits (660), Expect = 8e-67, Method: Compositional matrix adjust. Identities = 137/310 (44%), Positives = 206/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L ++ + +I EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKPK-IETVELNEDAKYGKFVI-EPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 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|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 = 258 bits (660), Expect = 8e-67, Method: Compositional matrix adjust. Identities = 128/288 (44%), Positives = 196/288 (68%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGV+HE S+++GV ED+T IILN+ Sbjct: 23 FVIEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVMHEFSTVEGVVEDVTSIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +G G VTA DI +D+E+LNPD I + + +RM +T Sbjct: 83 KKLALKIYSDEEKTLEIDVQGEGAVTAADITHDSDVEILNPDLYIATVAENGHLRMRMTA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 ++G GYVPA ++ E+ PIG+I ID++Y+P+++V+Y VE+ R GQ+ +YDKLS+ + TDG Sbjct: 143 NQGRGYVPADQNKREDHPIGVIPIDSIYTPVQRVNYQVENTRVGQISNYDKLSLDVTTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI ++++AL ++IL + L +F+ + + + + + L +EEL+LSVRS Sbjct: 203 SIGPKEAIALGAKILTEHLNIFVGLTDEAQNAEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +TE DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLEDLGLGL 310 >gi|58415794|emb|CAH57311.1| RNA polymerase alpha-subunit [Vibrio cincinnatiensis] Length = 309 Score = 258 bits (659), Expect = 8e-67, Method: Compositional matrix adjust. Identities = 132/291 (45%), Positives = 200/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 +++ + + +T+ K G G V AGDI D+E++NP+HVIC+L D A + M + V Sbjct: 82 AVRLGENKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+V++AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVDAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >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 = 258 bits (659), Expect = 8e-67, Method: Compositional matrix adjust. Identities = 134/288 (46%), Positives = 196/288 (68%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T+V+I+GVLHE S+I GV ED TDIILNI Sbjct: 21 FVVEPLERGYGITLGNSLRRMLLSSLPGAAVTSVKIEGVLHEFSTIPGVVEDTTDIILNI 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D + + I GVVTAGDI T D+E+LNP+ VI ++ + ME+TV Sbjct: 81 KSLALKLHSDEPRVIRIEADDEGVVTAGDIITGADVEILNPEQVIATVEKGGRLYMEMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYV A ++ E+ PIG+I +D+L+SPI KV+YTVE+ R GQ+ DYDKL++ + TDG Sbjct: 141 EKGRGYVSADKNKKEDQPIGIIPVDSLFSPIHKVNYTVENTRVGQITDYDKLTLEVWTDG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI +++V+ A++IL + + +F+ E + + + + + +EEL+LSVRS Sbjct: 201 SIAPDEAVSSAAKILIEHMRLFLGLTERVSDEVTMVEKEEETRDRLMDMSIEELDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L+QR+E DM+++ N G+KSL E+ L +GL L Sbjct: 261 YNCLKRAGINTVAELLQRSEEDMMKVRNLGKKSLEEVTQKLSELGLSL 308 >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 = 258 bits (659), Expect = 9e-67, Method: Compositional matrix adjust. Identities = 133/298 (44%), Positives = 198/298 (66%), Gaps = 2/298 (0%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E N + EPL RG+ TLGN+LRR+L+SSL GAAIT VQIDGVLHE S++KGV ED Sbjct: 13 EESNNHGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAITDVQIDGVLHEFSTVKGVLED 72 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T+IILN+K + LK++ + + + GP VTAGDI T +D+E+LNPD IC + A Sbjct: 73 VTEIILNLKKVALKLNSEEPQSLEFDIVGPKEVTAGDISTNSDVEILNPDLYICTVADGA 132 Query: 142 VVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 +T +KG GYV A ++ + D PIG++ ID++Y+PI++V+Y VE R GQ DYD Sbjct: 133 SFHARMTANKGRGYVSANENKAKADDMPIGVLAIDSIYTPIERVNYQVEKTRVGQKNDYD 192 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL++ + T+GSIT ++++L+++IL + L +F+N + K + + + L Sbjct: 193 KLTLDVWTNGSITPSEAISLSAKILTEHLALFVNLTDEAKNAEIMVEKEETHKEKMLEMT 252 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+LSVRS NCL+ +I + L ++E+DM+++ N GRKSL E+K L +GL L Sbjct: 253 IEELDLSVRSYNCLKRASINTVQALTNKSESDMMKVRNLGRKSLEEVKAKLADLGLSL 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 = 258 bits (659), Expect = 9e-67, Method: Compositional matrix adjust. Identities = 138/310 (44%), Positives = 200/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E N + EPL RG+ TLGN+LRR+L+SSL GAAI+++QIDG Sbjct: 3 EFEKPN----ITKVDESTNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAISSIQIDG 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|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 = 258 bits (659), Expect = 9e-67, Method: Compositional matrix adjust. Identities = 131/288 (45%), Positives = 197/288 (68%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDGVLHE S+++GV ED+T+IILNI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVRTVQIDGVLHEFSTVEGVVEDVTEIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ D K + I G GVV AGDI+ +D+EVLNPD I L + + +T Sbjct: 83 KGLALKIHSDEEKVIEIDAEGEGVVKAGDIRADSDVEVLNPDLHIATLANGGRLHIRMTA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYV + +++E+ PIG+I ID++Y+PIK+V+Y VE+ R GQ+ +YDKL++ + T+G Sbjct: 143 GRGRGYVQSDGNKSEDLPIGVIPIDSIYTPIKRVNYQVENTRVGQMTNYDKLTLEVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI+ E++V+L ++I+ + L +F+ + K+ + + + L +EEL+LSVRS Sbjct: 203 SISPEEAVSLGAKIMTEHLNLFVGLTDEAKDAEIMVEKEEDKKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L Q+TE DM+++ N GRKSL E++ L +GL L Sbjct: 263 YNCLKRAGINTVQELTQKTEEDMMKVRNLGRKSLEEVQEKLAELGLSL 310 >gi|58415826|emb|CAH57327.1| RNA polymerase alpha-subunit [Vibrio diazotrophicus] Length = 309 Score = 258 bits (658), Expect = 1e-66, Method: Compositional matrix adjust. Identities = 132/291 (45%), Positives = 199/291 (68%), Gaps = 8/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNAL R+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALHRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDSNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+V++AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVDAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 309 >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 = 258 bits (658), Expect = 1e-66, Method: Compositional matrix adjust. Identities = 136/281 (48%), Positives = 187/281 (66%), Gaps = 8/281 (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 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLI 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 INFE-EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 + + P +EV+E K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE Sbjct: 181 ADLQGTPVEEVEE----KAPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTET 236 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 ++L+ N GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 237 ELLKTPNLGRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 277 >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 = 258 bits (658), Expect = 1e-66, Method: Compositional matrix adjust. Identities = 133/280 (47%), Positives = 193/280 (68%), Gaps = 9/280 (3%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+SG +T+ K G G VTA Sbjct: 3 GCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVSGKDDIILTLNKSGIGPVTA 62 Query: 117 GDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLIT 172 DI D+E++NP HVIC+L D DA + M + V +G GYVPA H + E+ PIG + Sbjct: 63 ADITHDGDVEIVNPHHVICHLTDKDASISMRIRVQRGRGYVPASARVHSQDEDRPIGRLL 122 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 +DA +SP+ +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F+ Sbjct: 123 VDARFSPVDRIAYNVEAARVEQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFV 182 Query: 233 NFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 + + ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE + Sbjct: 183 DLRDVRQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVE 238 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +L+ N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 239 LLKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 278 >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 = 258 bits (658), Expect = 1e-66, Method: Compositional matrix adjust. Identities = 134/295 (45%), Positives = 197/295 (66%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EE + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I GV ED+ Sbjct: 16 EEGTYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIPGVMEDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T++ILN+K ++LK+ D K I G GVVTAGDI+ +D+E+LNPD I L A Sbjct: 76 TEVILNLKALSLKIHSDEEKVFEIDAEGEGVVTAGDIRADSDVEILNPDLHIATLGPGAR 135 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + M + S+G GYV A ++ ++ PIG+I +D++Y+PI +V+Y VE+ R GQV +YDKL+ Sbjct: 136 LHMRIFASRGRGYVQADRNKRDDQPIGVIPVDSIYTPISRVNYGVENTRVGQVTNYDKLT 195 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + I TDGSI E++V+L ++IL + L +F+ + K+ + + + L +EE Sbjct: 196 LEIWTDGSIRPEEAVSLGAKILTEHLFLFVGLTDEAKDAEIMVEKEEDKKEKVLEMTIEE 255 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E++ L +GL L Sbjct: 256 LDLSVRSYNCLKRAGINTVQELTTKTEEDMMKVRNLGRKSLEEVQEKLEELGLGL 310 >gi|205372042|ref|ZP_03224859.1| DNA-directed RNA polymerase subunit alpha [Bacillus coahuilensis m4-4] Length = 314 Score = 258 bits (658), Expect = 1e-66, Method: Compositional matrix adjust. Identities = 131/288 (45%), Positives = 194/288 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T +ILNI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTSMILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +G GVVTA DI +D+E+LNPD I L D+ +RM L Sbjct: 83 KKLALKIYSDEEKTLEIDIKGNGVVTAADITHDSDVEILNPDLHIATLSGDSHLRMRLNA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY PA ++ E+ PIG+I ID++Y+P+ +V+Y VE+ R GQ+ +YDKLS+ + TDG Sbjct: 143 QRGRGYTPADQNKREDLPIGVIPIDSIYTPVSRVNYQVENTRVGQLTNYDKLSLDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI +++++L ++IL + L +F+ + + + + + L +EEL+LSVRS Sbjct: 203 SIGPKEAISLGAKILTEHLNIFVGLTDEAQNAEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +TE DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLDELGLGL 310 >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 = 258 bits (658), Expect = 1e-66, Method: Compositional matrix adjust. Identities = 134/293 (45%), Positives = 203/293 (69%), Gaps = 10/293 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN++RR+L+SSL GAA+T+++I+GVLHE S++ GV ED+T+IILNI Sbjct: 21 FVIEPLERGYGITLGNSMRRILLSSLPGAAVTSIKIEGVLHEFSTVPGVVEDVTEIILNI 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ GD + + I G GV+TA DI ++E+LNPD VI ++ + ME+TV Sbjct: 81 KNLTLKLHGDEEQVLRIEAEGEGVITAKDIIAPPEVEILNPDLVIAHIAEGGRLFMEMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 ++G GYVPA+ ++ IG+I +D+++SP+ KV++ VE+ R GQ+ DYDKL++ + TDG Sbjct: 141 ARGRGYVPAERNKKGEHVIGVIPVDSIFSPVLKVNFQVENTRVGQITDYDKLTLEVWTDG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEV-----KEDINVKSLPFNPALLKKVEELE 264 SI +++V+LA+RI+ + L +F+N E V KE+ + L P +E+L+ Sbjct: 201 SIRPDEAVSLAARIMVEHLQLFVNLNERATGVEIMVEKEEDAKEKLAEMP-----IEDLD 255 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LSVRS NCL+ I +G+LIQ+TEADM+++ N G+KSL E+ L +MGL L Sbjct: 256 LSVRSYNCLKRAGINTVGELIQKTEADMMKVRNLGKKSLEEVISKLNSMGLSL 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 = 258 bits (658), Expect = 1e-66, Method: Compositional matrix adjust. Identities = 137/310 (44%), Positives = 206/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L ++ + +I EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKPK-IETVELNEDAKYGKFVI-EPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 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|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 = 258 bits (658), Expect = 1e-66, Method: Compositional matrix adjust. Identities = 137/310 (44%), Positives = 200/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E N + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDG Sbjct: 3 EFEKPN----ITKVDESTNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDG 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|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 = 258 bits (658), Expect = 1e-66, Method: Compositional matrix adjust. Identities = 129/288 (44%), Positives = 198/288 (68%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA ++IDGVLHE S++ GV ED+T+IILN+ Sbjct: 24 FVIEPLERGYGITLGNSLRRMLLSSLPGAAAKTIKIDGVLHEFSTVPGVKEDVTEIILNL 83 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + +K+ D K V I G G VTAGDI + D+E++NPD I L + + ME+ + Sbjct: 84 KELAVKLYTDEPKIVRIEAEGKGEVTAGDIISDGDVEIMNPDLHIATLSDNGKLNMEIEL 143 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYVP+ ++ N PIG+I +D++++P+KKVSY+VE+ R GQV DYDKL+M + T+G Sbjct: 144 VKGKGYVPSDKNKEPNQPIGIIPVDSIFTPVKKVSYSVENTRVGQVTDYDKLTMEVWTNG 203 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I+ +++++LA++IL D +F +F + +++ + + L +EEL+LSVRS Sbjct: 204 TISPKEAISLAAKILIDHFNLFTSFADNYNDMEVLVEKSEKKTDKPLDMTIEELDLSVRS 263 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL+Q+TE +M+++ N G+KSLVE++ L +GL L Sbjct: 264 YNCLKRAGINTVQDLVQKTEEEMMKVRNLGKKSLVEVEQKLKALGLSL 311 >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 = 257 bits (657), Expect = 1e-66, Method: Compositional matrix adjust. Identities = 137/310 (44%), Positives = 206/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L ++ + +I EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKPK-IETVELNEDAKYGKFVI-EPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 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|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 = 257 bits (657), Expect = 1e-66, Method: Compositional matrix adjust. Identities = 137/301 (45%), Positives = 202/301 (67%), Gaps = 2/301 (0%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ T+GNALRR L+SSL GAA+TAV+IDGVLHE S+I GV ED+ +IILN+K Sbjct: 24 VIEPLERGYGITVGNALRRTLLSSLPGAAVTAVKIDGVLHEFSTIPGVLEDVPEIILNLK 83 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 G+ +KMS K + I +G V A DI+ DIE+ NPDH I L+ DA + ME+TV+ Sbjct: 84 GLAIKMSSPGPKVMYIEAQGECEVKAKDIKADADIEICNPDHHIATLNSDARLFMEITVN 143 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 +G GYVPA+ ++ N PIG+I +D++Y+P+ KV+Y VE+ R GQV DYDKL+M I T+G+ Sbjct: 144 QGKGYVPAERNKQPNQPIGVIPVDSIYTPVVKVNYKVENTRVGQVTDYDKLTMEIWTNGT 203 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 I ++++ +A++IL + +F + +++ + + N L +EELELSVRS Sbjct: 204 IRPDEALTVAAKILIEHFNLFTDLSNIPTKIETVVKQEPPKRNKLLDMTIEELELSVRSY 263 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 NCL+ I + DL+ +TE +M+++ N G+KSL E+ L ++GL L + D P+ E Sbjct: 264 NCLKRAGINTVEDLVNKTEEEMMKVRNLGKKSLEEVIQKLHSLGLSLKKS--DSTPKEEE 321 Query: 331 E 331 E Sbjct: 322 E 322 >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 = 257 bits (657), Expect = 2e-66, Method: Compositional matrix adjust. Identities = 140/312 (44%), Positives = 205/312 (65%), Gaps = 4/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRT-LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E+ KP IE +V E+NR + EPL RG+ TLGN+LRR+L+SSL G A+T+++ID Sbjct: 3 EIEKPK-IECVVCS--EDNRYGKFVVEPLERGYGITLGNSLRRILLSSLPGVAVTSIKID 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE S+I GV ED+T+IILNIK ++L G+ K + I G G V A DI+ D+E Sbjct: 60 GVLHEFSTIPGVIEDVTEIILNIKELSLNFHGEGPKVIYIDAEGEGEVKAKDIKADADVE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +LNP+H I L D + ME+T+ KG GYV A+ ++ PIG+I +D++++P+ KV+YT Sbjct: 120 ILNPEHKIATLSGDHRLYMEMTIDKGRGYVSAEKNKHPGQPIGVIPVDSIFTPVHKVNYT 179 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+ R GQV DYDKL++ + T+GSI +++++L ++IL + L +FI+ + K + + Sbjct: 180 VENTRVGQVTDYDKLTLEVWTNGSIKPDEAISLGAKILSEHLNLFIDLSDNAKNAEIMVE 239 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L +EEL+LSVRS NCL+ I + DLI RTE DM+++ N GRKSL E+ Sbjct: 240 KEETKKEKVLEMTIEELDLSVRSYNCLKRAGINTVEDLISRTEEDMMKVRNLGRKSLEEV 299 Query: 307 KGVLGTMGLFLG 318 L +GL L Sbjct: 300 VNKLKALGLSLA 311 >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 = 257 bits (657), Expect = 2e-66, Method: Compositional matrix adjust. Identities = 147/314 (46%), Positives = 204/314 (64%), Gaps = 8/314 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I I +E N ++ EPL RG+ TLGN+LRR L+SSL GAA+T++QID Sbjct: 6 EFEKPN-IHKI---EETNNFGEVVVEPLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDD 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|145577845|gb|ABP87373.1| RpoA [Vibrio ruber] Length = 294 Score = 257 bits (657), Expect = 2e-66, Method: Compositional matrix adjust. Identities = 134/280 (47%), Positives = 197/280 (70%), Gaps = 8/280 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 18 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 77 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D +A V M + V Sbjct: 78 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTDGNAEVAMRIKVQ 137 Query: 151 KGHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVP A+ H E+D PIG + +DA YSP+ K++YTVE+AR Q D DKL + ++T Sbjct: 138 RGRGYVPASARIHTDEDDRPIGRLLVDATYSPVDKIAYTVEAARVEQRTDLDKLVIDMET 197 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G+I E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 198 NGTIEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 254 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK Sbjct: 255 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIK 294 >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 = 257 bits (657), Expect = 2e-66, Method: Compositional matrix adjust. Identities = 130/288 (45%), Positives = 191/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T +ILNI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTSVILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +G G VTA D+ +D+E+LNPD I L + +RM LT Sbjct: 83 KKLALKIYSDDEKTLEIDIQGEGAVTAADVTHDSDVEILNPDLHIATLGSNGHLRMRLTA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY PA ++ E+ PIG+I ID++Y+P+ ++SY VE+ R GQ+ +YDKL+ + TDG Sbjct: 143 KRGRGYTPADQNKREDQPIGVIPIDSIYTPVSRISYQVENTRVGQMTNYDKLTFDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 S +D+VAL ++IL + L +F+ + + + + + L +EEL+LSVRS Sbjct: 203 STGPQDAVALGAKILTEHLNIFVGLTDEAQNAEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +TE DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKHKLEELGLGL 310 >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 = 257 bits (657), Expect = 2e-66, Method: Compositional matrix adjust. Identities = 134/280 (47%), Positives = 197/280 (70%), Gaps = 8/280 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 76 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D +A V M + V Sbjct: 77 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTDDNAEVAMRIKVQ 136 Query: 151 KGHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVP A+ H E+D PIG + +DA YSP+ K++YTVE+AR Q D DKL + ++T Sbjct: 137 RGRGYVPASARIHTDEDDRPIGRLLVDATYSPVDKIAYTVEAARVEQRTDLDKLVIDMET 196 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G+I E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 197 NGTIEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 253 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK Sbjct: 254 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIK 293 >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 = 257 bits (656), Expect = 2e-66, Method: Compositional matrix adjust. Identities = 134/295 (45%), Positives = 194/295 (65%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ Sbjct: 14 EEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDV 73 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILNIKG+ LK+ G+ K + I GP VTAGDI +D+E+LN D IC + A Sbjct: 74 AQIILNIKGLALKLYGEDEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVSEGAT 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 LTV G GYV A ++ ++ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+ Sbjct: 134 FHARLTVKPGRGYVQADENKKDDMPIGVLPVDSIYTPVRRVNYQVENTRVGHRDDFDKLT 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 M I TDGSI D+++LA++I+ + L +F+N + K + + + L +EE Sbjct: 194 MEIWTDGSIEPLDAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 253 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E+K L +GL L Sbjct: 254 LDLSVRSYNCLKRAGINTVQELTNKSEPEMIKVRNLGRKSLEEVKAKLHDLGLGL 308 >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 = 257 bits (656), Expect = 2e-66, Method: Compositional matrix adjust. Identities = 137/309 (44%), Positives = 205/309 (66%), Gaps = 5/309 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E +N + EPL RG+ TLGN+LRRV+++SL GAAIT++ IDG Sbjct: 3 EFEKPN----IHKVEETDNYGKFVVEPLERGYGTTLGNSLRRVMLASLPGAAITSINIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T IILN+K ++L++ + K + + +GP VTAGDIQ D+ V Sbjct: 59 VLHEFSTVEGVTEDVTQIILNLKKVSLRIDSEDQKNLELDVKGPAEVTAGDIQGDGDVTV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYT 186 LNPD I + A + +++T KGHGY A ++T D 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 KGVLGTMGL 315 K L +G+ Sbjct: 299 KIKLNELGV 307 >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 = 257 bits (656), Expect = 2e-66, Method: Compositional matrix adjust. Identities = 130/288 (45%), Positives = 194/288 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG LHE S I+GV ED+T +ILNI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGALHEFSVIEGVVEDVTTMILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +GPGVVTA DI +D+E+LNPD I L +A + L Sbjct: 83 KKLALKIYSDEEKTLEIDMQGPGVVTAADINYDSDVEILNPDLHIATLSDNAKFHVRLNA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 ++G GY PA ++ EN PIG++ +D+++SP+ +V+Y VE+ R GQ+ +YDKL+ + TDG Sbjct: 143 TRGRGYTPADQNKRENMPIGVLPVDSIFSPVIRVNYQVENTRVGQLTNYDKLTFDVLTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI+ E++V+L ++IL + L +F+N + ++ + I + L +EEL+LSVRS Sbjct: 203 SISPEEAVSLGAKILSEHLSIFVNLTDEAQKAEIMIEKEESHKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++E DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVQELADKSEDDMMKVRNLGRKSLEEVKVKLADLGLSL 310 >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 = 257 bits (656), Expect = 2e-66, Method: Compositional matrix adjust. Identities = 137/301 (45%), Positives = 202/301 (67%), Gaps = 2/301 (0%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ T+GNALRR L+SSL GAA+TAV+IDGVLHE S+I GV ED+ +IILN+K Sbjct: 24 VIEPLERGYGITVGNALRRTLLSSLPGAAVTAVKIDGVLHEFSTIPGVLEDVPEIILNLK 83 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 G+ +KMS K + I +G V A DI+ DIE+ NPDH I L+ DA + ME+TV+ Sbjct: 84 GLAIKMSSPGPKIMYIEAQGECEVKAKDIKADADIEICNPDHHIATLNQDARLFMEITVN 143 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 +G GYVPA+ ++ N PIG+I +D++Y+P+ KV+Y VE+ R GQV DYDKL+M I T+G+ Sbjct: 144 QGKGYVPAERNKQPNQPIGVIPVDSIYTPVVKVNYKVENTRVGQVTDYDKLTMEIWTNGT 203 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 I ++++ +A++IL + +F + +++ + + N L +EELELSVRS Sbjct: 204 IRPDEALTVAAKILIEHFSLFTDLSNIPTKIETVVKQEPPKRNKLLDMTIEELELSVRSY 263 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 NCL+ I + DL+ +TE +M+++ N G+KSL E+ L ++GL L + D P+ E Sbjct: 264 NCLKRAGINTVEDLVNKTEEEMMKVRNLGKKSLEEVIQKLHSLGLSLKKS--DSTPKEEE 321 Query: 331 E 331 E Sbjct: 322 E 322 >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 = 257 bits (656), Expect = 2e-66, Method: Compositional matrix adjust. Identities = 138/312 (44%), Positives = 201/312 (64%), Gaps = 7/312 (2%) 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ES R G+ DYDKL++ + TDGSIT D+++ AS+IL + +F F + + + ++ V Sbjct: 179 ESTRVGKRDDYDKLTLEVWTDGSITPSDALSFASKILIEHFKVF-KFSDAQTDFGGEVMV 237 Query: 248 KSLPFNP--ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L +EEL+LSVRS NCL+ I + +L ++E+DM+R+ N GRKSL E Sbjct: 238 EKEDDKKERQLEMTIEELDLSVRSYNCLKRAGINTLQELTDKSESDMMRVRNLGRKSLEE 297 Query: 306 IKGVLGTMGLFL 317 +K L +GL L Sbjct: 298 VKNKLADLGLSL 309 >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 = 257 bits (656), Expect = 2e-66, Method: Compositional matrix adjust. Identities = 139/312 (44%), Positives = 205/312 (65%), Gaps = 4/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRT-LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E+ KP IE +V E+NR + EPL RG+ TLGN+LRR+L+SSL G A+T+++ID Sbjct: 3 EIEKPK-IECVVCS--EDNRYGKFVVEPLERGYGITLGNSLRRILLSSLPGVAVTSIKID 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 G+LHE S+I GV ED+T+IILNIK ++L G+ K + I G G V A DI+ D+E Sbjct: 60 GILHEFSTIPGVIEDVTEIILNIKELSLNFHGEGPKVIYIDAEGEGEVKAKDIKADADVE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +LNP+H I L D + ME+T+ KG GYV A+ ++ PIG+I +D++++P+ KV+YT Sbjct: 120 ILNPEHKIATLSGDHRLYMEMTIDKGRGYVSAEKNKHPGQPIGVIPVDSIFTPVHKVNYT 179 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+ R GQV DYDKL++ + T+GSI +++++L ++IL + L +FI+ + K + + Sbjct: 180 VENTRVGQVTDYDKLTLEVWTNGSIKPDEAISLGAKILSEHLNLFIDLSDNAKNAEIMVE 239 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L +EEL+LSVRS NCL+ I + DLI RTE DM+++ N GRKSL E+ Sbjct: 240 KEETKKEKVLEMTIEELDLSVRSYNCLKRAGINTVEDLISRTEEDMMKVRNLGRKSLEEV 299 Query: 307 KGVLGTMGLFLG 318 L +GL L Sbjct: 300 VNKLKALGLSLA 311 >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 = 256 bits (655), Expect = 2e-66, Method: Compositional matrix adjust. Identities = 136/301 (45%), Positives = 202/301 (67%), Gaps = 2/301 (0%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ T+GNALRR L+SSL GAA+TAV+IDGVLHE S+I GV ED+ +IILN+K Sbjct: 24 VIEPLERGYGITVGNALRRTLLSSLPGAAVTAVKIDGVLHEFSTIPGVLEDVPEIILNLK 83 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 G+ +KMS K + I +G V A DI+ DIE+ NPDH I L+ DA + ME+TV+ Sbjct: 84 GLAIKMSSPGPKIMYIEAQGECEVKAKDIKADADIEICNPDHHIATLNQDARLFMEITVN 143 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 +G GY+PA+ ++ N PIG+I +D++Y+P+ KV+Y VE+ R GQV DYDKL+M I T+G+ Sbjct: 144 QGKGYIPAERNKQPNQPIGVIPVDSIYTPVVKVNYKVENTRVGQVTDYDKLTMEIWTNGT 203 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 I ++++ +A++IL + +F + +++ + + N L +EELELSVRS Sbjct: 204 IRPDEALTIAAKILIEHFNLFTDLSNIPTKIETVVKQEPPKRNKLLDMTIEELELSVRSY 263 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 NCL+ I + DL+ +TE +M+++ N G+KSL E+ L ++GL L + D P+ E Sbjct: 264 NCLKRAGINTVEDLVNKTEEEMMKVRNLGKKSLEEVIQKLHSLGLSLKKS--DSTPKEEE 321 Query: 331 E 331 E Sbjct: 322 E 322 >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 = 256 bits (655), Expect = 2e-66, Method: Compositional matrix adjust. Identities = 136/301 (45%), Positives = 202/301 (67%), Gaps = 2/301 (0%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ T+GNALRR L+SSL GAA+TAV+IDGVLHE S+I GV ED+ +IILN+K Sbjct: 24 VIEPLERGYGITIGNALRRTLLSSLPGAAVTAVKIDGVLHEFSTIPGVLEDVPEIILNLK 83 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 G+ +KMS K + I +G V A DI+ DIE+ NP+H I L+ DA + ME+TV+ Sbjct: 84 GLAIKMSSPGPKVMYIEAQGECEVKAKDIKADADIEICNPEHHIATLNEDARLFMEITVN 143 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 +G GYVPA+ ++ N PIG+I +D++Y+P+ KV+Y VE+ R GQV DYDKL+M I T+G+ Sbjct: 144 QGKGYVPAERNKQSNQPIGVIPVDSIYTPVTKVNYKVENTRVGQVTDYDKLTMEIWTNGT 203 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 I ++++ +A++IL + +F + +++ + + N L +EELELSVRS Sbjct: 204 IRPDEALTVAAKILIEHFNLFTDLSNIPTKIETVVKQEPPKRNKLLDMTIEELELSVRSY 263 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 NCL+ I + DL+ +TE +M+++ N G+KSL E+ L ++GL L + D P+ E Sbjct: 264 NCLKRAGINTVEDLVNKTEEEMMKVRNLGKKSLEEVIQKLHSLGLSLKKS--DSTPKGEE 321 Query: 331 E 331 E Sbjct: 322 E 322 >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 = 256 bits (655), Expect = 3e-66, Method: Compositional matrix adjust. Identities = 136/310 (43%), Positives = 206/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L ++ + +I EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKPK-IETVELNEDAKYGKFVI-EPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 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|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 = 256 bits (654), Expect = 3e-66, Method: Compositional matrix adjust. Identities = 132/288 (45%), Positives = 193/288 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG LHE S I GV ED+T +ILNI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGALHEFSVIDGVVEDVTTMILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +GPGVVTAGDI +D+E+LNPD I L +A + L Sbjct: 83 KKLALKIYSDDEKTLEIDVQGPGVVTAGDINYDSDVEILNPDLHIATLSDNAKFHVRLNA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 ++G GY PA ++ EN PIG++ +D+++SP+ +V+Y VE+ R GQ +YDKLS + TDG Sbjct: 143 TRGRGYTPADLNKHENMPIGVLPVDSIFSPVIRVNYQVENTRVGQSTNYDKLSFDVLTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI+ E++V+L ++IL + L +F+N + ++ + I + L +EEL+LSVRS Sbjct: 203 SISPEEAVSLGAKILSEHLSIFVNLTDEAQKAEIMIEKEESHKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++E DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVQELADKSEDDMMKVRNLGRKSLEEVKVKLADLGLSL 310 >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 = 256 bits (654), Expect = 3e-66, Method: Compositional matrix adjust. Identities = 133/288 (46%), Positives = 197/288 (68%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + +PL RG+ TLGN+LRRVL++SL GAA+TAV+IDGVLHE SSI GV ED+T++ILN+ Sbjct: 23 FVVDPLERGYGITLGNSLRRVLLASLPGAAVTAVKIDGVLHEFSSIPGVREDVTELILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ G+ + + I G G +TAGDI T D+E+LNPD I L+ DA + MELTV Sbjct: 83 KSLRLKLYGEEDRLMRIEAEGEGRITAGDIITSPDVEILNPDLHIATLEPDARLYMELTV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYVPA+ ++ N IG+I +D++++P+ KV++TV+ R G D+DKL+M + TDG Sbjct: 143 GRGRGYVPAEKNKRGNHVIGVIPVDSIFTPVTKVNFTVDKTRVGHDTDFDKLTMEVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 S+ +++++LA+RI + L +F+ E V+ + + N L +EEL+LSVRS Sbjct: 203 SLRPDEALSLAARITTEHLRLFVGLTESVNNVEIMVTKEEEKKNKLLEMPIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +LIQR E +M+++ N G+KSL E+ LG +GL L Sbjct: 263 YNCLKRAGINTVEELIQRNEEEMMKVRNLGKKSLEEVVRKLGELGLDL 310 >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 = 256 bits (654), Expect = 3e-66, Method: Compositional matrix adjust. Identities = 130/288 (45%), Positives = 193/288 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG LHE S I+GV ED+T +ILNI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGALHEFSVIEGVVEDVTTMILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +GPGVVTA DI +D+E+LNPD I L +A + L Sbjct: 83 KKLALKIYSDEEKTLEIDMQGPGVVTAADINYDSDVEILNPDLHIATLSDNAKFHVRLNA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 ++G GY PA ++ EN PIG++ +D+++SP+ +V+Y VE+ R GQ +YDKL+ + TDG Sbjct: 143 TRGRGYTPADQNKRENMPIGVLPVDSIFSPVIRVNYQVENTRVGQSTNYDKLTFDVLTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI+ E++V+L ++IL + L +F+N + ++ + I + L +EEL+LSVRS Sbjct: 203 SISPEEAVSLGAKILSEHLSIFVNLTDEAQKAEIMIEKEESHKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++E DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVQELADKSEDDMMKVRNLGRKSLEEVKVKLADLGLSL 310 >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 = 256 bits (654), Expect = 3e-66, Method: Compositional matrix adjust. Identities = 132/292 (45%), Positives = 198/292 (67%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDGVLHE SSI GV ED+T+II+NI Sbjct: 48 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDGVLHEFSSIPGVKEDVTEIIMNI 107 Query: 90 KGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K + D++ K I G GVVTA DIQ DIE++NPD VI L D+ M Sbjct: 108 KSLAIKNNSDTNEAKVAYIEFEGEGVVTAADIQADPDIEIMNPDQVIATLSGGTDSKFYM 167 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GYV A +++E+ PIG+I +D++Y+P+++V+ TV++ R GQV D+DKL++ + Sbjct: 168 ELTITKGRGYVSADKNKSEDLPIGVIAVDSIYTPVERVNMTVQNTRVGQVTDFDKLTLDV 227 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 TDG++ +++V+LA+++L + L +FI+ E K + + + L ++ELEL Sbjct: 228 YTDGTLAPDEAVSLAAKVLSEHLNLFIDLSENAKTAEVMVEKEDNEKEKVLEMNIDELEL 287 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 288 SVRSYNCLKRAGINTVEELCNRTSEDMMKVRNLGRKSLEEVLAKLKELGLQL 339 >gi|189308773|gb|ACD87088.1| RpoA [Vibrio sp. PP-204] Length = 295 Score = 256 bits (654), Expect = 4e-66, Method: Compositional matrix adjust. Identities = 131/284 (46%), Positives = 195/284 (68%), Gaps = 8/284 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 15 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 74 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 75 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEITNPEHVICHLTDGNAEIAMRIKVE 134 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 135 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMET 194 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 195 NGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 251 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL Sbjct: 252 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKNVLA 295 >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 = 256 bits (654), Expect = 4e-66, Method: Compositional matrix adjust. Identities = 144/332 (43%), Positives = 215/332 (64%), Gaps = 18/332 (5%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 N E + PN I + + TL EPL RGF HTLGNALRR+L+SSL GAA+ + Sbjct: 4 NATEFLTPNAIHVDTVNETHAKVTL---EPLERGFGHTLGNALRRILLSSLPGAAVIEAE 60 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 I+GV HE S+++G+ ED+ D++LN+KG+ +++ + +T+ K+GPG V A DI+ ++ Sbjct: 61 IEGVDHEYSTLEGLQEDVLDLLLNLKGLAIQLHDQNEVFLTLDKQGPGTVLASDIELPHN 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKK 182 +E++NPD V+ L ++M L V+ G GY PA + +N IG + +DA YSPI + Sbjct: 121 VEIINPDLVLGTLSDRGHLKMRLRVAVGRGYEPANVRKDSGDNKVIGRLKLDASYSPILR 180 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-----EP 237 V+Y VE+AR Q D D+L + ++T+G+I E+++ A+ ILQ Q+ +F++ E EP Sbjct: 181 VAYQVENARVEQRTDLDRLVIELETNGTIDPEEAIRKAATILQQQIAVFVDLEAEATPEP 240 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 KE +E +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N Sbjct: 241 VKEKEE--------VDPVLLRPVDDLELTVRSANCLKAENIYYIGDLVQRTETELLKTPN 292 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + L LGM L +WPP + Sbjct: 293 LGKKSLTEIKDVLASKDLELGMRLENWPPADL 324 >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 = 256 bits (654), Expect = 4e-66, Method: Compositional matrix adjust. Identities = 139/310 (44%), Positives = 205/310 (66%), Gaps = 6/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E ++ + EPL RG+ TLGN+LRRVL++SL GAAIT++QIDG Sbjct: 3 EFEKPN----IHKVEETDSYGKFVVEPLERGYGTTLGNSLRRVLLASLPGAAITSIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T IILN+K ++LK+ + K + I +GP VTAGDIQ ++EV Sbjct: 59 VLHEFSTVEGVTEDVTQIILNLKKVSLKLDSEEQKDLEIDVKGPAEVTAGDIQGDGEVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSY 185 LNPD I + A + +++T KG GY+ A ++ D 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 IKGVLGTMGL 315 IK L +G+ Sbjct: 299 IKLKLNDLGV 308 >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 = 256 bits (654), Expect = 4e-66, Method: Compositional matrix adjust. Identities = 132/284 (46%), Positives = 195/284 (68%), Gaps = 8/284 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + K + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEK---EEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLA 302 >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 = 256 bits (653), Expect = 4e-66, Method: Compositional matrix adjust. Identities = 137/312 (43%), Positives = 201/312 (64%), Gaps = 7/312 (2%) 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ES R G+ DYDKL++ + TDGSIT D+++ AS+IL + +F F + + + ++ V Sbjct: 179 ESTRVGKKDDYDKLTLEVWTDGSITPSDALSFASKILIEHFKVF-KFSDAQTDFGGEVMV 237 Query: 248 KSLPFNP--ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L +EEL+LSVRS NCL+ I + +L ++E+DM+R+ N GRKSL E Sbjct: 238 EKEDDKKERQLEMTIEELDLSVRSYNCLKRAGINTLQELTDKSESDMMRVRNLGRKSLEE 297 Query: 306 IKGVLGTMGLFL 317 +K L +GL L Sbjct: 298 VKNKLADLGLSL 309 >gi|179184670|gb|ACB78156.1| RNA polymerase alpha subunit [Vibrio rarus] Length = 301 Score = 256 bits (653), Expect = 4e-66, Method: Compositional matrix adjust. Identities = 134/290 (46%), Positives = 198/290 (68%), Gaps = 8/290 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I VLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 15 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIGSVLHEYSTKEGVQEDILEILLNLKGL 74 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 75 AVRVAEGKDDVLITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNADIAMRIKVE 134 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ +++Y+V +AR Q D DKL + ++T Sbjct: 135 RGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDQIAYSVAAARVEQRTDLDKLVIDMET 194 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + V+E I K F+P LL+ V++LEL+V Sbjct: 195 NGTLEPEEAIRRAATILAEQLDAFVDLRDVR--VQEPIEEKP-EFDPILLRPVDDLELTV 251 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + G L Sbjct: 252 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGXSL 301 >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 = 256 bits (653), Expect = 5e-66, Method: Compositional matrix adjust. Identities = 130/288 (45%), Positives = 193/288 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILNI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTTIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I +G GVVTA DI +D+E+LNPD I L +A R+ LT Sbjct: 83 KKLALKIYSEEEKTLEIDVQGEGVVTAADITHDSDVEILNPDLHIATLGQNASFRVRLTA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY PA ++ ++ PIG+I ID++++P+ +VSY VE+ R GQ+ +YDKL++ + TDG Sbjct: 143 QRGRGYTPADANKRDDQPIGVIPIDSIFTPVSRVSYQVENTRVGQITNYDKLTLDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 S ++++AL S+IL + L +F+ + + + + + L +EEL+LSVRS Sbjct: 203 STGPKEAIALGSKILTEHLNIFVGLTDEAQHAEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +TE DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLEELGLGL 310 >gi|313606573|gb|EFR83374.1| DNA-directed RNA polymerase, alpha subunit [Listeria monocytogenes FSL F2-208] Length = 314 Score = 256 bits (653), Expect = 5e-66, Method: Compositional matrix adjust. Identities = 129/288 (44%), Positives = 193/288 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG LHE S I+GV ED+T +ILNI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGALHEFSVIEGVVEDVTTMILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +GPG+VTA DI +D+E+LNPD I L +A + L Sbjct: 83 KKLALKIYSDEEKTLEIDMQGPGIVTAADINYDSDVEILNPDLHIATLSDNAKFHVRLNA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 ++G GY PA ++ EN PIG++ +D+++SP+ +V+Y VE+ R GQ +YDKL+ + TDG Sbjct: 143 TRGRGYTPADQNKRENMPIGVLPVDSIFSPVIRVNYQVENTRVGQSTNYDKLTFDVLTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI+ E++V+L ++IL + L +F+N + ++ + I + L +EEL+LSVRS Sbjct: 203 SISPEEAVSLGAKILSEHLSIFVNLTDEAQKAEIMIEKEESHKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++E DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVQELADKSEDDMMKVRNLGRKSLEEVKVKLADLGLSL 310 >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 = 255 bits (652), Expect = 5e-66, Method: Compositional matrix adjust. Identities = 133/295 (45%), Positives = 195/295 (66%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ Sbjct: 14 EDKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDV 73 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILNIKG+ LKM GD K + I GP VTAGDI +D+E+LN D IC + A Sbjct: 74 AQIILNIKGLALKMYGDEEKTLEIDISGPATVTAGDIIVDSDVEILNKDMYICTVSEGAT 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+ Sbjct: 134 FHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLT 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 M I TDGSI ++++L+++I+ + L +F+N + K + + + L +EE Sbjct: 194 MEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 253 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E+K L +GL L Sbjct: 254 LDLSVRSYNCLKRAGINTVQELTNKSEPEMIKVRNLGRKSLEEVKVKLHDLGLGL 308 >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 = 255 bits (652), Expect = 6e-66, Method: Compositional matrix adjust. Identities = 135/311 (43%), Positives = 204/311 (65%), Gaps = 12/311 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 293 Query: 297 NFGRKSLVEIK 307 N G+ L +K Sbjct: 294 NLGKNLLPRLK 304 >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 = 255 bits (652), Expect = 6e-66, Method: Compositional matrix adjust. Identities = 132/292 (45%), Positives = 198/292 (67%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDGVLHE SSI GV ED+T+II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDGVLHEFSSIPGVKEDVTEIIMNI 82 Query: 90 KGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + ++ S D K I G GVVTA DIQ +DI++LNPD VI NL+ D + M Sbjct: 83 KELAIRNNSSSDEPKVAYIEFEGEGVVTAADIQVDSDIQILNPDLVIANLNGGADCKLYM 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GYV + ++TE+ PIG+I ID++Y+P+++V+ ++E+ R GQ+ DYDKL++ + Sbjct: 143 ELTITKGRGYVSSDKNKTEDTPIGVIAIDSIYTPVERVNLSIENTRVGQITDYDKLTLDV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E ++ I L ++ELEL Sbjct: 203 YTNGTLEPDEAVSLAAKVLSEHLNLFIDLSEAAQQADVMIEKADDAKEKVLEMNIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 263 SVRSFNCLKRAGINTVEELTNRTPEDMMKVRNLGRKSLEEVLAKLKELGLQL 314 >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 = 255 bits (652), Expect = 6e-66, Method: Compositional matrix adjust. Identities = 130/288 (45%), Positives = 191/288 (66%), Gaps = 1/288 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L++SL GAA+T+V+I+GVLHE S+I GV ED TDIILN+ Sbjct: 23 FVVEPLERGYGVTLGNSLRRILLTSLFGAAVTSVKIEGVLHEFSTIPGVVEDTTDIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + +KM + + + + G GVVTA DI T D+E+LNPD VI +D + ME+TV Sbjct: 83 KQLAIKMHTEESRTIRVEFEGEGVVTAADILTDADVEILNPDQVIATVDKGRLF-MEITV 141 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 K GY+ A HR IG+I IDA +SP++KV+Y VE R GQ+ +YD+L + + T+G Sbjct: 142 EKSRGYITATKHRKSEHAIGVIPIDANFSPVRKVNYRVEDTRVGQITNYDRLILEVWTNG 201 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 S+T E++++ +++I+ D L +F+ E + V+ + + P + L +EEL+LSVRS Sbjct: 202 SLTPEEAISWSAKIMNDYLKLFVALTENTENVEIMVETEERPQDKILEMTIEELDLSVRS 261 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL +TE DM+++ N GRKSL E+ L +GL L Sbjct: 262 YNCLKRAGINTVKDLTNKTEEDMIKVRNLGRKSLEEVDAKLAALGLSL 309 >gi|189308769|gb|ACD87086.1| RpoA [Vibrio sp. PP-203] Length = 295 Score = 255 bits (652), Expect = 6e-66, Method: Compositional matrix adjust. Identities = 131/283 (46%), Positives = 195/283 (68%), Gaps = 8/283 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 16 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 75 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 76 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEITNPEHVICHLTDGNAEIAMRIKVE 135 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 136 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMET 195 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 196 NGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 252 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL Sbjct: 253 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVL 295 >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 = 255 bits (652), Expect = 6e-66, Method: Compositional matrix adjust. Identities = 131/288 (45%), Positives = 192/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IIL+I Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTTIILHI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +G G VTA DI +D+E+LNPD I L +A R+ LT Sbjct: 83 KKLALKIYSDEEKTLEIDVQGEGTVTAADITHDSDVEILNPDLHIATLGENASFRVRLTA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY PA ++ ++ PIG+I ID++Y+P+ +VSY VE+ R GQV +YDKL++ + TDG Sbjct: 143 QRGRGYTPADANKRDDQPIGVIPIDSIYTPVSRVSYQVENTRVGQVANYDKLTLDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 S ++++AL S+IL + L +F+ + + + + + L +EEL+LSVRS Sbjct: 203 STGPKEAIALGSKILTEHLNIFVGLTDEAQHAEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +TE DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLEELGLGL 310 >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 = 255 bits (652), Expect = 6e-66, Method: Compositional matrix adjust. Identities = 133/290 (45%), Positives = 199/290 (68%), Gaps = 4/290 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL++SL GAA+T+++IDGVLHE ++ GV ED+ IILNI Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNI 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KGI +K + K++ + GP VTAGDI T +DIE++NPDH + + A + LTV Sbjct: 81 KGIAVKSYVEDEKKIELDVVGPAEVTAGDILTDSDIEIVNPDHYLFTIADGATFKAVLTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + G GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I+T+G Sbjct: 141 NSGRGYVPAEDNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTLEINTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK--EVKEDINVKSLPFNPALLKKVEELELSV 267 +I ED++ L++RIL + LG+F + E K EV ++ V S + L + +EEL+LSV Sbjct: 201 TIVPEDTLGLSARILMEHLGLFTDLTEVAKSAEVMKEAEVAS--DDRMLDRTIEELDLSV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ I + DL ++TE +M+++ N GRKSL E+K L +GL L Sbjct: 259 RSYNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVKVKLADLGLGL 308 >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 = 255 bits (652), Expect = 6e-66, Method: Compositional matrix adjust. Identities = 133/290 (45%), Positives = 199/290 (68%), Gaps = 4/290 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL++SL GAA+T+++IDGVLHE ++ GV ED+ IILNI Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNI 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KGI +K + K++ + GP VTAGDI T +DIE++NPDH + + A + LTV Sbjct: 81 KGIAVKSYVEDEKKIELDVVGPAEVTAGDILTDSDIEIVNPDHYLFTIADGATFKAVLTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + G GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I+T+G Sbjct: 141 NSGRGYVPAEDNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTLEINTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK--EVKEDINVKSLPFNPALLKKVEELELSV 267 +I ED++ L++RIL + LG+F + E K EV ++ V S + L + +EEL+LSV Sbjct: 201 TIVPEDALGLSARILMEHLGLFTDLTEVAKSAEVMKEAEVAS--DDRMLDRTIEELDLSV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ I + DL ++TE +M+++ N GRKSL E+K L +GL L Sbjct: 259 RSYNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVKVKLADLGLGL 308 >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 = 255 bits (651), Expect = 7e-66, Method: Compositional matrix adjust. 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-IETVEVS-EDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDS 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|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 = 255 bits (651), Expect = 7e-66, Method: Compositional matrix adjust. Identities = 133/290 (45%), Positives = 199/290 (68%), Gaps = 4/290 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL++SL GAA+T+++IDGVLHE ++ GV ED+ IILNI Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNI 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KGI +K + K++ + GP VTAGDI T +DIE++NPDH + + A + LTV Sbjct: 81 KGIAVKSYVEDEKKIELDVVGPAEVTAGDILTDSDIEIVNPDHYLFTIADGATFKAVLTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + G GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I+T+G Sbjct: 141 NSGRGYVPAEDNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTLEINTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK--EVKEDINVKSLPFNPALLKKVEELELSV 267 +I ED++ L++RIL + LG+F + E K EV ++ V S + L + +EEL+LSV Sbjct: 201 TIIPEDALGLSARILMEHLGLFTDLTEVAKSAEVMKEAEVAS--DDRMLDRTIEELDLSV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ I + DL ++TE +M+++ N GRKSL E+K L +GL L Sbjct: 259 RSYNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVKVKLADLGLGL 308 >gi|40063201|gb|AAR38038.1| DNA-directed RNA polymerase, alpha subunit [uncultured marine bacterium 562] Length = 321 Score = 255 bits (651), Expect = 8e-66, Method: Compositional matrix adjust. Identities = 136/303 (44%), Positives = 201/303 (66%), Gaps = 7/303 (2%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 N + + EPL RGF HTLGNALRR+L+SS+ GAA+T V IDG+ HE S+I+GV ED+ DI Sbjct: 22 NLSKITLEPLERGFGHTLGNALRRILLSSMPGAAVTDVAIDGISHEYSTIEGVREDVIDI 81 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV-VR 144 +LNIK + + + + +T+ GP V A ++E++N D + + VD V ++ Sbjct: 82 LLNIKDMPVNIIEGNTAEITLDVTGPCDVLASSFDVPGNVELVNQDFHVATI-VDKVNLK 140 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 M LTV G GY PA E+ +G + +DA YSP+++VSYTV++AR + D DKL + Sbjct: 141 MTLTVQTGRGYEPADTRDDEDRVVGALKVDASYSPVRRVSYTVDNARFEKRTDLDKLVIE 200 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEE-PKKEVKEDINVKSLPFNPALLKKVEEL 263 ++TDG++ + ++ ++ ILQ QL F++ + ++E K+D N F+P LL+ +EEL Sbjct: 201 LETDGTLDPKMAIEHSATILQQQLSSFVDLDAIAEQEAKKDQN----DFDPFLLRSIEEL 256 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 EL+VRSTNCL+ E+I +GDLI R+E D+L+ N G+KSL EIK VL + L LGMN+ + Sbjct: 257 ELTVRSTNCLKAESIFLIGDLIHRSEFDLLKTPNLGKKSLNEIKDVLASKELSLGMNVDN 316 Query: 324 WPP 326 WPP Sbjct: 317 WPP 319 >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 = 254 bits (650), Expect = 9e-66, Method: Compositional matrix adjust. Identities = 134/296 (45%), Positives = 197/296 (66%), Gaps = 2/296 (0%) Query: 24 EENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +ENR + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+I GV ED Sbjct: 13 DENRDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIPGVRED 72 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILNIKG+ LK+ + K + I GP VTAGDI +D+E+LN D VIC++ A Sbjct: 73 VTQIILNIKGLALKLYAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDLVICSVAEGA 132 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL Sbjct: 133 TFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKL 192 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 +M I TDGSI +++++LA++I+ + L +F+N + K + + + L +E Sbjct: 193 TMEIWTDGSIIPQEALSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIE 252 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 EL+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E+K L +GL L Sbjct: 253 ELDLSVRSYNCLKRAGINTVQELTNKSEPEMIKVRNLGRKSLEEVKLKLHDLGLGL 308 >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 = 254 bits (650), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 134/296 (45%), Positives = 197/296 (66%), Gaps = 2/296 (0%) Query: 24 EENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +ENR + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+I GV ED Sbjct: 13 DENRDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIPGVRED 72 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILNIKG+ LK+ + K + I GP VTAGDI +D+E+LN D VIC++ A Sbjct: 73 VTQIILNIKGLALKLYAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDLVICSVAEGA 132 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL Sbjct: 133 TFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKL 192 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 +M I TDGSI +++++LA++I+ + L +F+N + K + + + L +E Sbjct: 193 TMEIWTDGSIIPQEALSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIE 252 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 EL+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E+K L +GL L Sbjct: 253 ELDLSVRSYNCLKRAGINTVQELTNKSEPEMIKVRNLGRKSLEEVKLNLHDLGLGL 308 >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 = 254 bits (650), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 140/331 (42%), Positives = 209/331 (63%), Gaps = 8/331 (2%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++ NW+E+I P + + EPL +G+ T+GN+LRR+++SSL GAAI Sbjct: 6 LVYMNWREIIMPEKVAVTTTS----TYGKFVCEPLEKGYGITIGNSLRRIILSSLYGAAI 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 FGRKSLVEIKGVLGTMGLFLGMNLPDW-PPE 327 FGRKSL EIK VL +M L LGM+L + PPE Sbjct: 302 FGRKSLNEIKEVLTSMDLSLGMDLEGFEPPE 332 >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 = 254 bits (650), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 131/292 (44%), Positives = 198/292 (67%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDGVLHE SSI GV ED+T+II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDGVLHEFSSIPGVKEDVTEIIMNI 82 Query: 90 KGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K +++K + D++ K I G GV+TA DIQ DIE++NP+ VI L D+ M Sbjct: 83 KSLSIKNNSDTNEAKVAYIEFEGEGVITAADIQADPDIEIMNPEQVIATLSGGTDSKFYM 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GYV A +++E+ PIG+I +D++Y+P+++V+ TVE+ R GQV DYDKL++ + Sbjct: 143 ELTITKGRGYVSADKNKSEDLPIGVIAVDSIYTPVERVNMTVENTRVGQVTDYDKLTLDV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G+ +++V+LA+++L + L +FI+ E K + + + L ++ELEL Sbjct: 203 FTNGTSAPDEAVSLAAKVLSEHLNLFIDLSENAKTAEVMVEKEDNEKEKVLEMNIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 263 SVRSYNCLKRAGINTVEELCNRTSEDMMKVRNLGRKSLEEVLAKLKELGLQL 314 >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 = 254 bits (649), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 127/288 (44%), Positives = 199/288 (69%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAA+T+V+I+G+LHE S+I GV ED+T+IILN+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAVTSVKIEGILHEFSTIPGVKEDVTEIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K +++ + G+ K + I GPG VTAGDI D+EVLNPD I LD ++ + ME+ + Sbjct: 83 KDLSIGIDGNEPKTLRIEMEGPGTVTAGDIIADADVEVLNPDMYIATLDDNSKLNMEINI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GYV A++++T PIG+I +D++++P++KVSY V + R GQV DYDKL + + TDG Sbjct: 143 AKGRGYVSAENNKTAGMPIGVIPVDSIFTPVRKVSYFVGNTRVGQVTDYDKLEIEVFTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI +++++LA++++ + L +FI +E +V+ + + L +EEL+LSVRS Sbjct: 203 SIKPDEAISLAAKVMSEHLNLFITLKEDVSDVEIMVQKEEDKKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++E DM+++ N G+KSL E+ L +GL L Sbjct: 263 YNCLKRAGINTVEELSLKSEEDMMKVRNLGKKSLEEVDKKLEELGLGL 310 >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 = 254 bits (649), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 128/295 (43%), Positives = 199/295 (67%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EE + EPL RG+ TLGN+LRR+L+SSL GAA+T+V+IDGVLHE SSI GV ED Sbjct: 16 EESTYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTSVKIDGVLHEFSSIPGVVEDT 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T+I+LN+K + LK+ D ++ +T+ K G G VTAGDIQ +D++V+NP+ I L D Sbjct: 76 TEIVLNLKRLALKIHSDENQVLTLEKEGKGPVTAGDIQAGSDVDVINPELHIATLSEDTR 135 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + ME+T G GYV A+ ++ PIGLI +D++++P+ K ++ V+ R GQV DYD+L+ Sbjct: 136 LYMEITAKNGRGYVRAERNKEPEQPIGLIPVDSVFTPVTKANFYVDDTRVGQVTDYDRLT 195 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + + TDGS+ +++V+++++I+Q+ L +FIN E +++ + + + ++E Sbjct: 196 LEVWTDGSLKPDEAVSMSAKIMQEHLDLFINLTEKATDMEVMVEKEEDNKEKIMELSIDE 255 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+LSVRS NCL+ I +G+L Q+T DM+++ N G+KSL E+K L +GL L Sbjct: 256 LDLSVRSYNCLKRAGINTIGELTQKTPEDMMKVRNLGKKSLEEVKNKLTELGLSL 310 >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 = 254 bits (649), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 141/329 (42%), Positives = 214/329 (65%), Gaps = 18/329 (5%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 N E + PN I + + TL EPL RGF HTLGNALRR+L+SSL GAA+ + Sbjct: 4 NATEFLTPNAINVDAVDETNAKVTL---EPLERGFGHTLGNALRRILLSSLPGAAVIEAE 60 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 I+GV HE S+++G+ ED+ D++LN+KG+ + M + +T+ K+GPG++TA DI+ ++ Sbjct: 61 IEGVDHEYSTLEGLQEDVLDLLLNLKGLAITMHDQNEVFLTLDKKGPGIITAADIELPHN 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKK 182 ++++NP+ V+ L ++M L V G GY PA R + D IG + +DA +SP+ + Sbjct: 121 VDIVNPELVLGTLGDRGHLKMRLRVVMGRGYEPANLRREDGDTKAIGRLKLDASFSPVSR 180 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-----EP 237 V+Y VE+AR Q D D+L + ++T+G+I E+++ A+ ILQ Q+ +F++ E EP Sbjct: 181 VAYQVENARVEQRTDLDRLIIELETNGTIDPEEAIRKAATILQQQISIFVDLEAEEAPEP 240 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 KE +E +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QR+E ++L+ N Sbjct: 241 VKEKEE--------VDPVLLRPVDDLELTVRSANCLKAENIYYIGDLVQRSETELLKTPN 292 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 G+KSL EIK VL + GL L M L +WPP Sbjct: 293 LGKKSLTEIKDVLASKGLELDMRLENWPP 321 >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 = 254 bits (649), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 144/332 (43%), Positives = 214/332 (64%), Gaps = 18/332 (5%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 N E + P+ I + + TL EPL RGF HTLGNALRR+L+SSL GAA+ + Sbjct: 3 NATEFLTPSAINVDTVNETTAKVTL---EPLERGFGHTLGNALRRILLSSLSGAAVVEAE 59 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 I+GV HE S+++G+ ED+ D++LN+K + + + + +T+ KRG GVVTA D++ ++ Sbjct: 60 IEGVDHEYSTLEGLQEDVLDLLLNLKSLAIILHDQNEAYLTLDKRGAGVVTAADLELPHN 119 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP--IGLITIDALYSPIKK 182 +E+ NPD V+ L ++M L V G GY PA R + + IG + +DA +SPI + Sbjct: 120 VEIANPDLVLGTLSERGHLKMRLHVVTGRGYEPANQRREDANSKIIGRLKLDASFSPIIR 179 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-----EP 237 V+Y VE+AR Q D DKL + ++T+G+I E+++ A+ ILQ Q+ +F++ E EP Sbjct: 180 VAYDVENARVEQRTDLDKLIIELETNGTIDPEEAIRKAATILQQQIAIFVDLEAEEAPEP 239 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 KE KE+I +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QR+E ++L+ N Sbjct: 240 IKE-KEEI-------DPVLLRPVDDLELTVRSANCLKAENIYYIGDLVQRSETELLKTPN 291 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + L LGM L +WPP + Sbjct: 292 LGKKSLTEIKDVLASKNLELGMRLDNWPPSDL 323 >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 = 254 bits (649), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 131/285 (45%), Positives = 194/285 (68%), Gaps = 8/285 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 18 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 77 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 +K++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 78 AVKVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 137 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 138 RGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 197 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ ++ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 198 NGTLDPEEAIRRSATILAEQLDAFVDLRDIRVPEE---KEEKPEFDPILLRPVDDLELTV 254 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 RS NCL+ E I Y+GDL+QRTE ++L+ N G KSL EIK VL + Sbjct: 255 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGNKSLTEIKDVLAS 299 >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 = 254 bits (648), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 134/303 (44%), Positives = 196/303 (64%), Gaps = 2/303 (0%) Query: 17 YIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISS 74 +I L E+ T EPL RG+ TLGN+LRR+++SSL G AIT V+IDGVLHE S+ Sbjct: 8 FIKLVDRSEDNTYGKFTVEPLERGYGTTLGNSLRRIMLSSLPGVAITTVKIDGVLHEFST 67 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 I G+ ED+ +I+LN+KG+ M D + V I +G G VTAGDI ++E+LNPD I Sbjct: 68 IPGIKEDVIEILLNLKGLCAVMHTDELQTVRIEAKGAGEVTAGDIIAGPEVEILNPDMHI 127 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 C + DA + ME+ + G GY P++ ++ + PIG + +D+++SPI+KV + VE R GQ Sbjct: 128 CTMAGDAELTMEMALEVGRGYRPSEKNKYDGMPIGTLPMDSIFSPIRKVIFRVEDTRVGQ 187 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 V D+DKL++ I TDG+ + E++++L+++++ D L +FI+ E V+ + + Sbjct: 188 VTDFDKLTLEIWTDGTTSPEEALSLSAKVMNDHLRLFIDLTEEAGSVETIVEKEETERER 247 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +EELELSVRS+NCLR NI + L Q+TE DM+++ N GRKSL EIK L MG Sbjct: 248 IREMSIEELELSVRSSNCLRRANIDTVEKLTQKTEEDMMKVRNLGRKSLNEIKHKLAEMG 307 Query: 315 LFL 317 L L Sbjct: 308 LSL 310 >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 = 254 bits (648), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 132/295 (44%), Positives = 195/295 (66%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ Sbjct: 14 EDKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDV 73 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILNIKG+ LKM G+ K + I GP VTAGDI +D+E+LN D IC + A Sbjct: 74 AQIILNIKGLALKMYGNEEKTLEIDISGPATVTAGDIIVDSDVEILNKDMYICTVSEGAT 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+ Sbjct: 134 FHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLT 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 M I TDGSI ++++L+++I+ + L +F+N + K + + + L +EE Sbjct: 194 MEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 253 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E+K L +GL L Sbjct: 254 LDLSVRSYNCLKRAGINTVQELTNKSEPEMIKVRNLGRKSLEEVKVKLHDLGLGL 308 >gi|145577855|gb|ABP87378.1| RpoA [Vibrio sp. MSSRF10] Length = 286 Score = 254 bits (648), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 132/278 (47%), Positives = 195/278 (70%), Gaps = 8/278 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 12 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 71 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D +A V M + V Sbjct: 72 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTDGNAEVAMRIKVQ 131 Query: 151 KGHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVP A+ H E+D PIG + +DA YSP+ K++YTVE+AR Q D DKL + ++T Sbjct: 132 RGRGYVPASARIHTDEDDRPIGRLLVDATYSPVDKIAYTVEAARVEQRTDLDKLVIDMET 191 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G+I E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 192 NGTIEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 248 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 249 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 286 >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 = 254 bits (648), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 133/310 (42%), Positives = 200/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E +N + + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKNYGIFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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 GVLGTMGLFL 317 L +GL L Sbjct: 299 VKLADLGLGL 308 >gi|145577841|gb|ABP87371.1| RpoA [Vibrio rhizosphaerae] gi|162955840|gb|ABY25295.1| RNA polymerase alpha subunit [Vibrio sp. MSSRF6] Length = 286 Score = 254 bits (648), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 132/278 (47%), Positives = 195/278 (70%), Gaps = 8/278 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 12 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 71 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D +A V M + V Sbjct: 72 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLNDDNAEVAMRIKVQ 131 Query: 151 KGHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVP A+ H E+D PIG + +DA YSP+ K++YTVE+AR Q D DKL + ++T Sbjct: 132 RGRGYVPASARIHTDEDDRPIGRLLVDATYSPVDKIAYTVEAARVEQRTDLDKLVIDMET 191 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G+I E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 192 NGTIEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 248 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 249 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 286 >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 = 254 bits (648), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 132/295 (44%), Positives = 195/295 (66%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVL+E S++KGV ED+ Sbjct: 14 EDKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLYEFSTVKGVREDV 73 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILNIKG+ LKM GD K + I GP VTAGDI +D+E+LN D IC + A Sbjct: 74 AQIILNIKGLALKMYGDEEKTLEIDISGPATVTAGDIIVDSDVEILNKDMYICTVSEGAT 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+ Sbjct: 134 FHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLT 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 M I TDGSI ++++L+++I+ + L +F+N + K + + + L +EE Sbjct: 194 MEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 253 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E+K L +GL L Sbjct: 254 LDLSVRSYNCLKRAGINTVQELTNKSEPEMIKVRNLGRKSLEEVKVKLHDLGLGL 308 >gi|325560586|gb|ADZ31263.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus sp. SL1108] Length = 298 Score = 253 bits (647), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 128/292 (43%), Positives = 194/292 (66%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E N + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDGV+HE S+I GV ED+ Sbjct: 7 EGTNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDGVVHEFSTIDGVLEDV 66 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILN+K + LK+ GD K V I +GP VTA DI +D+EVLNP+ IC + Sbjct: 67 TQIILNVKELALKIEGDEDKTVEIDVQGPATVTAADIVADSDVEVLNPEQYICTVAEGGH 126 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +T+ KG GYV A ++ ++ PIG++ ID++++PI +V+Y VES R G+ D+DKL+ Sbjct: 127 FHVRMTIKKGRGYVAADQNKVDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLT 186 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + + T+GSI+ ++++LA++IL + L +F+N + K + + + L +EE Sbjct: 187 LDVWTNGSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEE 246 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 L+LSVRS NCL+ I + +L +TEADM+++ N GRKSL E+K L +G Sbjct: 247 LDLSVRSYNCLKRAGINTVQELTNKTEADMMKVRNLGRKSLEEVKNKLSDLG 298 >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 = 253 bits (647), Expect = 2e-65, Method: Compositional matrix adjust. 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-IETVEVS-EDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 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|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 = 253 bits (647), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 130/288 (45%), Positives = 192/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IIL+I Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTTIILHI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +G G VTA DI +DIE+LNPD I L +A R+ LT Sbjct: 83 KKLALKIYSDEEKTLEIDVQGEGTVTAADITHDSDIEILNPDLHIATLGENASFRVRLTA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY PA ++ ++ PIG+I ID++++P+ ++SY VE+ R GQV +YDKL++ + TDG Sbjct: 143 QRGRGYTPADSNKRDDQPIGVIPIDSIFTPVSRLSYQVENTRVGQVANYDKLTLDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 S ++++AL S+IL + L +F+ + + + + + L +EEL+LSVRS Sbjct: 203 STGPKEAIALGSKILTEHLNIFVGLTDEAQHAEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +TE DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLEELGLGL 310 >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 = 253 bits (646), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 134/303 (44%), Positives = 201/303 (66%), Gaps = 4/303 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 IV E+E + EPL RG+ TLGN+LRR+++SSL G A+T+V+IDGVLHE S+I G Sbjct: 11 IVEKSEDETYGKFVVEPLERGYGTTLGNSLRRIMLSSLPGVAVTSVKIDGVLHEFSTIPG 70 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +I+LN+KG+ ++ D K V I G G +TAGDI T D+E+LNPD I L Sbjct: 71 VREDVVEILLNMKGLAAEIFSDEPKTVRIEAEGEGEITAGDIITDADVEILNPDMHIATL 130 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 A + ME+ + KG GYV + ++ PIG + +D+++SPI+KV++ VE+ R GQ+ D Sbjct: 131 AKGATLNMEMRLEKGRGYVASDKNKYPGMPIGTLPVDSIFSPIRKVNFLVENTRVGQITD 190 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL++ + TDG+ T E++++L++++L + L +FI+ + V +I V+ + Sbjct: 191 FDKLTLEVWTDGTTTPEEALSLSAKVLNEHLNLFIDLTDHANSV--EIMVEKEENEKERI 248 Query: 258 KK--VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 ++ +EELELSVRS+NCLR NI + L Q+TE DM+++ N GRKSL EIK L +GL Sbjct: 249 REMSIEELELSVRSSNCLRRANIDTVEKLTQKTEEDMIKVRNLGRKSLNEIKHKLAEIGL 308 Query: 316 FLG 318 L Sbjct: 309 SLS 311 >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 = 253 bits (646), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 130/299 (43%), Positives = 202/299 (67%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E+ N + EPL RG+ TLGNALRR+L+SSL G A + V+IDGVLHE S+++GV ED Sbjct: 15 SEDGNYGKFVVEPLERGYGTTLGNALRRILLSSLPGVAASHVKIDGVLHEFSTVRGVKED 74 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 ++++ILNIK + LKM+GD K + I +GPG V AGDI+T D+E++N + I LD ++ Sbjct: 75 VSELILNIKELALKMNGDGTKTIYIDAQGPGEVVAGDIKTDGDVEIINGELHIATLDENS 134 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ME+TV+ G GYV + ++ E+ PIG I +D++Y+PIK+V++ VE+ R GQ+ DYDKL Sbjct: 135 RLYMEITVNGGRGYVSQRRNKFEDMPIGTIPVDSIYTPIKRVNFNVENTRVGQITDYDKL 194 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 S+ + T+G+I +++V+L+++IL + +F+ + V+ + + L +E Sbjct: 195 SLEVWTNGTILPDEAVSLSAKILIEHFKLFMTLTDHANNVEIMVEKEEDKKEKVLEMAIE 254 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 EL+LSVRS NCL+ I + +L +RT DM+++ N G+KSL E++ L T+GL L N Sbjct: 255 ELDLSVRSYNCLKRAGINTVQELTERTMDDMMKVRNLGKKSLEEVEQKLDTLGLSLKQN 313 >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 = 253 bits (646), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 128/280 (45%), Positives = 193/280 (68%), Gaps = 8/280 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 11 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 70 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D A + M + V Sbjct: 71 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKVE 130 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 131 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMET 190 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 191 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 247 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK Sbjct: 248 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIK 287 >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 = 253 bits (646), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 145/314 (46%), Positives = 204/314 (64%), Gaps = 8/314 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I I +E +N ++ EPL RG+ TLGN+LRR L+SSL GAA+T++QID Sbjct: 6 EFEKPN-IHKI---EETKNFGEVVVEPLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDD 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|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 = 253 bits (646), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 139/310 (44%), Positives = 205/310 (66%), Gaps = 6/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E +N + EPL RG+ TLGN+LRRVL++SL GAAIT +QIDG Sbjct: 3 EFEKPN----IHKVEETDNYGKFVVEPLERGYGTTLGNSLRRVLIASLPGAAITTMQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++KGV ED+T IILN+K ++LK++ + K + + +GP VTAGDIQ +++ V Sbjct: 59 VLHEFSTVKGVTEDVTQIILNLKKVSLKINSEDQKDLELDVKGPAEVTAGDIQGDSEVSV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSY 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 IKGVLGTMGL 315 IK L +G+ Sbjct: 299 IKLKLNDLGV 308 >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 = 253 bits (646), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 136/301 (45%), Positives = 201/301 (66%), Gaps = 2/301 (0%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ T+GNALRR L+SSL GAA+TAV+IDGVLHE S+I GV ED+ +IILN+K Sbjct: 24 VIEPLERGYGITVGNALRRTLLSSLPGAAVTAVKIDGVLHEFSTIPGVLEDVPEIILNLK 83 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 G+ +KMS K + I +G V A DI+ DIE+ NPDH I L+ DA + ME+TV+ Sbjct: 84 GLAIKMSSPGPKVMYIEAQGECEVKAKDIKADADIEICNPDHHIATLNQDARLFMEITVN 143 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 +G GYV A+ ++ N PIG+I +D++Y+P+ KV+Y VE+ R GQV DYDKL+M I T+G+ Sbjct: 144 QGKGYVLAERNKQPNQPIGVIPVDSIYTPVVKVNYKVENTRVGQVTDYDKLTMEIWTNGT 203 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 I ++++ +A++IL + +F + +++ + + N L +EELELSVRS Sbjct: 204 IRPDEALTVAAKILIEHFNLFTDLSNIPTKIETVVKQEPPKRNKLLDMTIEELELSVRSY 263 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 NCL+ I + DL+ +TE +M+++ N G+KSL E+ L ++GL L + D P+ E Sbjct: 264 NCLKRAGINTVEDLVNKTEEEMMKVRNLGKKSLEEVIQKLHSLGLSLKKS--DSTPKEEE 321 Query: 331 E 331 E Sbjct: 322 E 322 >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 = 253 bits (645), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 129/288 (44%), Positives = 192/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IIL+I Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTTIILHI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +G G VTA DI +D+E+LNPD I L +A R+ LT Sbjct: 83 KKLALKIYSDEEKTLEIDVQGEGTVTAADITHDSDVEILNPDLHIATLGENASFRVRLTA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY PA ++ ++ PIG+I ID++++P+ ++SY VE+ R GQV +YDKL++ + TDG Sbjct: 143 QRGRGYTPADSNKRDDQPIGVIPIDSIFTPVSRLSYQVENTRVGQVANYDKLTLDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 S ++++AL S+IL + L +F+ + + + + + L +EEL+LSVRS Sbjct: 203 STGPKEAIALGSKILTEHLNIFVGLTDEAQHAEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +TE DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLEELGLGL 310 >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 = 253 bits (645), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 137/295 (46%), Positives = 190/295 (64%), Gaps = 2/295 (0%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E +N + EPL RG+ TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+GV ED+ Sbjct: 14 ENDNYGRFVIEPLERGYGTTLGNSLRRILLSSLPGAAITSVQIDNVLHEFSTIEGVVEDV 73 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILN+K ++LK+ D K + I GP VTAGDI D+ VLNPD IC + Sbjct: 74 TQIILNLKKVSLKIESDDEKTLDINVVGPANVTAGDIMGDGDVTVLNPDSPICTVAEGTT 133 Query: 143 VRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 LT G GY A + R + PIG++ ID++Y+PI++V+Y VE R GQ DYDK Sbjct: 134 FHAVLTADTGRGYTSADENKARKADMPIGVLPIDSIYTPIERVNYQVEKTRVGQRDDYDK 193 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L++ I TDGSIT ++ +L+++IL + L +F+N + KE + + + L + Sbjct: 194 LTLDIWTDGSITPSEATSLSAKILTEHLAIFVNLNDQAKETEIMVEKEETHKEKMLEMTI 253 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 EEL+LSVRS NCL+ I + +L RTEA M+++ N GRKSLVEI+ L ++GL Sbjct: 254 EELDLSVRSYNCLKRAGINSVQELTDRTEAQMMKVRNLGRKSLVEIQEKLNSLGL 308 >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 = 253 bits (645), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 128/288 (44%), Positives = 195/288 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDGVLHE +++ GV ED+T+IILN+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDGVLHEFATVPGVMEDVTEIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K ++LK+ D K + I G GVVTAGDI+ +D+E+LN D I L+ + + M + Sbjct: 83 KALSLKIHSDEEKILEIDAEGEGVVTAGDIRADSDVEILNTDLHIATLEPGSRLHMRIYA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYV A ++ ++ PIG+I +D++Y+PI +V+Y VE+ R GQV +YDKL++ + TDG Sbjct: 143 GRGRGYVQADRNKRDDQPIGVIPVDSIYTPITRVNYVVENTRVGQVTNYDKLTLEVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI E++V+L ++IL + L +F+ + K+ + + + L +EEL+LSVRS Sbjct: 203 SIRPEEAVSLGAKILTEHLFLFVGLTDEAKDAEIMVEKEEDKKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +TE DM+++ N GRKSL E++ L +GL L Sbjct: 263 YNCLKRAGINTVQELTTKTEEDMMKVRNLGRKSLEEVQEKLQELGLGL 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 = 253 bits (645), Expect = 4e-65, Method: Compositional matrix adjust. Identities = 134/296 (45%), Positives = 196/296 (66%), Gaps = 2/296 (0%) Query: 24 EENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +ENR + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+I GV ED Sbjct: 13 DENRDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIPGVRED 72 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILNIKG+ LK+ + K + I GP VTAGDI +D+E+LN D VIC++ A Sbjct: 73 VTQIILNIKGLALKLYAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDLVICSVAEGA 132 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 LTV G GYV A ++ E+ PIG++ +D++Y+P+ +V+Y VE+ R G+ D+DKL Sbjct: 133 TFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVLRVNYQVENTRVGRRDDFDKL 192 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 +M I TDGSI +++++LA++I+ + L +F+N + K + + + L +E Sbjct: 193 TMEIWTDGSIIPQEALSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIE 252 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 EL+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E+K L +GL L Sbjct: 253 ELDLSVRSYNCLKRAGINTVQELTNKSEPEMIKVRNLGRKSLEEVKLKLHDLGLGL 308 >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 = 253 bits (645), Expect = 4e-65, Method: Compositional matrix adjust. Identities = 145/314 (46%), Positives = 204/314 (64%), Gaps = 8/314 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I I +E +N ++ EPL RG+ TLGN+LRR L+SSL GAA+T++QID Sbjct: 6 EFEKPN-IHKI---EETKNFGEVVVEPLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDD 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|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 = 253 bits (645), Expect = 4e-65, Method: Compositional matrix adjust. Identities = 141/332 (42%), Positives = 213/332 (64%), Gaps = 18/332 (5%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 N E + PN I + + TL EPL RGF HTLGNALRR+L+SSL GAA+ + Sbjct: 4 NATEFLTPNAINVDTVNETIAKVTL---EPLERGFGHTLGNALRRILLSSLPGAAVIEAE 60 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 IDGV HE S+++G+ ED+ D++LN+KG+ + + + +T+ K+GPG +TA DI ++ Sbjct: 61 IDGVDHEYSTLEGLQEDVLDLLLNLKGLAITLHDQNEVFLTLDKQGPGTITAADITLPHN 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKK 182 ++++NP+ V+ L ++M L V G GY PA R + D IG + +DA +SP+ + Sbjct: 121 VDIINPELVLGTLSDRGHLKMRLRVVMGRGYEPANQRREDGDTKAIGRLKLDASFSPVLR 180 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-----EP 237 V+Y VE+AR Q D D+L + ++T+G+I E+++ A+ ILQ Q+ +F++ E EP Sbjct: 181 VAYQVENARVEQRTDLDRLIIELETNGTIDPEEAIRKAATILQQQISIFVDLEAEEAPEP 240 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 KE +E +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QR+E ++L+ N Sbjct: 241 VKEKEE--------VDPVLLRPVDDLELTVRSANCLKAENIYYIGDLVQRSETELLKTPN 292 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + L LGM L +WPP + Sbjct: 293 LGKKSLTEIKDVLASKDLELGMRLDNWPPADL 324 >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 = 253 bits (645), Expect = 4e-65, Method: Compositional matrix adjust. Identities = 133/298 (44%), Positives = 197/298 (66%), Gaps = 2/298 (0%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E+ N + EPL RG+ TLGN+LRR+L+SSL GAAIT VQIDGVLHE S+I GV ED Sbjct: 13 EEDNNYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAITDVQIDGVLHEFSTIPGVLED 72 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILN+K + L M + + + I GP VTAGDIQ+ +D+EVLNP+ IC + A Sbjct: 73 VTLIILNLKKVALSMESEDSQALEINVTGPMEVTAGDIQSNSDVEVLNPEQYICTVADGA 132 Query: 142 VVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + + + +KG GYV A ++ D PIG++ ID++Y+PI++V+Y VE R GQ DYD Sbjct: 133 ELHVRMNANKGRGYVSANDNKALADDMPIGVLPIDSIYTPIERVNYQVEKTRVGQKNDYD 192 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL++ + T+GSIT ++++L+++IL + L +F++ + K + + + L Sbjct: 193 KLTLDVWTNGSITPSEAISLSAKILTEHLALFVDLTDEAKNAEIMVEKEETHKEKMLEMT 252 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+LSVRS NCL+ I + +L ++EADM+++ N GRKSL E+K L +GL L Sbjct: 253 IEELDLSVRSYNCLKRAGINTVQELTNKSEADMMKVRNLGRKSLDEVKAKLADLGLSL 310 >gi|311029077|ref|ZP_07707167.1| DNA-directed RNA polymerase subunit alpha [Bacillus sp. m3-13] Length = 314 Score = 253 bits (645), Expect = 4e-65, Method: Compositional matrix adjust. Identities = 132/295 (44%), Positives = 195/295 (66%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 ++ N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+ Sbjct: 16 DDANYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T +ILN+K + LK+ D K + I +G G VTA DI +D+EVLNPD I L DA Sbjct: 76 TTVILNVKKLALKIYSDDEKTLEIDVQGEGAVTAADITHDSDVEVLNPDLHIATLAKDAH 135 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 +R+ T +G GYV A ++ E+ PIG+I ID++++P+ +VSY VE+ R GQV +YDKL+ Sbjct: 136 LRIRFTAKRGRGYVTADGNKREDQPIGVIPIDSIFTPVSRVSYYVENTRVGQVSNYDKLT 195 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + + TDGS +++VAL ++IL + L +F+ + + + + + L +EE Sbjct: 196 LDVWTDGSNGPQEAVALGAKILTEHLNIFVGLTDEAQNAEIMVEKEEDQKEKVLEMTIEE 255 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K L +GL L Sbjct: 256 LDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKHKLEELGLGL 310 >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 = 252 bits (644), Expect = 4e-65, Method: Compositional matrix adjust. Identities = 137/295 (46%), Positives = 189/295 (64%), Gaps = 2/295 (0%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E +N + EPL RG+ TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+GV ED+ Sbjct: 14 ENDNYGRFVIEPLERGYGTTLGNSLRRILLSSLPGAAITSVQIDNVLHEFSTIEGVVEDV 73 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILN+K ++LK+ D K + I GP VTAGDI D+ VLNPD IC + Sbjct: 74 TQIILNLKKVSLKIESDDEKTLDINVVGPANVTAGDIMGDGDVTVLNPDSPICTVAEGTT 133 Query: 143 VRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 LT G GY A + R + PIG++ ID++Y+PI++V+Y VE R GQ DYDK Sbjct: 134 FHAVLTADTGRGYTSADENKARKADMPIGVLPIDSIYTPIERVNYQVEKTRVGQRDDYDK 193 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L++ I TDGSIT ++ +L+++IL + L +F+N + KE + + + L + Sbjct: 194 LTLDIWTDGSITPSEATSLSAKILTEHLAIFVNLNDQAKETEIMVEKEETHKEKMLEMTI 253 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 EEL+LSVRS NCL+ I + +L RTEA M+++ N GRKSLVEI+ L +GL Sbjct: 254 EELDLSVRSYNCLKRAGINSVQELTDRTEAQMMKVRNLGRKSLVEIQEKLNALGL 308 >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 = 252 bits (644), Expect = 5e-65, Method: Compositional matrix adjust. Identities = 143/332 (43%), Positives = 214/332 (64%), Gaps = 18/332 (5%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 N E + P+ I + + TL EPL RGF HTLGNALRR+L+SSL GAA+ + Sbjct: 3 NATEFLTPSAINVDTVNETTAKVTL---EPLERGFGHTLGNALRRILLSSLSGAAVVEAE 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 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP--IGLITIDALYSPIKK 182 +E+ NPD V+ L ++M L V G GY PA R + + IG + +DA +SPI + Sbjct: 120 VEIANPDLVLGTLSERGHLKMRLHVVTGRGYEPANQRREDANSKIIGRLKLDASFSPIIR 179 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-----EP 237 V+Y VE+AR Q D DKL + ++T+G+I E+++ A+ ILQ Q+ +F++ E EP Sbjct: 180 VAYDVENARVEQRTDLDKLIIELETNGTIDPEEAIRKAATILQQQIAIFVDLEAEEAPEP 239 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 KE KE+I +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QR+E ++L+ N Sbjct: 240 IKE-KEEI-------DPVLLRPVDDLELTVRSANCLKAENIYYIGDLVQRSETELLKTPN 291 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + L LGM L +WPP + Sbjct: 292 LGKKSLTEIKDVLASKNLELGMRLDNWPPSDL 323 >gi|208659518|gb|ACI31189.1| RpoA [Vibrio breoganii] Length = 302 Score = 252 bits (644), Expect = 5e-65, Method: Compositional matrix adjust. Identities = 130/284 (45%), Positives = 194/284 (68%), Gaps = 8/284 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC++ D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHITDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + K + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEK---EEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 RS NCL+ E I Y+GD +QRTE ++L+ N G+KSL EIK VL Sbjct: 259 RSANCLKAEAIHYIGDXVQRTEVELLKTPNLGKKSLTEIKDVLA 302 >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 = 252 bits (644), Expect = 5e-65, Method: Compositional matrix adjust. Identities = 128/292 (43%), Positives = 199/292 (68%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDGVLHE SSI GV ED+T+II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDGVLHEFSSIPGVKEDVTEIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K S ++++ T + G GVVTA DI +DIE+LNPD VI L D+ M Sbjct: 83 KSLAIKNSSETNEPKTAYIEFEGEGVVTAADINADSDIEILNPDQVIATLSGGADSKFYM 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GY+ A +++++ PIG+I +D++Y+P+++V+ +VE+ R GQV DYDKL++ + Sbjct: 143 ELTITKGRGYISADKNKSDDLPIGVIAVDSIYTPVERVNMSVENTRVGQVTDYDKLTLDV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E + + + + L ++ELEL Sbjct: 203 FTNGTLAPDEAVSLAAKVLSEHLNLFIDLSENARTAEVMVEKEDNEKEKVLEMNIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 263 SVRSYNCLKRAGINTVEELCNRTPEDMMKVRNLGRKSLEEVLAKLKELGLQL 314 >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 = 252 bits (643), Expect = 6e-65, Method: Compositional matrix adjust. Identities = 132/310 (42%), Positives = 200/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKDYGIFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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 GVLGTMGLFL 317 L +GL L Sbjct: 299 VKLADLGLGL 308 >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 = 252 bits (643), Expect = 6e-65, Method: Compositional matrix adjust. Identities = 132/288 (45%), Positives = 197/288 (68%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T+V+IDGVLHE S+I GV ED+TDIILN+ Sbjct: 23 FVVEPLERGYGITLGNSLRRILLSSLPGAAVTSVKIDGVLHEFSTIPGVVEDVTDIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ GD K + + GVV A DI D+E++NPD I L +A + ME+TV Sbjct: 83 KNLCLKIYGDEEKVLRVEASTEGVVKAKDIIHDADVEIMNPDLTIATLAENARLYMEITV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GYV A+ ++ + IG+I +D++++P++KV+YTVE+ R GQ+ DYDKL++ + TDG Sbjct: 143 AKGRGYVSAERNKKGDHIIGVIPVDSVFTPVRKVNYTVENTRVGQITDYDKLTLEVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI +++ +L+++IL + L +FI E +V+ + + + L +EEL+LSVRS Sbjct: 203 SIRPDEATSLSAKILSEHLRLFIGLTETVSDVEIMVEKEEEHKDRVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +LIQR E DM+++ N G+KSL E+ L +GL L Sbjct: 263 YNCLKRAGINTVEELIQRNEEDMMKVRNLGKKSLEEVINKLHELGLSL 310 >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 = 252 bits (643), Expect = 7e-65, Method: Compositional matrix adjust. Identities = 129/292 (44%), Positives = 202/292 (69%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDGVLHE SSI GV ED+T+II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDGVLHEFSSIPGVKEDVTEIIMNI 82 Query: 90 KGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + ++ + ++ K I G GVVTA DIQ +DIE+LNP+ I +L+ D+ + M Sbjct: 83 KNLAIRNNSSTNEPKVAYIEFEGEGVVTAADIQVDSDIEILNPELEIAHLNGGADSKLYM 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++ G GYV A+ ++ E+ PIG++ +D++Y+P+++V+ TVE+ R GQV DYDKL++ + Sbjct: 143 ELTITNGRGYVGAEKNKNEDTPIGVLAVDSIYTPVERVNLTVENTRVGQVTDYDKLTLDV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E ++V + ++ L ++ELEL Sbjct: 203 FTNGTLEPDEAVSLAAKVLSEHLNLFIDLSEAAQQVDVMVEKENDAQEKVLEMNIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +LI RT DM+++ N GRKSL E+ L +GL L Sbjct: 263 SVRSYNCLKRAGINTVAELINRTPEDMMKVRNLGRKSLEEVLAKLKELGLEL 314 >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 = 252 bits (643), Expect = 7e-65, Method: Compositional matrix adjust. Identities = 131/292 (44%), Positives = 199/292 (68%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAAI+ ++IDGVLHE SSI GV ED+T+II+N+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAISQIKIDGVLHEFSSIPGVKEDVTEIIMNL 82 Query: 90 KGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K S D K I G GVVTA DIQ +DIE++NP+ VI L+ D+ + M Sbjct: 83 KTLAIKNSSETDEPKTAYIEFEGEGVVTAADIQADSDIEIMNPETVIATLNGGADSKLYM 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GYV + ++TE+ PIG+I ID++Y+P+++V+ TV++ R GQ+ DYDKL++ + Sbjct: 143 ELTITKGRGYVGSDKNKTEDMPIGVIPIDSIYTPVERVNLTVQNTRVGQITDYDKLTLDV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E + + I + L ++ELEL Sbjct: 203 YTNGTLAPDEAVSLAAKVLNEHLKLFIDLSEVAQSAEVMIEKEDDEKEKVLEMSIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 263 SVRSYNCLKRAGINTVEELTNRTSEDMMKVRNLGRKSLEEVLAKLKELGLEL 314 >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 = 251 bits (642), Expect = 9e-65, Method: Compositional matrix adjust. 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|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 = 251 bits (642), Expect = 9e-65, Method: Compositional matrix adjust. Identities = 133/293 (45%), Positives = 196/293 (66%), Gaps = 4/293 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAAI+ V+IDGVLHE SSI GV ED+T+II+N+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAISHVKIDGVLHEFSSIPGVKEDVTEIIMNL 82 Query: 90 KGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K S D K I G GVVTA DIQ DIE++NPD VI L+ D+ + M Sbjct: 83 KSLAIKNSSETDEPKTAYIEFEGEGVVTAADIQVDPDIEIMNPDAVIATLNGGADSKLYM 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GY+ A ++ E PIG+I ID++Y+P+++V+ TVE+ R GQ+ DYDKL++ + Sbjct: 143 ELTITKGRGYISADKNKNEELPIGVIPIDSIYTPVERVNLTVENTRVGQITDYDKLTLDV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E + + I + L ++ELEL Sbjct: 203 YTNGTLLPDEAVSLAAKVLNEHLKLFIDLSEVAQAAEVMIEKEDDEKEKVLEMSIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 SVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 263 SVRSYNCLKRAGINTVEELTNRTPEDMMKVRNLGRKSLEEVLAKLKELGLELS 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 = 251 bits (641), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 134/321 (41%), Positives = 201/321 (62%), Gaps = 9/321 (2%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 N ++ + P IE + NR+L+ +P GF HTLGNALRRVL+SS+ G A+ + Sbjct: 4 NVKKFLTPQTIEVQTIAP---NRSLITLQPFEAGFGHTLGNALRRVLLSSMPGCAVVEAK 60 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 I+GVLHE SS++GV ED+ DI+LN+KG+ +M G + + K G V AGDI +D Sbjct: 61 IEGVLHEYSSLEGVQEDIIDILLNLKGVAFQMHGKEEVTLELIKNTVGPVCAGDITLPSD 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN---DPIGLITIDALYSPIK 181 IEV NPD VI +L +M L V++G GY PA + + +G + +DA ++PI Sbjct: 121 IEVKNPDFVIAHLTKPKEFKMTLKVARGRGYQPASLRKADERFVSEVGALQLDARFNPIL 180 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 + +Y+VE+AR Q D DKL + ++T+G+I E+++ A+ I+Q+QL F+ E K E Sbjct: 181 RATYSVENARVEQRTDLDKLVIDLETNGTIDPEEAIRRAATIIQEQLRTFV---ELKHET 237 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +E++ + + NP LL V+ELEL+VR+ NCL+ E+I + DL+ +TE+++L N G+ Sbjct: 238 EEEVVDEFVDINPMLLLPVDELELTVRAANCLKAEHIYRIADLVTKTESELLSTPNLGKV 297 Query: 302 SLVEIKGVLGTMGLFLGMNLP 322 SL EIK L GL LGM +P Sbjct: 298 SLWEIKTALQKRGLSLGMEVP 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 = 251 bits (641), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 131/292 (44%), Positives = 194/292 (66%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDGVLHE SSI GV ED+T+II+N+ Sbjct: 23 FVVEPLERGYGITLGNSLRRIMLSSLPGAAVSQVKIDGVLHEFSSIPGVKEDVTEIIMNL 82 Query: 90 KGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K DS++ T + G GVVT DIQ D+E+LNPD VI L+ D Sbjct: 83 KNLAIKNVSDSNEPKTAYIEFEGEGVVTGADIQVDQDLEILNPDLVIATLNGGADCKFNA 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GYV A +T++ PIG+I +D++Y+P+++V+ VE+ R GQV DYDKL++ I Sbjct: 143 ELTITKGRGYVSADKGKTDDMPIGMIAVDSIYTPVERVNMAVENTRVGQVTDYDKLTLDI 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E K + I + L ++ELEL Sbjct: 203 YTNGTLDADEAVSLAAKVLSEHLSLFIDLSESAKTAEVMIEKEDNEKEKVLEMNIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 263 SVRSYNCLKRAGINTVEELCNRTSEDMMKVRNLGRKSLEEVLAKLKELGLQL 314 >gi|295103950|emb|CBL01494.1| DNA-directed RNA polymerase subunit alpha [Faecalibacterium prausnitzii SL3/3] Length = 318 Score = 251 bits (641), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 131/291 (45%), Positives = 195/291 (67%), Gaps = 3/291 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +AEPL RGF TLGN+LRRVL+SSL G A+T+V+IDGV+HE S+I+GV ED+T+I+LN+ Sbjct: 23 FVAEPLERGFGITLGNSLRRVLLSSLPGVAVTSVKIDGVVHEFSTIEGVKEDVTEIVLNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KGI K+ D K V + GP VTA +I+ +DIE+LNP+ I L A + MELT Sbjct: 83 KGIAAKLYTDGPKTVRVEAVGPCEVTADNIKQGDDIEILNPEWHIATLGEGAKLVMELTF 142 Query: 150 SKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 KG GYVPA+ ++ E + I + +D++Y+P+ KV+Y VES R GQ +DYDKL++ + Sbjct: 143 DKGRGYVPAERNKQAIIEKNDINTLPVDSIYTPVLKVNYNVESTRVGQAIDYDKLTIEVW 202 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 TDG+I +++V+LA+R+L + L +F+N + + + + AL +EEL+LS Sbjct: 203 TDGTINAQEAVSLAARVLTEHLNLFVNLSDEAAGAEIMVEKTNDDKEKALEMTIEELDLS 262 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 VRS NCL+ I + DL+ ++E +M+++ N GRKSL E+ L ++G L Sbjct: 263 VRSFNCLKRAGINTVEDLVSKSEDEMMKVRNLGRKSLEEVMAKLDSLGFKL 313 >gi|302023188|ref|ZP_07248399.1| DNA-directed RNA polymerase subunit alpha [Streptococcus suis 05HAS68] Length = 300 Score = 251 bits (641), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 129/280 (46%), Positives = 194/280 (69%), Gaps = 4/280 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL++SL GAA+T+++IDGVLHE ++ GV ED+ IILNI Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNI 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KGI +K + K++ + GP VTAGDI T +DIE++NPDH + + A + LTV Sbjct: 81 KGIAVKSYVEDEKKIELDVVGPAEVTAGDILTDSDIEIVNPDHYLFTIADGATFKAVLTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + G GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I+T+G Sbjct: 141 NSGRGYVPAEDNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTLEINTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK--EVKEDINVKSLPFNPALLKKVEELELSV 267 +I ED++ L++RIL + LG+F + E K EV ++ V S + L + +EEL+LSV Sbjct: 201 TIVPEDALGLSARILMEHLGLFTDLTEVAKSAEVMKEAEVAS--DDRMLDRTIEELDLSV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 RS NCL+ I + DL ++TE +M+++ N GRKSL E+K Sbjct: 259 RSYNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVK 298 >gi|157493247|gb|ABV57989.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 286 Score = 251 bits (641), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 127/279 (45%), Positives = 192/279 (68%), Gaps = 8/279 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 11 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 70 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D A + M + V Sbjct: 71 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKVE 130 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 131 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMET 190 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 191 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 247 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EI Sbjct: 248 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEI 286 >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 = 251 bits (641), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 127/288 (44%), Positives = 196/288 (68%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGNALRR+L+SSL G A+ +++I+ VLHE S++KGV ED+T+IILNI Sbjct: 23 FVVEPLERGYGITLGNALRRILLSSLPGVAVNSIKIENVLHEFSTVKGVKEDVTEIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LKM+G+ K + I +GPGVVTA DI+T +D+E++N D I LD D + +E+TV Sbjct: 83 KLLALKMTGEGPKTIYIDAKGPGVVTAADIKTDSDVEIINKDLHIATLDDDGKLYIEMTV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYV ++ E PIG I ID++Y+P+K+V++TV + R GQ+ DYDKL++ I T+G Sbjct: 143 DRGRGYVSQNRNKVEGMPIGTIPIDSIYTPVKRVNFTVANTRVGQITDYDKLTLEIWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I +D+++L+++IL + +F+ + +V+ + + L +EEL+LSVRS Sbjct: 203 TIMPDDAISLSAKILIEHFKLFMTLTDHADDVEIMVEKEEDKKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +RT DM+++ N GRKSL E++ L + L L Sbjct: 263 YNCLKRAGINTVQELTERTVEDMMKVRNLGRKSLEEVEQKLEALELGL 310 >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 = 251 bits (641), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 129/288 (44%), Positives = 191/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILNI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTTIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I + G VTA DI +DIE+LNPD I L +A R+ LT Sbjct: 83 KKLALKIYSEEEKTLEIDVQDEGTVTAADITHDSDIEILNPDLHIATLGKNASFRVRLTA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY PA ++ ++ PIG+I ID++Y+P+ +V+Y VE+ R GQ+ +YDKL++ + TDG Sbjct: 143 QRGRGYNPADANKRDDQPIGVIPIDSIYTPVSRVTYQVENTRVGQITNYDKLTLDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 S ++++AL S+IL + L +F+ + + + + + L +EEL+LSVRS Sbjct: 203 STGPKEAIALGSKILTEHLNIFVGLTDEAQHAEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +TE DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLEELGLGL 310 >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 = 251 bits (641), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 131/291 (45%), Positives = 195/291 (67%), Gaps = 3/291 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +AEPL RGF TLGN+LRRVL+SSL G A+T+V+IDGV+HE S+I+GV ED+T+I+LN+ Sbjct: 37 FVAEPLERGFGITLGNSLRRVLLSSLPGVAVTSVKIDGVVHEFSTIEGVKEDVTEIVLNL 96 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KGI K+ D K V + GP VTA +I+ +DIE+LNP+ I L A + MELT Sbjct: 97 KGIAAKLYTDGPKTVRVEAVGPCEVTADNIKQGDDIEILNPEWHIATLGEGAKLVMELTF 156 Query: 150 SKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 KG GYVPA+ ++ E + I + +D++Y+P+ KV+Y VES R GQ +DYDKL++ + Sbjct: 157 DKGRGYVPAERNKQAIIEKNDINTLPVDSIYTPVLKVNYNVESTRVGQAIDYDKLTIEVW 216 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 TDG+I +++V+LA+R+L + L +F+N + + + + AL +EEL+LS Sbjct: 217 TDGTINAQEAVSLAARVLTEHLNLFVNLSDEAAGAEIMVEKTNDDKEKALEMTIEELDLS 276 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 VRS NCL+ I + DL+ ++E +M+++ N GRKSL E+ L ++G L Sbjct: 277 VRSFNCLKRAGINTVEDLVSKSEDEMMKVRNLGRKSLEEVMAKLDSLGFKL 327 >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 = 251 bits (641), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 133/280 (47%), Positives = 186/280 (66%), 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 VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY--VPAKHHRTENDPIGLI 171 VTA D + +D+E++NP+ VIC+L + + ME+ V +G GY V + 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+ K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE + Sbjct: 181 ADLEGTPIEVEEE---KAPPIDPVLLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETE 237 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +L+ N GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 238 LLKTPNLGRKSLNEIKEVLASKGLTLGSKLESWPPAGLEK 277 >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 = 251 bits (640), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 130/292 (44%), Positives = 198/292 (67%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDGVLHE SSI GV ED+T+II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDGVLHEFSSIPGVKEDVTEIIMNI 82 Query: 90 KGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + ++ + ++ K I G GVVTA DIQ +DI++LNPD VI NL+ D + M Sbjct: 83 KNLAIRNNSSTNEPKVAYIEFEGEGVVTAADIQVDSDIQILNPDLVIANLNGGPDCKLYM 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++ G GYV A ++TE+ PIG+I ID++Y+P+++V+ +E+ R GQ+ DYDKL++ + Sbjct: 143 ELTITNGRGYVSADKNKTEDIPIGVIAIDSIYTPVERVNLLIENTRVGQITDYDKLTLDV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E ++ I + L ++ELEL Sbjct: 203 YTNGTLEPDEAVSLAAKVLSEHLSLFIDLSEAAQQADVMIEKEDNAKEKVLEMNIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 263 SVRSYNCLKRAGINTVEELTNRTPEDMMKVRNLGRKSLEEVLAKLKELGLQL 314 >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 = 251 bits (640), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 131/309 (42%), Positives = 192/309 (62%), Gaps = 6/309 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E +AEP G+ HT+GN+LRRVL+SSL GAAI++++IDG +HE +++ GV ED+TD Sbjct: 14 ETYAKFVAEPFETGYGHTIGNSLRRVLLSSLEGAAISSIKIDGAMHEFTTVDGVVEDVTD 73 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 I+LN+K + K + + + G VTA DIQ +IE++NP IC LD Sbjct: 74 IVLNLKKVLFKAHNREPQTLLLSANKDGEVTAADIQVNQNIELVNPKQHICTLDKKKKFE 133 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +EL V G G+ P ++ N IG+I ID+L+SP+ +V Y VESAR GQ DYD+L + Sbjct: 134 IELEVKVGRGFCPGDENKKPNQAIGVIAIDSLFSPVTRVRYAVESARVGQRTDYDRLILE 193 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK---SLPFNPALLKKVE 261 + TDG I+ +D++ AS ILQ L +F+ +++ E +E ++ + L V Sbjct: 194 VWTDGRISPDDALTQASAILQHHLDVFVGYDKNAVEFEEVVDKQDEEKTKLKKLLGMSVN 253 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 E+ELSVR+ NCL NI +G L +TEA+ML+ NFG+KSL EIK L +GL LGM+ Sbjct: 254 EIELSVRAANCLNNANITTVGQLAMKTEAEMLKYRNFGKKSLNEIKEKLTALGLSLGMS- 312 Query: 322 PDWPPESIE 330 + PE+++ Sbjct: 313 --FDPEALD 319 >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 = 251 bits (640), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 130/291 (44%), Positives = 198/291 (68%), Gaps = 3/291 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAA++ V+I+GVLHE SSI GV ED+T+II+NI Sbjct: 23 FVVEPLERGYGITLGNSLRRIMLSSLPGAAVSQVKIEGVLHEFSSIPGVKEDVTEIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVVRME 146 K +++K S D+++ T + G GVV A DIQ DIE++NPD VI L DA + ME Sbjct: 83 KNLSIKNSSDTNEPKTAYIEYSGEGVVRASDIQVDQDIEIMNPDQVIATLSGKDAKLYME 142 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LT++KG GYV + ++ + PIG+I ID++Y+P+++V+ TVE+ R GQV D+DKL++ + Sbjct: 143 LTITKGRGYVSSDKNKGGDLPIGVIAIDSIYTPVERVNVTVENTRVGQVTDFDKLTLDVH 202 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 TDG++ +++V+LA+++L + L +FI+ E K + + + L ++ELELS Sbjct: 203 TDGTLAPDEAVSLAAKVLSEHLSLFIDLSENAKTAEVMVEKEDDEKGKVLEMSIDELELS 262 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 VRS NCL+ I + +L +T DM+++ N GRKSL E+ L +GL L Sbjct: 263 VRSFNCLKRAGINTVQELANKTSDDMMKVRNLGRKSLEEVLAKLDELGLSL 313 >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 = 251 bits (640), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 132/298 (44%), Positives = 197/298 (66%), Gaps = 2/298 (0%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E+ N + EPL RG+ TLGN+LRR+L+SSL GAAIT VQIDGVLHE S+I GV ED Sbjct: 13 EEDNNYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAITDVQIDGVLHEFSTIPGVLED 72 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILN+K + L + + + + I GP VTAGDIQ+ +D+EVLNP+ IC + A Sbjct: 73 VTLIILNLKKVALSIESEDSQALEINVTGPMEVTAGDIQSNSDVEVLNPEQYICTVADGA 132 Query: 142 VVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + + + +KG GYV A ++ D PIG++ ID++Y+PI++V+Y VE R GQ DYD Sbjct: 133 ELHVRMNANKGRGYVSANDNKALADDMPIGVLPIDSIYTPIERVNYQVEKTRVGQKNDYD 192 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL++ + T+GSIT ++++L+++IL + L +F++ + K + + + L Sbjct: 193 KLTLDVWTNGSITPSEAISLSAKILTEHLALFVDLTDEAKNAEIMVEKEETHKEKMLEMT 252 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+LSVRS NCL+ I + +L ++EADM+++ N GRKSL E+K L +GL L Sbjct: 253 IEELDLSVRSYNCLKRAGINTVQELTNKSEADMMKVRNLGRKSLDEVKAKLADLGLSL 310 >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 = 250 bits (639), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 134/300 (44%), Positives = 194/300 (64%), Gaps = 15/300 (5%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 I EP G+ HTLGN+LRR+L+SSL GAAI++V+I+GV+HE ++++GV ED+ DI+LN+K Sbjct: 29 IIEPFESGYGHTLGNSLRRILLSSLEGAAISSVKIEGVMHEFTTMEGVVEDVVDIVLNLK 88 Query: 91 GINLKMSGDSHK--RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 + +KM + RV +FK G VTAGDIQ +E++NP+ +IC LD + MEL Sbjct: 89 KVLIKMPDRQTRVFRVDVFKEG--AVTAGDIQVDPGVEIVNPEQLICTLDKKQRLLMELE 146 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V G G++ ++++ ++ IG+I ID L+SP++ V YTVE+ R GQ DYD+L I TD Sbjct: 147 VKVGRGFLLGEYNKKQDQSIGVIPIDCLFSPVRHVKYTVENTRVGQRTDYDRLIFEIWTD 206 Query: 209 GSITGEDSVALASRILQDQLGMFIN-------FEEPKKEVKEDINVKSLPFNPALLKKVE 261 G I ++++ ++ ILQ L +F+ FE+PK +KE+ N L V Sbjct: 207 GRIGPDEALVQSAAILQHHLDIFVQYGKEPVEFEKPKPPIKEEEN----RLRKILNMSVN 262 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 E+ELSVR+ NCL NI +G L +TEA+ML+ NFG+KSL EIK L ++GL LGM Sbjct: 263 EIELSVRAANCLNNANITTVGQLAMKTEAEMLKYRNFGKKSLNEIKEKLASLGLSLGMKF 322 >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 = 250 bits (639), Expect = 2e-64, Method: Compositional matrix adjust. 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|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 = 250 bits (639), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 126/288 (43%), Positives = 196/288 (68%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SS+ GAA+ +V+I+GVLHE S+I GV ED+T+IILN+ Sbjct: 21 FVCEPLERGYGTTLGNSLRRILLSSIPGAAVRSVKIEGVLHEFSTIPGVVEDVTEIILNL 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K ++LK+ D K + I GPGVVTAGDI+ +D++++NPD I L A + ME+ Sbjct: 81 KRLSLKIHSDEEKTLIIDAVGPGVVTAGDIRADSDVDIMNPDLHIATLTEGARIYMEMRA 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYVPA ++ E IGLI ID+LYSPI +V+++VE+ R GQ+ DYDKL++ + TDG Sbjct: 141 GRGRGYVPAHRNKPEEQEIGLIPIDSLYSPISRVNFSVENTRVGQITDYDKLTLEVWTDG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 S+ +++V++ ++IL + L +F+ + ++ + ++ + L +EEL+LSVRS Sbjct: 201 SVAPDEAVSIGAKILTEHLMLFVGLTDRARDTDLMVEKENAHNDKILDMPIEELDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++E +M+++ N GRKSL E+ L +GL L Sbjct: 261 YNCLKRAGINTVAELCAKSEEEMMKVRNLGRKSLEEVVEKLHALGLSL 308 >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 = 250 bits (639), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 137/310 (44%), Positives = 203/310 (65%), Gaps = 6/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E +N + EPL RG+ TLGN+LRRV+++SL GAAIT++QIDG Sbjct: 3 EFEKPN----IHKVEETDNYGKFVVEPLERGYGTTLGNSLRRVMLASLPGAAITSIQIDG 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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 185 LN D I + A + +++T KG GY A ++T 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 IKGVLGTMGL 315 IK L +G+ Sbjct: 299 IKLKLAELGV 308 >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 = 250 bits (638), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 126/288 (43%), Positives = 195/288 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDGVLHE +++ GV ED+T+IILN+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDGVLHEFATVPGVKEDVTEIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K ++LK+ D K + I G GVVTAGDI+ +D+E+LNPD I L + + M + Sbjct: 83 KALSLKIHSDEEKVLEIDAEGEGVVTAGDIRADSDVEILNPDLHIATLGPGSRLHMRIFA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 ++G GYV ++ ++ PIG+I +D++Y+PI +V+Y VE+ R GQV +YDKL++ + TDG Sbjct: 143 NRGRGYVKQDRNKRDDQPIGVIPVDSIYTPIARVNYGVENTRVGQVTNYDKLTLEVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI E++V+L ++IL + + +F+ + K+ + + + L +EEL+LSVRS Sbjct: 203 SIRPEEAVSLGAKILTEHVMLFVGLTDEAKDAEIMVEKEEDKKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++E DM+++ N GRKSL E++ L +GL L Sbjct: 263 YNCLKRAGINTVQELTTKSEEDMMKVRNLGRKSLEEVQEKLEELGLGL 310 >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 = 250 bits (638), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 137/310 (44%), Positives = 205/310 (66%), Gaps = 6/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E +N + EPL RG+ TLGN+LRRVL++SL G+AIT +QIDG Sbjct: 3 EFEKPN----IHKVEETDNYGKFVVEPLERGYGTTLGNSLRRVLIASLPGSAITTMQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++KGV ED+T IILN+K ++LK++ + K + + +GP VTAGDIQ +++ V Sbjct: 59 VLHEFSTVKGVTEDVTQIILNLKKVSLKINSEDQKDLELDVKGPAKVTAGDIQGDSEVSV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSY 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 IKGVLGTMGL 315 IK L +G+ Sbjct: 299 IKLKLNDLGV 308 >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 = 250 bits (638), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 140/322 (43%), Positives = 208/322 (64%), Gaps = 6/322 (1%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 W+ L P + + + G E+ + E L RG+ TLGNALRRVL+SSL+GAAI +V+I Sbjct: 3 WKSLQMPRSFQKVETG-EDGRYAKFVVEALERGWGITLGNALRRVLLSSLQGAAIVSVKI 61 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 +GV E S+I GV ED+TDIILN+K I +K+ D + + + G G VTA D ++ Sbjct: 62 EGVDKEFSTIPGVKEDVTDIILNLKSIRVKLLSDHDETLHLDMSGDGEVTAKDFMDNPNV 121 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +L PD I L+ +A + M++ +S G GYV A + ++ PIG+I +DA ++P++KV+ Sbjct: 122 TILTPDVHIATLNGNASLSMDVKISCGRGYVVADELKDKDAPIGVIAMDANFNPVQKVAM 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE---EPKKEVK 242 + R GQ DY++L + I TDGSI ED++A A+++L D L +FINFE E +E++ Sbjct: 182 HISDTRVGQKTDYNRLELEITTDGSIDPEDALAYAAKLLVDHLEIFINFEGDLESPEELE 241 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 D + + L +V++LELSVRS+NCLR NI +G+L++ E DML+ NFGRKS Sbjct: 242 MDEERQRIA--NLLRMRVDDLELSVRSSNCLRMANIHTIGELVRNKENDMLKYKNFGRKS 299 Query: 303 LVEIKGVLGTMGLFLGMNLPDW 324 LVE+ VL +MGL GM++ D+ Sbjct: 300 LVELNEVLTSMGLSFGMDVDDY 321 >gi|260656836|gb|ACX47808.1| RNA polymerase alpha-subunit [Vibrio casei] Length = 295 Score = 250 bits (638), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 131/282 (46%), Positives = 194/282 (68%), Gaps = 8/282 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 17 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 76 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 + ++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + V Sbjct: 77 AVSVAEGKDEVFITLKKSGSGPVVAGDIIHDGDVEIANPEHVICHLTDDKAEIAMRIKVQ 136 Query: 151 KGHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVP A+ H E++ PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 137 RGRGYVPSSARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 196 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 197 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 253 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK V Sbjct: 254 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDV 295 >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 = 250 bits (638), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 126/288 (43%), Positives = 191/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL G+A+T+VQ DGVLHE S+I+GV ED+T IILN+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGSAVTSVQFDGVLHEFSTIEGVVEDITSIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I G GVVTA D +D+EVLNPD I L A M++ Sbjct: 83 KKLALKIYSDEEKTLEIEATGEGVVTAADFMHDSDVEVLNPDLHIATLSKGAQFHMKVAA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 ++G GYVPA+ +++E PIG+I +D++Y+P+ +V+Y VE+ R GQ+ +YDKL++ + TDG Sbjct: 143 NRGRGYVPAEGNKSEELPIGVIPVDSIYTPVARVNYQVENTRVGQITNYDKLTLDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 S E++V+L ++IL + L +F+ + + + + + L +EEL+LSVRS Sbjct: 203 STRPEEAVSLGAKILTEHLNIFVGLTDQAQHAEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++E DM+++ N GRKSL E++ L +GL L Sbjct: 263 YNCLKRAGINTVQELTHKSEEDMMKVRNLGRKSLEEVQEKLAELGLGL 310 >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 = 250 bits (638), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 133/299 (44%), Positives = 183/299 (61%), Gaps = 11/299 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 IAEP G+ HT+GN+LRRVL+SS+ GAAI++++IDGV HE SI GV ED+TDI+LN+ Sbjct: 28 FIAEPFEAGYGHTIGNSLRRVLLSSIEGAAISSIKIDGVNHEFQSIDGVVEDVTDIVLNL 87 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L + I G+VTA DIQ +I+V+NP+ VIC LD E+ + Sbjct: 88 KKVLLVSQKRESINLAIRVNKAGIVTAADIQPDPNIQVINPEQVICTLDAKKTFDAEIEI 147 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GY P + ++ E IG+I ID+L+SP++ V Y VE+ R GQ+ DYDKL + + TDG Sbjct: 148 KTGRGYCPGEANKKEEQAIGVIPIDSLFSPVRLVKYAVEATRVGQITDYDKLVLEVWTDG 207 Query: 210 SITGEDSVALASRILQDQLGMF-------INFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 IT +D++ A+ IL+ L +F FE + EV E+ N L V E Sbjct: 208 RITPDDALKQAASILKHHLDVFDRVSEETYEFENQQSEVSEEQN----KLRKLLNMSVNE 263 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +ELSVR+ NCL NI +G+L +TE +ML+ NFG+KSL EIK L +GL LGM Sbjct: 264 IELSVRAANCLNNANITTVGELAMKTEQEMLKYRNFGKKSLNEIKEKLEALGLSLGMKF 322 >gi|307694123|ref|ZP_07636360.1| DNA-directed RNA polymerase subunit alpha [Ruminococcaceae bacterium D16] Length = 316 Score = 250 bits (638), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 128/288 (44%), Positives = 186/288 (64%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ TLGN+LRR+L+SSL G A+T+++I GV HE S+I G+ ED+T+I+LNIK Sbjct: 24 VVEPLERGYGTTLGNSLRRILLSSLPGTAVTSIKIAGVQHEFSTIPGIKEDVTEIVLNIK 83 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 I K+ + +K V I G VTAGDI+ D+E+LNP+ I L DA + MELT+S Sbjct: 84 SIIAKLHCEENKTVHIEASGECEVTAGDIKCDADVEILNPELHIATLGPDATLSMELTLS 143 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 G GYVPA ++ IGLI +D++Y+P++KV+YTVE+ R G DYDKL++ + TDG+ Sbjct: 144 HGRGYVPADRNKPAQTIIGLIPVDSIYTPVRKVNYTVENTRVGDATDYDKLTLEVWTDGT 203 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 I D+V+L +RIL D +F + E + + + +++++LSVRS Sbjct: 204 IDARDAVSLGARILCDHFALFTDLSETMGSRSTVVEKAETQRDKVMEMTIDDMDLSVRSY 263 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 NCL+ NI + DLI +TE +M+++ N GRKSL E+ L MGL L Sbjct: 264 NCLKRANINTVEDLISKTEEEMMKVRNLGRKSLEEVINKLAMMGLSLA 311 >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 = 250 bits (638), Expect = 3e-64, Method: Compositional matrix adjust. Identities = 126/278 (45%), Positives = 191/278 (68%), Gaps = 8/278 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 11 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 70 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D A + M + V Sbjct: 71 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKVE 130 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 131 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMET 190 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 191 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 247 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 248 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 285 >gi|157493243|gb|ABV57987.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 286 Score = 250 bits (638), Expect = 3e-64, Method: Compositional matrix adjust. Identities = 126/278 (45%), Positives = 191/278 (68%), Gaps = 8/278 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 12 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 71 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D A + M + V Sbjct: 72 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKVE 131 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 132 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMET 191 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 192 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 248 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 249 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 286 >gi|27262232|gb|AAN87397.1| DNA-directed RNA polymerase alpha chain [Heliobacillus mobilis] Length = 315 Score = 250 bits (638), Expect = 3e-64, Method: Compositional matrix adjust. Identities = 129/288 (44%), Positives = 190/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T+V+I+GVLHE S+I GV ED TDIILN+ Sbjct: 23 FVVEPLERGYGVTLGNSLRRILLSSLPGAAVTSVKIEGVLHEFSTIPGVVEDTTDIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K +++KM D + + + G GVVT DI D+E+LNPD I LD + MELTV Sbjct: 83 KLLSIKMYTDEPRIIRVEAEGEGVVTGKDIICDADVEILNPDQPIATLDKGGRLFMELTV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 K GY+ A H+ IG+I +DA +SP++KV+Y VE R GQ+ +YD+L + + ++G Sbjct: 143 EKDRGYMTATKHKKSEHVIGVIPVDANFSPVRKVNYRVEDTRVGQITNYDRLILEVWSNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 S+T E++++L+++I+ D L +F+ E + V+ + + P + L +EEL+LSVRS Sbjct: 203 SLTPEEAISLSAKIMNDHLKLFVGLTESTENVEIMVEKEERPQDKVLDMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL +TE DM+++ N GRKSL E+ L +GL L Sbjct: 263 YNCLKRAGINSVRDLTLKTEEDMIKVRNLGRKSLEEVDAKLNALGLSL 310 >gi|308522652|dbj|BAJ22937.1| RNA polymerase alpha subunit [Aliivibrio sp. LC2-088] Length = 271 Score = 249 bits (637), Expect = 3e-64, Method: Compositional matrix adjust. Identities = 128/273 (46%), Positives = 191/273 (69%), Gaps = 7/273 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 2 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 61 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V + Sbjct: 62 AVKVEGKDEVIITLNKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNAEISMRIRVER 121 Query: 152 GHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVP A+ H E++ PIG + IDA YSP+ K+SY+VE+AR Q D DKL + ++T+ Sbjct: 122 GRGYVPSTARIHTEEDERPIGRLLIDATYSPVDKISYSVEAARVEQRTDLDKLVIDMETN 181 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL +F++ + + + + F+P LL+ V++LEL+VR Sbjct: 182 GTLDPEEAIRRAATILAEQLDVFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 238 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 S NCL+ E I Y+GDL+QRTE ++L+ N G+K Sbjct: 239 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKK 271 >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 = 249 bits (637), Expect = 3e-64, Method: Compositional matrix adjust. 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|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 = 249 bits (637), Expect = 3e-64, Method: Compositional matrix adjust. Identities = 131/286 (45%), Positives = 191/286 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL G A+T+V+I+GVLHE S++ GV ED+TDIILN+ Sbjct: 23 FVVEPLERGYGITLGNSLRRILLSSLPGTAVTSVKIEGVLHEFSTVPGVLEDVTDIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK D K + + G GV+ AGDI T DIE+LNPD I LD D + ME+T Sbjct: 83 KSLALKGHTDEPKVLRLEAEGEGVIKAGDIITDADIEILNPDLKIATLDKDGRLFMEMTA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYV A ++ + IG+I ID++++PI KV+YTVE R G V DYDKL++ + ++G Sbjct: 143 ERGRGYVSADKNKKPDQAIGIIPIDSIFAPIYKVNYTVEDTRVGMVTDYDKLTLEVWSNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SIT E++ +LA++IL + L +FI + V+ + + + L +E+L+LSVRS Sbjct: 203 SITPEEATSLAAKILSEHLRLFIGLTDKLNNVEIMVEKEEEAKDKILEMTIEDLDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 NCL+ I + +L Q+TE DM+++ N GRKSL E++ L +GL Sbjct: 263 YNCLKRAGINSVEELTQKTEEDMIKVRNLGRKSLEEVESKLKELGL 308 >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 = 249 bits (637), Expect = 3e-64, Method: Compositional matrix adjust. Identities = 126/278 (45%), Positives = 191/278 (68%), Gaps = 8/278 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 9 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 68 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D A + M + V Sbjct: 69 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKVE 128 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 129 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMET 188 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 189 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 245 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 246 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 283 >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 = 249 bits (637), Expect = 3e-64, Method: Compositional matrix adjust. Identities = 128/273 (46%), Positives = 190/273 (69%), Gaps = 7/273 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 2 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 61 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V + Sbjct: 62 AVKVEGKDEVIITLNKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNAEISMRIKVER 121 Query: 152 GHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVP A+ H E++ PIG + IDA YSP+ K+SY+VE+AR Q D DKL + ++T+ Sbjct: 122 GRGYVPSTARIHTEEDERPIGRLLIDATYSPVDKISYSVEAARVEQRTDLDKLVIDMETN 181 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+VR Sbjct: 182 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 238 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 S NCL+ E I Y+GDL+QRTE ++L+ N G+K Sbjct: 239 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKK 271 >gi|295101439|emb|CBK98984.1| DNA-directed RNA polymerase subunit alpha [Faecalibacterium prausnitzii L2-6] Length = 318 Score = 249 bits (636), Expect = 4e-64, Method: Compositional matrix adjust. Identities = 130/291 (44%), Positives = 194/291 (66%), Gaps = 3/291 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +AEPL RGF TLGN+LRRVL+SSL G A+T+V+IDGV+HE S+I+GV ED+T+I+LN+ Sbjct: 23 FVAEPLERGFGITLGNSLRRVLLSSLPGVAVTSVKIDGVVHEFSTIEGVKEDVTEIVLNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KGI K+ D K V + GP VTA +I+ +DIE+LNP+ I L + MELT Sbjct: 83 KGIAAKLYTDGPKTVRVEAVGPCEVTADNIKQGDDIEILNPEWHIATLGEGGKLVMELTF 142 Query: 150 SKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 KG GYVPA+ ++ E + I + +D++Y+P+ KV+Y VES R GQ +DYDKL++ + Sbjct: 143 DKGRGYVPAERNKQAIIEKNDINTLPVDSIYTPVLKVNYNVESTRVGQAIDYDKLTIEVW 202 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 TDG+I +++V+LA+R+L + L +F+N + + + + AL +EEL+LS Sbjct: 203 TDGTINAQEAVSLAARVLTEHLNLFVNLSDEAAGAEIMVEKTNDDKEKALEMTIEELDLS 262 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 VRS NCL+ I + DL+ ++E +M+++ N GRKSL E+ L ++G L Sbjct: 263 VRSFNCLKRAGINTVEDLVSKSEDEMMKVRNLGRKSLEEVMAKLDSLGFKL 313 >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 = 249 bits (636), Expect = 4e-64, Method: Compositional matrix adjust. Identities = 133/298 (44%), Positives = 187/298 (62%), Gaps = 8/298 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 IAEP +GF HTLGN LRRVL+ SL G A+T ++IDGVLHE + V ED+T+I+LN Sbjct: 28 FIAEPFEKGFGHTLGNGLRRVLLHSLEGVAVTWIKIDGVLHEYAQAADVVEDVTEIVLNF 87 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + GD +++ + G VTA DI T +V+NP+ IC LD D +R+E V Sbjct: 88 KNVRFTAEGDLPRKLELRANTKGPVTAADIVTDGVTQVVNPEQYICTLDKDTPLRIEFEV 147 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + G G+ A ++ PIGLI +D+L+SPI++VSY V R GQ+ DYDKL + I TDG Sbjct: 148 ASGRGWKSADDNKPSEAPIGLIPVDSLFSPIERVSYDVSDTRVGQMTDYDKLELEIWTDG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK----VEELEL 265 I+ ED++ ++ IL+D L +F + + P+ I P + A+L K V +EL Sbjct: 208 RISPEDALRKSAIILRDHLCVFTD-DNPEDSTASLIQT---PEDEAILSKMLIPVTSVEL 263 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 SVR+ NCLR I Y+G+LIQ++E++ML+ NFG+KSL EIK + MG+ L M L D Sbjct: 264 SVRAQNCLRNAEIKYLGELIQKSESEMLKYRNFGKKSLDEIKDKMLEMGITLNMKLKD 321 >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 = 249 bits (636), Expect = 4e-64, Method: Compositional matrix adjust. 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|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 = 249 bits (636), Expect = 4e-64, Method: Compositional matrix adjust. Identities = 131/293 (44%), Positives = 196/293 (66%), Gaps = 4/293 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAAI+ V+IDGVLHE SSI GV ED+T+I++N+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAISQVKIDGVLHEFSSIPGVKEDVTEIVMNL 82 Query: 90 KGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K + D K I G GVVTA DIQ DIE++NPD VI L+ D+ + M Sbjct: 83 KSLAIKNTSETDEPKTAYIEFEGEGVVTAADIQVDPDIEIMNPDAVIATLNGGADSKLYM 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GYV A ++ E+ PI +I ID++Y+P+++V+ TVE+ R GQ+ DYDKL++ + Sbjct: 143 ELTITKGRGYVSADKNKKEDLPIAVIPIDSIYTPVERVNLTVENTRVGQITDYDKLTLDV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E + + I + L ++ELEL Sbjct: 203 YTNGTLLPDEAVSLAAKVLNEHLKLFIDLSEVAQAAEVMIEKEDDEKEKVLEMSIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 SVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 263 SVRSYNCLKRAGINTVEELTNRTPEDMMKVRNLGRKSLEEVLAKLKELGLELS 315 >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 = 249 bits (636), Expect = 4e-64, Method: Compositional matrix adjust. Identities = 126/288 (43%), Positives = 194/288 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILNI Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNI 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K + + GP VTAGDI T +DIE++NPDH + + ++ +TV Sbjct: 81 KGLAVKSYVEDEKTIELDVTGPAEVTAGDILTDSDIEIVNPDHYLFTIAEGHTLKATMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 141 AKNRGYVPAEGNKNDSAPVGTLAVDSIYTPVKKVNYQVEPARVGSNAGFDKLTIEIMTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I ED++ L++R+L + L +F + E K + +S+ + L + +EE++LSVRS Sbjct: 201 TIIPEDALGLSARVLIEHLNLFTDLTEIAKTTEVMKETESVSNDQVLDRTIEEIDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL ++TE +M+++ N GRKSL E+K L +GL L Sbjct: 261 YNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVKVKLAELGLGL 308 >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 = 249 bits (636), Expect = 4e-64, Method: Compositional matrix adjust. Identities = 129/292 (44%), Positives = 195/292 (66%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDGVLHE SSI GV ED++DII+N+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDGVLHEFSSIPGVKEDVSDIIMNL 82 Query: 90 KGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K + + K I G GVVTA DIQ DIE++NPD VI L+ D + M Sbjct: 83 KSLAIKNHSTDNEPKTAYIECEGKGVVTAADIQADQDIEIMNPDQVIATLNGGKDCRLAM 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GY+ A ++++ PIG++ +DA+Y+P+ +V+ TVE+ R GQV DYDKL++ + Sbjct: 143 ELTITKGRGYISADKGKSDDMPIGVLAVDAIYTPVDRVNMTVENTRVGQVTDYDKLTLDV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E K + I + L ++ELEL Sbjct: 203 YTNGTLDPDEAVSLAAKVLSEHLSLFIDLSENAKTAEVMIEKEDNEKEKVLEMSIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +L +T DM+++ N GRKSL E+ L +GL L Sbjct: 263 SVRSYNCLKRAGINTVEELCNKTSDDMMKVRNLGRKSLEEVLAKLKELGLQL 314 >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 = 249 bits (636), Expect = 5e-64, Method: Compositional matrix adjust. Identities = 130/291 (44%), Positives = 194/291 (66%), Gaps = 3/291 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +AEPL RGF TLGN+LRRVL+SSL G A+T+V+IDGV+HE S+I+GV ED+T+I+LN+ Sbjct: 37 FVAEPLERGFGITLGNSLRRVLLSSLPGVAVTSVKIDGVVHEFSTIEGVKEDVTEIVLNL 96 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KGI K+ D K V + GP VTA +I+ +DIE+LNP+ I L + MELT Sbjct: 97 KGIAAKLYTDGPKTVRVEAVGPCEVTADNIKQGDDIEILNPEWHIATLGEGGKLVMELTF 156 Query: 150 SKGHGYVPAKHHR---TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 KG GYVPA+ ++ E + I + +D++Y+P+ KV+Y VES R GQ +DYDKL++ + Sbjct: 157 DKGRGYVPAERNKQAIVEKNDINTLPVDSIYTPVLKVNYNVESTRVGQAIDYDKLTIEVW 216 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 TDG+I +++V+LA+R+L + L +F+N + + + + AL +EEL+LS Sbjct: 217 TDGTINAQEAVSLAARVLTEHLNLFVNLSDEAAGTEIMVEKTNDDKEKALEMTIEELDLS 276 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 VRS NCL+ I + DL+ ++E +M+++ N GRKSL E+ L ++G L Sbjct: 277 VRSFNCLKRAGINTVEDLVSKSEDEMMKVRNLGRKSLEEVMAKLDSLGFKL 327 >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 = 249 bits (636), Expect = 5e-64, Method: Compositional matrix adjust. Identities = 125/288 (43%), Positives = 195/288 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDGVLHE +++ GV ED+T+IILN+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDGVLHEFATVPGVKEDVTEIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K ++LK+ D K + I G GVVTAGDI+ +D+E+LNPD I L + + M + Sbjct: 83 KALSLKIHSDEEKVLEIDAEGEGVVTAGDIRADSDVEILNPDLHIATLGPGSRLHMRIFA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 ++G GYV ++ ++ PIG+I +D++Y+PI +V+Y VE+ R GQV +YDKL++ + TDG Sbjct: 143 NRGRGYVKQDRNKRDDQPIGVIPVDSIYTPIARVNYGVENTRVGQVTNYDKLTLEVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I E++V+L ++IL + + +F+ + K+ + + + L +EEL+LSVRS Sbjct: 203 TIRPEEAVSLGAKILTEHVMLFVGLTDEAKDAEIMVEKEEDKKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++E DM+++ N GRKSL E++ L +GL L Sbjct: 263 YNCLKRAGINTVQELTTKSEEDMMKVRNLGRKSLEEVQEKLEELGLGL 310 >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 = 249 bits (635), Expect = 5e-64, Method: Compositional matrix adjust. Identities = 128/296 (43%), Positives = 197/296 (66%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E+ N + EPL RG+ TLGNALRR+L+SSL G A ++IDGVLHE S+I+GV ED Sbjct: 15 SEDGNYGKFVVEPLERGYGITLGNALRRILLSSLPGVAANHIKIDGVLHEFSTIRGVKED 74 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + ++ILNIK + LKM+G+ K + I +GPG V AGDI+T D+E++N D I LD D Sbjct: 75 VAELILNIKELALKMNGEGPKTIYIDAQGPGEVVAGDIKTDGDVEIINKDLHIATLDDDG 134 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ME+ V+ G GYV + +++E+ PIG I +D++Y+PIK+V++ VE+ R GQ+ DYDKL Sbjct: 135 KLYMEIAVNGGRGYVSQRKNKSEDMPIGTIPVDSIYTPIKRVNFAVENTRVGQITDYDKL 194 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 S+ + T+G+I +++V+L+++IL + +F+ + V+ + + L +E Sbjct: 195 SLEVWTNGTILPDEAVSLSAKILIEHFKLFMTLTDHANNVEIMVEKEEDKKEKVLEMTIE 254 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 EL+LSVRS NCL+ I + +L +RT DM+++ N G+KSL E++ L +GL L Sbjct: 255 ELDLSVRSYNCLKRAGINTVQELTERTMDDMMKVRNLGKKSLEEVEQKLDALGLSL 310 >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 = 249 bits (635), Expect = 5e-64, Method: Compositional matrix adjust. 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|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 = 249 bits (635), Expect = 5e-64, Method: Compositional matrix adjust. Identities = 127/278 (45%), Positives = 190/278 (68%), Gaps = 8/278 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 12 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 71 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 72 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 131 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 132 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 191 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 192 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 248 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 249 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 286 >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 = 249 bits (635), Expect = 5e-64, Method: Compositional matrix adjust. Identities = 138/312 (44%), Positives = 202/312 (64%), Gaps = 8/312 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSIDIDG 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK--EVKEDI 245 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E K EV ++ Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSTEVMKEA 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + +S + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E Sbjct: 239 DTES--DDRILERTIEELDLSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEE 296 Query: 306 IKGVLGTMGLFL 317 +K L +GL L Sbjct: 297 VKLKLIDLGLGL 308 >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 = 249 bits (635), Expect = 5e-64, Method: Compositional matrix adjust. Identities = 138/312 (44%), Positives = 202/312 (64%), Gaps = 8/312 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSIDIDG 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK--EVKEDI 245 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E K EV ++ Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSAEVMKEA 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + +S + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E Sbjct: 239 DTES--DDRILERTIEELDLSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEE 296 Query: 306 IKGVLGTMGLFL 317 +K L +GL L Sbjct: 297 VKLKLIDLGLGL 308 >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 = 249 bits (635), Expect = 6e-64, Method: Compositional matrix adjust. Identities = 132/314 (42%), Positives = 204/314 (64%), Gaps = 11/314 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 VRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVL 310 N G+ L+ +K L Sbjct: 295 NLGKNLLLRLKTYL 308 >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 = 249 bits (635), Expect = 6e-64, Method: Compositional matrix adjust. Identities = 127/292 (43%), Positives = 198/292 (67%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAA++AV+I GVLHE SSI GV ED+T+II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSAVKIKGVLHEFSSIPGVKEDVTEIIMNI 82 Query: 90 KGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K + S+ KR I G GVVTA DIQ +DIE++NPD VI L D+ Sbjct: 83 KELAIKNNSSSNEPKRAFIEFSGEGVVTAADIQVDSDIEIINPDLVIATLSGGADSHFEA 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GYV A +++E+ I +I +D++Y+P+++V+ TV++ R GQ+ D+DKL++ + Sbjct: 143 ELTITKGRGYVGADKNKSEDQSIDVIAVDSIYTPVERVNLTVQNTRVGQITDFDKLTLDV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E ++ + + P + L ++ELEL Sbjct: 203 FTNGTLAPDEAVSLAAKVLSEHLNLFIDLSENAQKAEVMVETAQDPVDKVLEMNIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +L +T DM+++ N GRKSL E+ L +GL L Sbjct: 263 SVRSYNCLKRAGINTVEELTNKTPEDMMKVRNLGRKSLEEVLAKLKELGLSL 314 >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 = 249 bits (635), Expect = 6e-64, Method: Compositional matrix adjust. Identities = 132/310 (42%), Positives = 199/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E N + EPL RG+ TLGN+LRR+L++SL G A+T +QIDG Sbjct: 3 EFEKPN----ITKVDESTNYGKFVVEPLERGYGTTLGNSLRRILLASLPGTAVTDIQIDG 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|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 = 249 bits (635), Expect = 6e-64, Method: Compositional matrix adjust. Identities = 130/291 (44%), Positives = 194/291 (66%), Gaps = 3/291 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +AEPL RGF TLGN+LRRVL+SSL G A+T+V+IDGV+HE S+I+GV ED+T+I+LN+ Sbjct: 37 FVAEPLERGFGITLGNSLRRVLLSSLPGVAVTSVKIDGVVHEFSTIEGVKEDVTEIVLNL 96 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KGI K+ D K V + GP VTA +I+ +DIE+LNP+ I L + MELT Sbjct: 97 KGIAAKLYTDGPKTVRVEAVGPCEVTADNIKQGDDIEILNPEWHIATLGEGGKLVMELTF 156 Query: 150 SKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 KG GYVPA+ ++ E + I + +D++Y+P+ KV+Y VES R GQ +DYDKL++ + Sbjct: 157 DKGRGYVPAERNKQAIIEKNDINTLPVDSIYTPVLKVNYNVESTRVGQAIDYDKLTIEVW 216 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 TDG+I +++V+LA+R+L + L +F+N + + + + AL +EEL+LS Sbjct: 217 TDGTINAQEAVSLAARVLTEHLNLFVNLSDEAAGAEIMVEKTNDDKEKALEMTIEELDLS 276 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 VRS NCL+ I + DL+ ++E +M+++ N GRKSL E+ L ++G L Sbjct: 277 VRSFNCLKRAGINTVEDLVSKSEDEMMKVRNLGRKSLEEVMAKLDSLGFKL 327 >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 = 249 bits (635), Expect = 6e-64, Method: Compositional matrix adjust. Identities = 126/288 (43%), Positives = 193/288 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGNALRR+L+SSL G A ++IDGVLHE S+++GV ED+ +++LNI Sbjct: 23 FVVEPLERGYGITLGNALRRILLSSLPGVAANHIKIDGVLHEFSTVRGVKEDVAELVLNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LKM+G+ K + I +GPG V AGDI+T DIE++N D I LD D + ME+ V Sbjct: 83 KCLALKMNGEGPKTIYIDAQGPGEVVAGDIKTDGDIEIINKDLHIATLDDDGKLYMEIQV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + G GYV +++E+ PIG I ID++Y+PIK+V++ VE+ R GQ+ DYDKLS+ + T+G Sbjct: 143 NTGRGYVSQTKNKSEDMPIGTIAIDSIYTPIKRVNFVVENTRVGQITDYDKLSLEVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I E++++L+++IL + +F+ + V+ + + L +EEL+LSVRS Sbjct: 203 TIMPEEAISLSAKILIEHFKLFMTLTDHANNVEIMVEKEEDKKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +RT DM+++ N G+KSL E++ L +GL L Sbjct: 263 YNCLKRAGINTVQELTERTMDDMMKVRNLGKKSLEEVEQKLEALGLSL 310 >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 = 248 bits (634), Expect = 7e-64, Method: Compositional matrix adjust. 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|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 = 248 bits (633), Expect = 8e-64, Method: Compositional matrix adjust. Identities = 128/290 (44%), Positives = 202/290 (69%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ TLGNALRR+L+SSL GAA T+V+IDGVLHE S+++GV ED+T+IILNIK Sbjct: 24 VIEPLERGYGITLGNALRRILLSSLPGAAPTSVKIDGVLHEFSTVQGVKEDVTEIILNIK 83 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + L M+G+ K + I +GPGVVT DI+T D+EV++ D I LD +A + ME+TV+ Sbjct: 84 SLALIMNGEGPKTIYIDAQGPGVVTGADIKTDGDVEVVSKDLHIATLDDNAKLYMEITVN 143 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 +G GYV +++E+ P+ I +D++Y+P+K+V++TVE+ R GQ+ DYDKL++ I T+G+ Sbjct: 144 RGRGYVTQNKNKSEDLPLSAIAVDSIYTPVKRVNFTVENTRVGQITDYDKLTLEIWTNGT 203 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 I +++++L+++IL + +F++ + +V+ I + L VEEL+LSVRS Sbjct: 204 IKIDEAISLSAKILIEHFKLFMSLGDSTNDVEIMIEKEEDKKEKVLEMTVEELDLSVRSY 263 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 NCL+ I + +L ++ DM+++ N G+KSL E++ L +GL L +N Sbjct: 264 NCLKRAGINTVQELAGKSMDDMMKVRNLGKKSLEEVERKLKELGLGLRLN 313 >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 = 248 bits (633), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 128/292 (43%), Positives = 193/292 (66%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDGVLHE SSI GV ED+T+II+NI Sbjct: 33 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDGVLHEFSSIAGVKEDVTEIIMNI 92 Query: 90 KGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K + D+ K I G GV+TA DIQ DIE++NPD +I L D+ M Sbjct: 93 KSLAIKNNSDTDEPKVAYIEFEGEGVITAADIQADADIEIMNPDQIIATLSGGTDSKFYM 152 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GYV A ++ ++ PIG+I +D++Y+P+++V+ V + R GQ DYDKL++ I Sbjct: 153 ELTITKGRGYVSADKNKNDDLPIGVIAVDSIYTPVERVNMAVANTRVGQQTDYDKLTLEI 212 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E K + + + L ++ELEL Sbjct: 213 YTNGTLAPDEAVSLAAKVLSEHLNLFIDLSENAKTAEIMVEKEDNEKEKVLEMNIDELEL 272 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 273 SVRSYNCLKRAGINTVEELCNRTSEDMMKVRNLGRKSLEEVLAKLKELGLQL 324 >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 = 248 bits (633), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 131/300 (43%), Positives = 197/300 (65%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 IV E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+V+I+GVLHE S++ G Sbjct: 11 IVEQSEDNTYGKFVVEPLERGYGITLGNSLRRILLSSLPGAAVTSVKIEGVLHEFSTVPG 70 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+TDIILN+K + LK+ D K + I G VTAGDI D+E+LNPD + L Sbjct: 71 VREDVTDIILNLKNLCLKIHSDEEKVLRIEADTEGPVTAGDIIHDADVEILNPDLHLATL 130 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + ME+T +KG GYV A+ ++ IG+I +D++Y+P++KV+Y VE+ R GQ+ D Sbjct: 131 DAGGRLYMEITANKGRGYVSAEKNKKGEHIIGVIPVDSIYTPVRKVNYNVENTRVGQITD 190 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 YDKL++ + T+GSI +++ +L+++IL + L +FI E +V+ + + + + Sbjct: 191 YDKLTLEVWTNGSIRPDEATSLSAKILSEHLRLFIGLTETVNDVEIMVEKEEEQKDKIME 250 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+LSVRS NCL+ I + +LIQR E DM+++ N G+KSL E+ L +GL L Sbjct: 251 MTIEELDLSVRSYNCLKRAGINTVEELIQRNEEDMMKVRNLGKKSLEEVMNKLAELGLSL 310 >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 = 248 bits (633), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 135/310 (43%), Positives = 203/310 (65%), Gaps = 6/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E +N + EPL RG+ TLGN+LRRVL++SL GAAIT++QIDG Sbjct: 3 EFEKPN----IHKVEETDNYGKFVVEPLERGYGTTLGNSLRRVLIASLPGAAITSMQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T IILN+K ++LK+ + K + + +GP VTA DIQ N++ + Sbjct: 59 VLHEFSTVEGVTEDVTQIILNLKKVSLKLDSEDQKNLELDVKGPAEVTASDIQGDNEVTI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSY 185 LNPD I + A + ++LT KG GY+ A ++ D 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 IKGVLGTMGL 315 IK L +G+ Sbjct: 299 IKLKLNDLGV 308 >gi|157493267|gb|ABV57999.1| RNA polymerase alpha subunit [Vibrio mimicus] Length = 283 Score = 248 bits (633), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 125/276 (45%), Positives = 190/276 (68%), Gaps = 8/276 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 11 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 70 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D A + M + V Sbjct: 71 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKVE 130 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 131 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMET 190 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 191 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 247 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 248 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 283 >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 = 248 bits (633), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 133/308 (43%), Positives = 191/308 (62%), Gaps = 11/308 (3%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 AEP G+ HT+GN+LRR+L+SS+ GAAI++V+I+GV HE S+ G+ ED+TDI+LN+K Sbjct: 4 AEPFEAGYGHTIGNSLRRILLSSIEGAAISSVKIEGVSHEFQSVDGIVEDITDIVLNLKK 63 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + L ++ I G +TA DIQ +++EV+NPD +IC LD + EL + Sbjct: 64 VLLVCHKREGVKLMINTNRSGAITAADIQPDSNVEVINPDQIICTLDREMPFTAELEIKV 123 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GY P ++ E DPIG+I ID+L+SP+ V Y VE+ GQ+ DYDKL + + TDG I Sbjct: 124 GRGYCPGDDNKDEEDPIGVIAIDSLFSPVSLVKYAVEATLVGQITDYDKLLLEVWTDGRI 183 Query: 212 TGEDSVALASRILQDQLGMFIN-------FEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 T +D++ A+ IL+ L +F N FE+ EV E+ N L V E+E Sbjct: 184 TPDDALKQAAAILKHHLDVFDNVSDENYEFEDEGGEVSEEQN----KLRKLLNMSVNEIE 239 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 LSVR+ NCL NI +G+L ++E +ML+ NFG+KSL EIK L ++GL LGM + Sbjct: 240 LSVRAANCLNNANITTVGELAMKSEQEMLKYRNFGKKSLNEIKDKLESLGLSLGMKFDER 299 Query: 325 PPESIEEL 332 +S +EL Sbjct: 300 LLDSKKEL 307 >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 = 248 bits (632), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 131/288 (45%), Positives = 190/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EPL RG+ TLGN+LRRVL+SSL GAAIT+V+IDGV HE S+I GV ED +II+NI Sbjct: 23 IVIEPLERGYGTTLGNSLRRVLLSSLPGAAITSVKIDGVQHEFSTIPGVLEDTVEIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +KM D K + I +G G VTA DI D+E++N DH I LD D + ELT+ Sbjct: 83 KGLAIKMHSDEPKLLRIEAQGEGEVTAKDIICDADVEIINKDHHIATLDKDGRLFAELTL 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYV A+ ++ PIG+I ID++++P+ K +YTVE R GQV DYDKL++ + T+G Sbjct: 143 EKGKGYVTAEKNKKPGQPIGIIPIDSIFTPVIKANYTVEHTRVGQVTDYDKLTLEVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I +++V+ A++IL D +F K+V+ + + L +EEL+LSVRS Sbjct: 203 TIKPDEAVSAAAKILIDYFNLFTGLTTAVKKVEAPVEKEKDERERILEMPIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I +G+LIQ+T +M+++ N G+KSL E++ L + L L Sbjct: 263 YNCLKRAGINTIGELIQKTPEEMMKVRNLGKKSLEEVEEKLAALNLSL 310 >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 = 248 bits (632), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 126/276 (45%), Positives = 190/276 (68%), Gaps = 8/276 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H+ + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHNEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 >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 = 248 bits (632), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 136/312 (43%), Positives = 204/312 (65%), Gaps = 8/312 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIDG 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK--EVKEDI 245 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E K EV ++ Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSTEVMKEA 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + +S + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E Sbjct: 239 DTES--DDRILDRTIEELDLSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEE 296 Query: 306 IKGVLGTMGLFL 317 +K L +GL L Sbjct: 297 VKFKLIDLGLGL 308 >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 = 248 bits (632), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 133/306 (43%), Positives = 197/306 (64%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 IV E+ N + PL RG+ TLGN+LRRVL+SSL GAAI+ + I GV HE+S+IKG Sbjct: 11 IVELDEQNNYGKFVIMPLERGYGTTLGNSLRRVLLSSLPGAAISKINIQGVAHEMSTIKG 70 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +IILN+KGI +K + + + +GP V+TA DI D+EV NPDH I L Sbjct: 71 VKEDVPEIILNLKGIAVKKYNEEPISLNVDIKGPCVLTAKDILVDTDLEVKNPDHYIATL 130 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + DA + M++TV G GY ++ ++TE D IG I ID+L+SP+KKV++TV++AR GQV+D Sbjct: 131 NEDASLEMQITVINGKGYKISEFNKTEEDIIGDIAIDSLFSPVKKVNFTVDNARVGQVID 190 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 YDKL++ + T+G+I +D+++ S IL + L +F + D ++ Sbjct: 191 YDKLTIEVWTNGTIRPQDALSEGSNILINCLELFSELPNYECNTNSDDEDNQKDKETQMV 250 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+ S+RS NCL+ NI +GD++ T+ADM+++ NFG+KSL E++ L MGL Sbjct: 251 INIEELDFSLRSFNCLKRANINTVGDIVSHTKADMMKIKNFGKKSLDEVEEKLQEMGLAF 310 Query: 318 GMNLPD 323 + D Sbjct: 311 KQEIKD 316 >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 = 248 bits (632), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 124/288 (43%), Positives = 191/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ +TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+++GV ED+ IILN+ Sbjct: 23 FVVEPLERGYGNTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTVEGVVEDVASIILNV 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +G G VTA DI +D+E+LNPD I + + +RM + Sbjct: 83 KKLALKIYSDEEKVIEIDVKGDGTVTAADITHDSDVEILNPDLYIATIAKNGHLRMRMYA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY PA ++ E+ PIG+I ID++Y+P+ +V++ VE+ R GQ DYDKLS+ + TDG Sbjct: 143 QRGRGYTPADQNKREDLPIGVIPIDSIYTPVSRVNFQVENTRVGQSSDYDKLSLDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI +++++L ++IL + L +F+ + + + + + L +EEL+LSVRS Sbjct: 203 SIGPKEAISLGAKILTEHLNIFVGMTDEAQTAEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++E DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVLELANKSEDDMMKVRNLGRKSLEEVKAKLEELGLGL 310 >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 = 248 bits (632), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 127/288 (44%), Positives = 191/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T +QIDGVLHE S++ GV ED+T IILNI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTTIQIDGVLHEFSTVDGVVEDVTSIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ K + I +GP VVTA DI +D+E+LNPD IC + A + +T Sbjct: 83 KKLALKLYSGEDKTIEIDVKGPAVVTAADIIYDSDVEILNPDLYICTVAEGARFHVRMTA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A+H++ ++ PIG++ ID++Y+P+ +V+Y VE+ R GQ DKL++ + DG Sbjct: 143 KSGRGYVRAEHNKQDDMPIGVLPIDSIYTPVSRVNYQVENTRVGQKNISDKLTLDVWADG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI+ E++V+LA++IL + L +F+N + ++ + + + L +EEL+LSVRS Sbjct: 203 SISPEEAVSLAAKILTEHLNVFVNLTDEARKAEIMVEKEETHKEKMLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +TEA+M+++ N GRKSL E+K L + L L Sbjct: 263 YNCLKRAGINSVQELTDKTEAEMIKVRNLGRKSLEEVKFKLAELDLNL 310 >gi|157493255|gb|ABV57993.1| RNA polymerase alpha subunit [Vibrio mimicus] Length = 285 Score = 248 bits (632), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 125/278 (44%), Positives = 190/278 (68%), Gaps = 8/278 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G +T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 11 EPLERGFGHTLGNALRRILLSSMPGCVVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 70 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D A + M + V Sbjct: 71 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKVE 130 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 131 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMET 190 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 191 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 247 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 248 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 285 >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 = 248 bits (632), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 128/295 (43%), Positives = 199/295 (67%), Gaps = 4/295 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAA++ V+I+GVLHE SSI GV ED+T+II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIEGVLHEFSSIPGVKEDVTEIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD--AVVRM 145 K + +K + DS + T + G GVV A DIQT DIE++NPD VI +L+ + M Sbjct: 83 KNLAIKNNSDSDEPKTAYIEFEGEGVVKASDIQTDGDIEIINPDLVIAHLNGGDGCKLSM 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GYV + ++TE+ P+G+I +D++Y+P+++V+ V++ R GQV DYDKL++ + Sbjct: 143 ELTITKGRGYVSSDKNKTEDTPVGVIAVDSIYTPVERVNMAVQNTRVGQVTDYDKLTLDV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E K + + + L ++ELEL Sbjct: 203 YTNGTLAPDEAVSLAAKVLSEHLNLFIDLSENAKTAEIMVEESTDEHEKVLEMTIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 SVRS NCL+ I + +L +T DM+++ N GRKSL E+ L +GL L N Sbjct: 263 SVRSYNCLKRAGINTVEELCNKTPDDMMKVRNLGRKSLEEVLAKLKELGLQLSPN 317 >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 = 247 bits (631), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 128/300 (42%), Positives = 185/300 (61%), Gaps = 4/300 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 IAEP RGF T+GN+LRR+L+SSL GAA+T +++ G HE +SI GV ED+T+I+LN Sbjct: 28 FIAEPFERGFGVTIGNSLRRILLSSLEGAAVTQIKVRGAQHEFTSIPGVVEDMTEIVLNT 87 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I +K + K VTI K+GP +T DIQ +++++N D IC + D ME+ V Sbjct: 88 KAIVVKKHSEMTKVVTIEKQGPCTITGADIQCDPEVDIINKDIHICTITGDIPFMMEMVV 147 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GY+PA H T IG+I +DA+YSP+ +V Y VE R GQ +YDKL++ I TDG Sbjct: 148 ESGRGYIPATEHSTAEHEIGIIPVDAVYSPVTRVRYEVEETRVGQKTNYDKLTLEIWTDG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE----ELEL 265 SI E S+ A++IL+ L F+ + E ++ +S +P L K+ E+ L Sbjct: 208 SIHPEYSLVEAAKILRKHLNPFVQYNELGSKISIPSRTQSSGLDPVLESKLNMSLAEMHL 267 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 SVR++NCL ENI + DL++RTE ++ + NFG +L E++ L +GL LGM + P Sbjct: 268 SVRASNCLESENINTVRDLVRRTEDQLMEVRNFGETTLTEVREKLKELGLHLGMRVQSAP 327 >gi|58416044|emb|CAH57436.1| RNA polymerase alpha-subunit [Vibrio sp. R-21433] Length = 294 Score = 247 bits (631), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 126/276 (45%), Positives = 189/276 (68%), Gaps = 8/276 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 >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 = 247 bits (631), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 130/305 (42%), Positives = 201/305 (65%), Gaps = 15/305 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 IA+PL RG+ T+GNA+RRVL+SSL G AIT ++I+GVLHE S+I GV ED+ DI+LN+ Sbjct: 25 FIAQPLERGYGVTIGNAIRRVLLSSLPGTAITGIKIEGVLHEFSTIDGVKEDVPDIVLNL 84 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV-NDIEVLNPDHVICNLDVDAVVRMELT 148 K I + + VT+ RGP AGDI + D EVLNP+H I L+ DA ++++++ Sbjct: 85 KQIRFRSISKRNAVVTLVLRGPKDFVAGDIVSPEGDFEVLNPEHHIATLNEDATLKIDVS 144 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V +G GY+PA+ ++ E PIG I++D++++PI+ V Y+VE+ R GQ DY+KLS+ ++TD Sbjct: 145 VGRGRGYMPAEDNKPETMPIGYISVDSIFTPIRNVKYSVENTRVGQRTDYEKLSLEVETD 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEP---------KKEVKEDINVKSLPFNPALLKK 259 GSI +++V++A +I+ D + +F F ++E +E N++ L L+ + Sbjct: 205 GSIAPDEAVSMAGKIINDHVRLFSLFSPTQEEEVEEEVQQEDEEFENMRKL-----LMTR 259 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +E+LELSVRS NCLR I +G L+ + E ++L NFG+KSL E+K +L + L GM Sbjct: 260 IEDLELSVRSHNCLRSAEIDTLGQLVSKREDELLGYKNFGKKSLAELKELLESKNLSFGM 319 Query: 320 NLPDW 324 + + Sbjct: 320 EVTKY 324 >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 = 247 bits (631), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 139/306 (45%), Positives = 197/306 (64%), Gaps = 17/306 (5%) Query: 24 EENRT-LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+NR ++ EPL RGF TLGN+LRRVL+SSL GAA+T+V+IDGVLHE S+I GV ED+ Sbjct: 16 EDNRYGKIVWEPLERGFGITLGNSLRRVLLSSLPGAAVTSVKIDGVLHEFSTIPGVREDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 TDIILN+K + LKM D K + I +G V AGDI T D+E+LNP+ I LD Sbjct: 76 TDIILNLKELCLKMHSDEPKVLRIEAQGERDVKAGDIITDADVEILNPELHIATLDASGS 135 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 ++ME+TV +G GYVPA ++ + IG+I +D+++SP+ +V+YTV R G V DYDKL+ Sbjct: 136 LKMEITVERGRGYVPADKNKKPDHVIGVIPVDSIFSPVLRVNYTVTDTRVGNVTDYDKLT 195 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINF----------EEPKKEVKEDINVKSLPF 252 + + TDGS+ E++V+ A+ IL L +F N + P E E+ K++ Sbjct: 196 LEVWTDGSMRPEEAVSKAAGILVAHLKLFQNITGTPAEDEAGDGPFAETPEETGPKTMEM 255 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +E+L+LSVRS NCL+ I + +L Q+TE +M+++ N GRKSL E+K L Sbjct: 256 T------IEDLDLSVRSYNCLKRAGINTVAELTQKTEEEMMKVRNLGRKSLEEVKKKLEE 309 Query: 313 MGLFLG 318 +GL L Sbjct: 310 LGLSLA 315 >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 = 247 bits (631), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 130/314 (41%), Positives = 199/314 (63%), Gaps = 15/314 (4%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 G + + IA+PL RG+ TLGNA+RRVL++SL G AIT ++IDGV HE S+I GV E Sbjct: 16 GTHNDKNGIFIAQPLERGYGVTLGNAMRRVLLASLPGTAITGIKIDGVFHEFSAIDGVRE 75 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDV 139 D+ DIILN+K + + S + T+ GP VTAGDI + EVLN D I ++ Sbjct: 76 DVPDIILNLKKVRFRSSTKRSCKTTVTVDGPADVTAGDIVAQEGEFEVLNTDLHIATVNE 135 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + + M++ + +G GYVPA+ +R + P+G I ID++++PIK V ++VE+ R GQ DY+ Sbjct: 136 GSRLSMDVYIGRGRGYVPAEDNRGDGMPLGFIAIDSIFTPIKNVKFSVENTRVGQRTDYE 195 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINF---------EEPKKEVKEDINVKSL 250 K+ + ++TDGS++ +DS++LA +I+ + + +F NF EE K++ E N++ + Sbjct: 196 KMILDVETDGSVSPDDSISLAGKIINEHVSLFANFSPTDEEFTEEEYKQQDDEFENMRKM 255 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 LL ++E+L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL E+K L Sbjct: 256 -----LLTRIEDLDLSVRSHNCLRLAEIDTLGDLVSRKEDELLTYKNFGKKSLTELKEQL 310 Query: 311 GTMGLFLGMNLPDW 324 L GM++ + Sbjct: 311 EKFELKFGMDITKY 324 >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 = 247 bits (631), Expect = 2e-63, Method: Compositional matrix adjust. 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|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 = 247 bits (631), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 128/291 (43%), Positives = 194/291 (66%), Gaps = 3/291 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN+LRRVL+SSL G A+T+V+IDGV+HE S+I+GV ED+T+I+LN+ Sbjct: 23 FVVEPLERGFGTTLGNSLRRVLLSSLPGVAVTSVKIDGVVHEFSTIEGVREDVTEIVLNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KGI K+ G+S K V + GP + AG I+ +D+E+LNP+ I L A + MELT Sbjct: 83 KGIAAKIYGESPKTVRVEAVGPCELIAGSIKGGDDLEILNPEWHIATLGEGAKLVMELTF 142 Query: 150 SKGHGYVPAKHHR---TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 KG GYVPA+ ++ E + I + +D++Y+P+ K +YTV+ R GQ+ DYDKL + + Sbjct: 143 DKGRGYVPAERNKLALIEKNDISTLPVDSIYTPVLKANYTVDHTRVGQITDYDKLIIEVW 202 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 TDG+ +++++LA+R+L + L +F+N + E + ++ AL +EEL+LS Sbjct: 203 TDGTCNAQEALSLAARVLTEHLNLFVNLCDETGETEIMVDNDDQGREKALEMTIEELDLS 262 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 VRS NCL+ I +GDLI ++E +M+++ N GRKSL E+ L ++G L Sbjct: 263 VRSFNCLKRAGINTVGDLINKSEDEMMKVRNLGRKSLEEVMAKLDSLGFSL 313 >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 = 247 bits (631), Expect = 2e-63, Method: Compositional matrix adjust. 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|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 = 247 bits (631), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 131/288 (45%), Positives = 185/288 (64%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ TLGN+LRR+L+SSL G A+T+++I GV HE SI GV ED+T+I+LN+K Sbjct: 24 VVEPLERGYGTTLGNSLRRILLSSLPGTAVTSIKIAGVQHEFCSIPGVKEDVTEIVLNVK 83 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 I K+ + K V I G VTAGDI+ ++EVLNPD I L DA + MELT+S Sbjct: 84 SIIAKLHCEGVKTVYIEASGECEVTAGDIKADGEVEVLNPDLHIATLGPDASLNMELTLS 143 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 G GYVPA ++ + IG+I +D++Y+P++KV+YTVE R G D+DKL++ + T+G+ Sbjct: 144 HGRGYVPADRNKPAQNIIGVIPVDSVYTPVRKVNYTVEPTRVGDQTDFDKLTLEVWTNGT 203 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 IT D+V+L +RIL D +F + E + + L +EEL+LSVRS Sbjct: 204 ITARDAVSLGARILCDHFVLFTDLSETMGNKSTVVEKAEAQRDKVLEMTIEELDLSVRSF 263 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 NCL+ NI + DLI +TE +M+++ N GRKSL E+ L MGL L Sbjct: 264 NCLKRANINTVEDLISKTEDEMMKVRNLGRKSLEEVVNKLAMMGLSLA 311 >gi|58415828|emb|CAH57328.1| RNA polymerase alpha-subunit [Vibrio diazotrophicus] Length = 285 Score = 247 bits (631), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 125/278 (44%), Positives = 191/278 (68%), Gaps = 8/278 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 11 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 70 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 71 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDSNAEIAMRIKVE 130 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+V++AR Q D DKL + ++T Sbjct: 131 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVDAARVEQRTDLDKLVIDMET 190 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 191 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 247 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 248 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 285 >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 = 247 bits (631), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 132/300 (44%), Positives = 195/300 (65%), Gaps = 2/300 (0%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I+L +E+ N + EPL RG+ TLGN+LRRVL+SSL GAAI +VQIDGVLHE S+++G Sbjct: 26 IMLVEEDSNYGKFVVEPLERGYGTTLGNSLRRVLLSSLPGAAINSVQIDGVLHEFSTVEG 85 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+T IILN+K +++++ D K + + GP VTAGDI +D+E+LN D I + Sbjct: 86 VVEDVTQIILNLKKVSMRIDSDDEKTLEVNVTGPADVTAGDIAGDSDVEILNGDLHIATV 145 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQV 195 A + M LT +G GYV ++ +D PIG++ ID++++PI++V+Y VE+ R GQ Sbjct: 146 AAGATLHMTLTAVRGRGYVSGDQNKELHDEMPIGVLAIDSIFTPIERVNYQVENTRVGQR 205 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 D+DKL++ + TDGS+T ++V+LA+RI+ D L FI+ E + + + P Sbjct: 206 DDFDKLTLDVWTDGSLTATEAVSLAARIMSDHLNAFIDMSERAITAQVMADKEEEPTTKH 265 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 +EEL+LSVRS NCL+ I + +L +RTE M+ + N GRKSL EI+ L +GL Sbjct: 266 ADTPIEELDLSVRSYNCLKRAGINSVQELTERTETQMMSVRNLGRKSLDEIQDKLKLLGL 325 >gi|323465848|gb|ADX69535.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus helveticus H10] Length = 312 Score = 247 bits (631), Expect = 2e-63, Method: Compositional matrix adjust. 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|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 = 247 bits (631), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 139/298 (46%), Positives = 190/298 (63%), Gaps = 9/298 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T V+IDGVLHE ++I GV ED+ DIILNI Sbjct: 23 FVWEPLERGYGITLGNSLRRVLLSSLPGAAVTYVKIDGVLHEFATIPGVREDVADIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LKM G+ K + I G VTA +I +D+E+LNP+ I LD DAV ME+ + Sbjct: 83 KALCLKMEGEGEKILRIECSGEQEVTAANIIADSDVEILNPELHIATLDKDAVFNMEIHI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYVPA ++ + PIG+I +D++YSPI +V + V R G V +YDKL++ + TDG Sbjct: 143 DKGRGYVPADKNKQPDQPIGVIPVDSIYSPITRVKFAVNDTRVGNVTNYDKLTLEVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK-------VEE 262 SI +++V +AS IL D L +F + + + S P P K+ +++ Sbjct: 203 SIKPDEAVDMASTILIDYLKLFQTSDGKGSVIT--VAGGSEPEAPEPSKQEGQNTMSIDD 260 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 L+LSVRS NCLR I + +LIQ+TEADM+++ N G KSL EIK L MGL N Sbjct: 261 LDLSVRSNNCLRRAGINTVEELIQKTEADMIKVRNLGSKSLEEIKKKLEDMGLHFRKN 318 >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 = 247 bits (631), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 136/312 (43%), Positives = 204/312 (65%), Gaps = 8/312 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIDG 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK--EVKEDI 245 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E K EV ++ Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSTEVMKEA 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + +S + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E Sbjct: 239 DTES--DDRILDRTIEELDLSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEE 296 Query: 306 IKGVLGTMGLFL 317 +K L +GL L Sbjct: 297 VKLKLIDLGLGL 308 >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 = 247 bits (631), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 131/288 (45%), Positives = 191/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL G A+T +Q+DGVLHE S+I GV ED+ IILNI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGTAVTDIQMDGVLHEFSTIDGVVEDVAAIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK + K + I GP VVTAGDI+ +DIE+LNPD IC + + + Sbjct: 83 KKIALKSFSEDDKVLEIDIVGPAVVTAGDIKHDSDIEILNPDLYICTVAEGHRFHVRMNA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A +++++N PIG+I ID++Y+PI KV+Y VE+ R GQ YDKL++ + TDG Sbjct: 143 KNGRGYVRADYNKSDNMPIGVIPIDSIYTPISKVNYQVENTRIGQKNIYDKLTLDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI+ E++++LA+RIL + L +F+N + ++V+ + + L +EEL+LSVRS Sbjct: 203 SISPEEAISLAARILTEHLNIFVNLTDETRQVEIMVEKEETQKEKMLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++EA+M+++ N GRKSL E+K L + L L Sbjct: 263 YNCLKRAGINTVQELTNKSEAEMIKVRNLGRKSLEEVKHKLIELNLDL 310 >gi|300089409|gb|ADJ67856.1| RNA polymerase alpha-subunit [Photobacterium jeanii] Length = 274 Score = 247 bits (631), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 125/274 (45%), Positives = 186/274 (67%), Gaps = 7/274 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 4 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDVLEILLNLKGL 63 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V + Sbjct: 64 AVKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNADISMRIKVER 123 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA +SP+ +++Y VE+AR Q D DKL + + T+ Sbjct: 124 GRGYVPASARIHTEEDERPIGRLLVDATFSPVDRIAYAVEAARVEQRTDLDKLVIDMQTN 183 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+VR Sbjct: 184 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 240 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 S NCL+ E I Y+GDL+QRTE ++L+ N G+KS Sbjct: 241 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKS 274 >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 = 247 bits (630), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 126/292 (43%), Positives = 196/292 (67%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDGVLHE SSI GV ED+T+II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDGVLHEFSSIPGVKEDVTEIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K ++++ T + G GVVTA DIQ +DIE+LNP+ VI L D+ M Sbjct: 83 KSLAIKNLSETNEPKTAYIEFEGEGVVTAADIQVDSDIEILNPEQVIATLSGGTDSKFYM 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 EL ++KG GY+ A ++ + PIG+I +D++Y+P+++V+ TVE+ R GQV D+DKL++ + Sbjct: 143 ELNITKGRGYISADKNKNDELPIGMIAVDSIYTPVERVNMTVENTRVGQVTDFDKLTLDV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E + + + + L ++ELEL Sbjct: 203 FTNGTLAPDEAVSLAAKVLSEHLNLFIDLSENARTAEVMVEKEDNEKEKVLEMNIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 263 SVRSYNCLKRAGINTVEELCNRTPEDMMKVRNLGRKSLEEVLAKLKELGLQL 314 >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 = 247 bits (630), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 135/281 (48%), Positives = 189/281 (67%), Gaps = 9/281 (3%) 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 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY---VPAKHHRTENDPIGLI 171 A DI+ +D EV+NP+H+IC+L +A + ME+ V KG GY V K EN+ IG I Sbjct: 61 LASDIELPHDAEVINPNHIICHLSDNADIEMEIKVEKGRGYQSVVGRKKSGNENN-IGSI 119 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +DA +SPI +VS+ VE AR Q D D+L + I+TDGS+ E++V A+RIL DQ+ +F Sbjct: 120 QLDASFSPIARVSFDVEPARVEQRTDLDRLVLDIETDGSLEPEEAVRSAARILIDQMAVF 179 Query: 232 INFE-EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 + + P +EV+E + P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE Sbjct: 180 ADLQGTPVEEVEE----VAPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTET 235 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 ++L+ N GRKSL EIK VL + GL LG L WPP ++E+ Sbjct: 236 ELLKTPNLGRKSLNEIKEVLASKGLTLGSKLEAWPPVNLEK 276 >gi|251772518|gb|EES53084.1| DNA-directed RNA polymerase, alpha subunit [Leptospirillum ferrodiazotrophum] Length = 322 Score = 247 bits (630), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 134/297 (45%), Positives = 194/297 (65%), Gaps = 8/297 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EP RGF T+GNALRRVL+SS+ G AITA++ V HE S+I GV ED+TDIILN+ Sbjct: 25 VVVEPFERGFGITVGNALRRVLLSSIPGVAITAIRAKNVFHEFSNIPGVVEDVTDIILNL 84 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + +K + + +GP +V A DI TV +E+++PDHVI LD + M+L Sbjct: 85 KSLRMKPLLQGEHWLHLKVKGPRIVKASDIDTVGAVEMMDPDHVIATLDEGGHLDMDLKT 144 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYVPA H R+ +G+I IDA+++PI KV+Y VES R G++ DYD+L I+TDG Sbjct: 145 EFGRGYVPADHSRSTETEVGIIPIDAIFTPINKVNYFVESTRVGRITDYDRLIFEIETDG 204 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA-----LLKKVEELE 264 SIT ++++ A++IL+ L +F++ + + D + SL N + + K V ELE Sbjct: 205 SITPGEALSEAAKILRTHLDLFVSSD---LHLANDSSPLSLESNSSKEETIMDKSVNELE 261 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 LSVR+ NCL+ +I +G+L+ RTE ++L+ NFG+KSL EIK L +GL LGM+L Sbjct: 262 LSVRAANCLKSSDIKKIGELVIRTEDELLQTKNFGKKSLDEIKEALENIGLSLGMDL 318 >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 = 247 bits (630), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 137/297 (46%), Positives = 195/297 (65%), Gaps = 3/297 (1%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ T+GNALRRVL+SSLRG AITAV+IDGV HE S+I GV ED+ D+ILN+K + Sbjct: 28 PLERGYGVTIGNALRRVLLSSLRGLAITAVKIDGVQHEFSTIPGVTEDVADLILNLKEVR 87 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 K + + GPG TA DI + + +VLNPD + L DAVV ++L V G Sbjct: 88 FKADEMQEGHLHLNLEGPGNWTAADIDEATAEYDVLNPDQHVATLAEDAVVNVDLRVGYG 147 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYVP++ ++ E+DPIG+I ID++++PIK V+Y V+ R GQ +DY++L + ++TDGS+T Sbjct: 148 RGYVPSEENKREDDPIGVIAIDSIFTPIKNVNYEVKPTRVGQKIDYEELLLDVETDGSLT 207 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP--FNPALLKKVEELELSVRST 270 E+++ + IL+D + FI EE + V E+ V L + V+EL+LSVRS Sbjct: 208 PEEAITQGASILRDHVSFFIQLEEEPEPVVEEQEVDEEVKRIRELLAQPVDELDLSVRSH 267 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 NCL+ NI +GDL++R E +ML+ NFGRKSL E+ VL GL GM++ ++ E Sbjct: 268 NCLKAANIKTIGDLVRREEDEMLKFRNFGRKSLQELVEVLDERGLQFGMDVEEYLEE 324 >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 = 247 bits (630), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 137/297 (46%), Positives = 195/297 (65%), Gaps = 3/297 (1%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ T+GNALRRVL+SSLRG AITAV+IDGV HE S+I GV ED+ D+ILN+K + Sbjct: 21 PLERGYGVTIGNALRRVLLSSLRGLAITAVKIDGVQHEFSTIPGVTEDVADLILNLKEVR 80 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 K + + GPG TA DI + + +VLNPD + L DAVV ++L V G Sbjct: 81 FKADEMQEGHLHLNLEGPGNWTAADIDEATAEYDVLNPDQHVATLAEDAVVNVDLRVGYG 140 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYVP++ ++ E+DPIG+I ID++++PIK V+Y V+ R GQ +DY++L + ++TDGS+T Sbjct: 141 RGYVPSEENKREDDPIGVIAIDSIFTPIKNVNYEVKPTRVGQKIDYEELLLDVETDGSLT 200 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP--FNPALLKKVEELELSVRST 270 E+++ + IL+D + FI EE + V E+ V L + V+EL+LSVRS Sbjct: 201 PEEAITQGASILRDHVSFFIQLEEEPEPVVEEQEVDEEVKRIRELLAQPVDELDLSVRSH 260 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 NCL+ NI +GDL++R E +ML+ NFGRKSL E+ VL GL GM++ ++ E Sbjct: 261 NCLKAANIKTIGDLVRREEDEMLKFRNFGRKSLQELVEVLDERGLQFGMDVEEYLEE 317 >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 = 247 bits (630), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 126/291 (43%), Positives = 193/291 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL G A +V+I+GVLHE S++KGV ED+T++ILNI Sbjct: 23 FVVEPLERGYGITLGNSLRRILLSSLPGVAANSVRIEGVLHEFSTVKGVKEDVTELILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LKM G+ K + I GPG VT DI+T +EV+N D I LD D + ME+ V Sbjct: 83 KALCLKMEGEDSKVIYIDAHGPGEVTGADIRTDGSVEVINKDLHIATLDEDGKLYMEIEV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 ++G GYV ++ ++ PIG I +D++YSPIK+V++TVE+ R Q+ DYDKL++ + +G Sbjct: 143 NRGRGYVTQNKNKRDDMPIGTIAVDSIYSPIKRVNFTVENTRVAQITDYDKLTIEVWGNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I E++++LA++IL + +F+ + +V+ + + L +EEL+LSVRS Sbjct: 203 TIRPEEAISLAAKILIEHFKLFMTLTDHADDVEIMVEKEEDKKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 NCL+ I + +L QR+ DM+++ N GRKSL E++ L +GL L +N Sbjct: 263 YNCLKRAGINTVQELTQRSMEDMMKVRNLGRKSLEEVEQKLKALGLSLKLN 313 >gi|260656834|gb|ACX47807.1| RNA polymerase alpha-subunit [Vibrio litoralis] Length = 276 Score = 247 bits (630), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 129/279 (46%), Positives = 192/279 (68%), 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 LKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 + ++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + V + Sbjct: 61 VSVAEGKDEVFITLKKSGSGPVVAGDIIHDGDVEIANPEHVICHLTDDKAEIAMRIKVQR 120 Query: 152 GHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVP A+ H E++ 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++ + + + + F+P LL+ V++LEL+VR Sbjct: 181 GTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 237 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK Sbjct: 238 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIK 276 >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 = 247 bits (630), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 135/312 (43%), Positives = 200/312 (64%), Gaps = 8/312 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKDYGVFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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 KSLPFNPALLKKVEELELSVRSTNCLR--GENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + + L + +EEL+LSVRS NCL+ G N VY DL +++EA+M+++ N GRKSL E Sbjct: 239 DTTSDDRILERTIEELDLSVRSYNCLKRAGINTVY--DLTEKSEAEMMKVRNLGRKSLEE 296 Query: 306 IKGVLGTMGLFL 317 +K L +GL L Sbjct: 297 VKIKLADLGLGL 308 >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 = 247 bits (630), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 128/288 (44%), Positives = 196/288 (68%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGV+HE ++I GV ED+ IILNI Sbjct: 23 IVIEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVVHEFATIDGVVEDVPTIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + + GP +VTA DI ND+++LNP+ IC L A ++M L Sbjct: 83 KNLALKLYTEEDKVLELNAVGPKIVTAADIIHDNDVQILNPELEICTLAEGAEIKMLLNA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 S G GYV + +++++ IG++ ID++Y+P+KKV+Y VE+ R GQ DKL++ I TDG Sbjct: 143 STGRGYVRSDFNKSDDTTIGVLPIDSIYTPVKKVNYQVENTRIGQQNICDKLTLDIWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI+ E S++LA++IL + L +F++ E ++V+ + + L+ +EEL+LSVRS Sbjct: 203 SISPEKSLSLAAKILIEYLNVFVDLNEEARDVEIMVEKEETEKEKVLVMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +TEA+M+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTIQELTNKTEAEMMKVRNLGRKSLTEVKNKLNDLGLGL 310 >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 = 247 bits (630), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 129/292 (44%), Positives = 198/292 (67%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAAI++V+IDGVLHE SSI GV ED+T+II+N+ Sbjct: 23 FVVEPLERGYGITLGNSLRRIMLSSLPGAAISSVKIDGVLHEFSSIPGVKEDVTEIIMNL 82 Query: 90 KGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K + +S K I G G+VT DIQT +DIE++NP+ VI L D+ + M Sbjct: 83 KSLAIKNTSESDEVKTAYIEFEGEGIVTGADIQTDSDIEIMNPEQVIATLSGGKDSKLYM 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GYV A +++E+ PIG+I ID++Y+P+++V+ TV++ R GQV DYDKL++ + Sbjct: 143 ELTITKGRGYVSADKNKSEDMPIGVIPIDSIYTPVERVNMTVQNTRVGQVTDYDKLTLDV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T G++ +++V+LA+++L + L +FI+ E + + I + L ++ELEL Sbjct: 203 WTKGTLLPDEAVSLAAKVLSEHLKLFIDLSEVAQSAEVMIEKEDDEKEKVLEMSIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +L +T DM+++ N GRKSL E+ L + L L Sbjct: 263 SVRSYNCLKRAGINTVEELTNKTPEDMMKVRNLGRKSLEEVLAKLKELNLEL 314 >gi|58415944|emb|CAH57386.1| RNA polymerase alpha-subunit [Vibrio mytili] Length = 294 Score = 247 bits (630), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 125/276 (45%), Positives = 189/276 (68%), Gaps = 8/276 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GY+PA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 142 RGRGYIPASARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 >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 = 246 bits (629), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 126/288 (43%), Positives = 191/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILNI Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNI 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K D K + + GP VTAGDI T +D+E++NPDH + + ++ +T+ Sbjct: 81 KGLAVKSYVDDEKIIELDVEGPAEVTAGDILTDSDVEIVNPDHYLFTIAEGHSLKATMTI 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +K GYVPA+ ++ E+ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 141 AKNRGYVPAEGNKKEDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTLEIMTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I ED++ L++R+L + L +F + E K + + L + +EEL+LSVRS Sbjct: 201 TIIPEDALGLSARVLIEHLNLFTDLTEVAKNTDVMKETEKVNDEKVLDRTIEELDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL ++TE +M+++ N GRKSL E+K L +GL L Sbjct: 261 YNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVKVKLADLGLGL 308 >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 = 246 bits (629), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 135/312 (43%), Positives = 204/312 (65%), Gaps = 8/312 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIDG 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK--EVKEDI 245 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E K EV ++ Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSTEVMKEA 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + +S + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E Sbjct: 239 DTES--DDRILDRTIEELDLSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEE 296 Query: 306 IKGVLGTMGLFL 317 +K L +GL L Sbjct: 297 VKLKLIDLGLGL 308 >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 = 246 bits (629), Expect = 3e-63, Method: Compositional matrix adjust. Identities = 130/292 (44%), Positives = 195/292 (66%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDGVLHE SSI GV ED+++II+N+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDGVLHEFSSIPGVKEDVSEIIMNL 82 Query: 90 KGINLK-MSGDSH-KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K S DS K I G GVVTA DIQ DIE++NP+ VI L+ D + M Sbjct: 83 KSLAIKNKSNDSEPKTAYIECEGKGVVTAADIQADQDIEIMNPEQVIATLNGGKDCRLAM 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GYV A ++++ PIG+I +DA+Y+P+ +V+ VE+ R GQ+ D+DKL++ + Sbjct: 143 ELTITKGRGYVSADKGKSDDMPIGVIAVDAIYTPVDRVNLVVENTRVGQITDFDKLTLDV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E K + I + L ++ELEL Sbjct: 203 YTNGTLDPDEAVSLAAKVLSEHLSLFIDLSENAKTAEVMIEKEDNEKEKVLEMSIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 263 SVRSYNCLKRAGINTVEELCNRTSDDMMKVRNLGRKSLEEVLAKLKELGLQL 314 >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 = 246 bits (629), Expect = 3e-63, Method: Compositional matrix adjust. Identities = 130/292 (44%), Positives = 196/292 (67%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAAI++V+IDGVLHE SSI GV ED+T+II+N+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAISSVKIDGVLHEFSSIPGVKEDVTEIIMNL 82 Query: 90 KGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K + +S K I G GVVT DIQ +DIE++NPD VI L D+ + M Sbjct: 83 KSLAIKNTSESDEVKTAYIEFEGEGVVTGADIQADSDIEIMNPDQVIATLSGGKDSKLYM 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GYV A ++ E+ PIG+I ID++Y+P+++V+ TVE+ R GQ+ DYDKL++ + Sbjct: 143 ELTITKGRGYVSADKNKNEDLPIGVIPIDSIYTPVERVNLTVENTRVGQITDYDKLTLDV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T G++ +++V+LA+++L + L +FI+ E + + I + L ++ELEL Sbjct: 203 WTKGTLLPDEAVSLAAKVLSEHLKLFIDLSEVAQAAEVMIEKEDDEKEKVLEMSIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +L +T DM+++ N GRKSL E+ L + L L Sbjct: 263 SVRSYNCLKRAGINTVEELTNKTPEDMMKVRNLGRKSLEEVLAKLKELDLEL 314 >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 = 246 bits (629), Expect = 3e-63, Method: Compositional matrix adjust. Identities = 126/288 (43%), Positives = 193/288 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILNI Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNI 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K V + GP +TAGDI T +DIE++NPDH + + A ++ +TV Sbjct: 81 KGLAVKSYVEEEKIVELDVEGPAEITAGDILTDSDIEIVNPDHYLFTIAEGANLKATMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GYVPA+ ++ ++ P+G + ID++Y+P+KKV+Y VE AR G ++DKL++ I T+G Sbjct: 141 ATNRGYVPAEKNKRDDAPVGTLAIDSIYTPVKKVNYQVEPARVGSNDNFDKLTIEIMTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I ED++ L++R+L + L +F + E K + + L + +EEL+LSVRS Sbjct: 201 TIIPEDALGLSARVLIEHLNLFTDLTEVAKATDVMKETEQVSDEKVLDRTIEELDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL +++E++M+++ N GRKSL E+K L +GL L Sbjct: 261 YNCLKRAGINTVYDLTEKSESEMMKVRNLGRKSLEEVKVKLADLGLGL 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 = 246 bits (629), Expect = 3e-63, Method: Compositional matrix adjust. Identities = 127/292 (43%), Positives = 193/292 (66%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDGVLHE SSI GV ED+T+II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDGVLHEFSSIPGVKEDVTEIIMNI 82 Query: 90 KGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K + D+ K I G GV+TA DIQ DIE++NPD +I L D+ M Sbjct: 83 KSLAIKNNSDTDEPKVAYIEFEGEGVITAADIQADADIEIMNPDQIIATLSGGTDSKFYM 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GY+ A ++ ++ PIG+I +D++Y+P+++V+ V + R GQ DYDKL++ I Sbjct: 143 ELTITKGRGYISADKNKNDDLPIGVIAVDSIYTPVERVNMAVANTRVGQQTDYDKLTLEI 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E K + + + L ++ELEL Sbjct: 203 YTNGTLAPDEAVSLAAKVLSEHLNLFIDLSENAKTAEIMVEKEDNEKEKVLEMNIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 263 SVRSYNCLKRAGINTVEELCNRTSEDMMKVRNLGRKSLEEVLAKLKELGLQL 314 >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 = 246 bits (629), Expect = 3e-63, Method: Compositional matrix adjust. Identities = 131/285 (45%), Positives = 197/285 (69%), Gaps = 1/285 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRRVL+SSL GAAIT+V+I+GV HE S+I GV ED++++ILN+KG+ Sbjct: 25 PLERGYGITLGNSLRRVLLSSLPGAAITSVKIEGVRHEFSTIPGVVEDVSEVILNLKGVV 84 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK G+ +++T+ G G VTAGD +T DIEV+NPDH I L +++E TV G Sbjct: 85 LKYKGEDIEKITLNCEGEGEVTAGDFKTSGDIEVINPDHHIATLAEGGKLQLEATVEFGR 144 Query: 154 GYVPAKHHRTENDP-IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A+ ++ D IGLI ID+ +SPI++ ++ VE+ R GQV DYD+L + + T+GSI+ Sbjct: 145 GYVTAEENKEHFDRVIGLIPIDSSFSPIERANFKVENTRVGQVTDYDRLVLEVYTNGSIS 204 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 ED+++LA++I+ + L +F+N + +V+ + + + L +EEL+LSVRS+NC Sbjct: 205 PEDAISLAAKIMVEHLELFLNLTDEVTDVEIMVEKEEEEKDKILDTTIEELDLSVRSSNC 264 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+ I +G+LI +TE D++++ N G+KSL EIK L + L L Sbjct: 265 LKRAGINTVGELINKTEDDLMKVRNLGKKSLQEIKEKLNELDLKL 309 >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 = 246 bits (629), Expect = 3e-63, Method: Compositional matrix adjust. Identities = 134/295 (45%), Positives = 190/295 (64%), Gaps = 2/295 (0%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E +N + EPL RG+ TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+GV ED+ Sbjct: 14 ENDNYGRFVIEPLERGYGTTLGNSLRRILLSSLPGAAITSVQIDSVLHEFSTIEGVVEDV 73 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ IC + Sbjct: 74 TQIILNLKKVSLKIESDEDKTLEINVAGPANVTAGDIMGDGDVVILNPELPICTVAEGTT 133 Query: 143 VRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 LT G GY A + R + PIG++ ID++Y+PI++V+Y VE+ R GQ DYDK Sbjct: 134 FHAVLTADTGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDK 193 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L++ I TDGSIT ++ +L+++IL + L +F+N + KE + + + L + Sbjct: 194 LTLDIWTDGSITPSEATSLSAKILTEHLAIFVNLNDQAKETEIMVEKEETHKEKMLEMTI 253 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 EEL+LSVRS NCL+ I + +L RT+A M+++ N GRKSLVEI+ L +GL Sbjct: 254 EELDLSVRSYNCLKRAGINSVQELTDRTDAQMMKVRNLGRKSLVEIQEKLSLLGL 308 >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 = 246 bits (629), Expect = 3e-63, Method: Compositional matrix adjust. Identities = 132/306 (43%), Positives = 197/306 (64%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 IV E+ N + PL RG+ TLGN+LRRVL+SSL GAAI+ + I GV HE+S+IKG Sbjct: 11 IVELDEQNNYGKFVIMPLERGYGTTLGNSLRRVLLSSLPGAAISKINIQGVAHEMSTIKG 70 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +IILN+KGI +K + + + +GP V+TA DI D+EV NPDH I L Sbjct: 71 VKEDVPEIILNLKGIAVKKYNEEPISLNVDIKGPCVLTAKDILVDTDLEVKNPDHYIATL 130 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + DA + M++TV G GY ++ ++T+ D IG I ID+L+SP+KKV++TV++AR GQV+D Sbjct: 131 NEDASLEMQITVINGKGYKISEFNKTDEDIIGDIAIDSLFSPVKKVNFTVDNARVGQVID 190 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 YDKL++ + T+G+I +D+++ S IL + L +F + D ++ Sbjct: 191 YDKLTIEVWTNGTIRPQDALSEGSNILINCLELFSELPNYECNTNSDDEDNQKDKETQMV 250 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+ S+RS NCL+ NI +GD++ T+ADM+++ NFG+KSL E++ L MGL Sbjct: 251 INIEELDFSLRSFNCLKRANINTVGDIVSHTKADMMKIKNFGKKSLDEVEEKLQEMGLAF 310 Query: 318 GMNLPD 323 + D Sbjct: 311 KQEIKD 316 >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 = 246 bits (628), Expect = 3e-63, Method: Compositional matrix adjust. Identities = 127/288 (44%), Positives = 191/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILNI Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNI 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K D K + + GP VTAGDI T +D+E++NPDH + + ++ +TV Sbjct: 81 KGLAVKSYVDDEKIIELDVEGPAEVTAGDILTDSDVEIVNPDHYLFTIAEGHSLKATMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +K GYVPA+ ++ E+ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 141 AKKRGYVPAEGNKKEDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I ED++ L++R+L + L +F + E K + + L + +EEL+LSVRS Sbjct: 201 TIIPEDALGLSARVLIEHLNLFTDLTEVAKNTDVMKETEKVNDEKVLDRTIEELDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL ++TE +M+++ N GRKSL E+K L +GL L Sbjct: 261 YNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVKVKLADLGLGL 308 >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 = 246 bits (628), Expect = 3e-63, Method: Compositional matrix adjust. Identities = 128/293 (43%), Positives = 196/293 (66%), Gaps = 4/293 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL G+AI+ V+IDGVLHE SSI GV ED+T+II+N+ Sbjct: 26 FVVEPLERGYGTTLGNSLRRIMLSSLPGSAISQVKIDGVLHEFSSIPGVKEDVTEIIMNL 85 Query: 90 KGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K + D K I G GVVTA DIQ DIE++NP+ VI L+ D+ + M Sbjct: 86 KSLAIKNTSETDEPKTAYIEFEGEGVVTAADIQVDQDIEIMNPETVIATLNGGADSKLYM 145 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GYV A+ ++ + PI +I ID++Y+P+++V+ TVE+ R GQ+ D+DKL++ + Sbjct: 146 ELTITKGRGYVSAEKNKNDELPIAVIPIDSIYTPVERVNLTVENTRVGQITDFDKLTLDV 205 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E + + I + L ++ELEL Sbjct: 206 YTNGTLLPDEAVSLAAKVLSEHLKLFIDLSEVAQAAEVMIEKEDDEKEKVLEMSIDELEL 265 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 SVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 266 SVRSYNCLKRAGINTVEELTNRTSEDMMKVRNLGRKSLEEVLAKLDELGLSLS 318 >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 = 246 bits (628), Expect = 3e-63, Method: Compositional matrix adjust. Identities = 126/276 (45%), Positives = 189/276 (68%), Gaps = 8/276 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 10 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 69 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 +++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + V Sbjct: 70 SVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDSADIAMRIKVE 129 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 130 RGRGYVPASARIHTDEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 189 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 190 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 246 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 247 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 282 >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 = 246 bits (628), Expect = 3e-63, Method: Compositional matrix adjust. Identities = 125/275 (45%), Positives = 189/275 (68%), Gaps = 8/275 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H+ + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHNEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 RS NCL+ E I Y+GDL+QRTE ++L+ N G+KS Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKS 293 >gi|332077536|gb|EGI87997.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae GA41301] Length = 311 Score = 246 bits (628), Expect = 4e-63, Method: Compositional matrix adjust. Identities = 135/312 (43%), Positives = 204/312 (65%), Gaps = 8/312 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIDG 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK--EVKEDI 245 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E + EV ++ Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIARSTEVMKEA 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + +S + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E Sbjct: 239 DTES--DDRILDRTIEELDLSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEE 296 Query: 306 IKGVLGTMGLFL 317 +K L +GL L Sbjct: 297 VKLKLIDLGLGL 308 >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 = 246 bits (628), Expect = 4e-63, Method: Compositional matrix adjust. Identities = 136/312 (43%), Positives = 203/312 (65%), Gaps = 4/312 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P IE+ N +AEP RG T+GN+LRR LMSS+ GAAI+A++I+GV H Sbjct: 12 RPKKIEFTT-DVNTPNYGKFVAEPFERGIGTTIGNSLRRTLMSSIEGAAISAIRIEGVSH 70 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMS---GDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 E S I+GV ED+T IILN+K + +K ++ K + + +G G A D+ + IE+ Sbjct: 71 EFSYIEGVAEDVTRIILNLKQVRIKYEPEDKEASKVIHLELKGAGYFRAADLAVDSSIEI 130 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPD I L+ DA + M+L + +G GYVPA+ + + + +G I ID+++SPI+KV + V Sbjct: 131 MNPDLHIATLNEDANLIMDLEIQRGRGYVPAEDKKKDIEVLGTIPIDSIFSPIQKVLFEV 190 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 R Q DY+KL+M + TDGS++ ED+VA A++IL+D L +FINFEE +E +E+++ Sbjct: 191 SETRVAQRSDYEKLTMEVWTDGSVSPEDAVAQAAKILKDHLTVFINFEEEIEEEEEELDE 250 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 AL K VEELELSVRSTN LR I ++G+L++R+E +M + +F +SL+E+K Sbjct: 251 ADEKLKAALSKHVEELELSVRSTNVLRSLEIDFIGELVKRSEDEMTKSKHFSEQSLLELK 310 Query: 308 GVLGTMGLFLGM 319 L +MGL GM Sbjct: 311 AKLSSMGLSFGM 322 >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 = 246 bits (628), Expect = 4e-63, Method: Compositional matrix adjust. Identities = 132/291 (45%), Positives = 194/291 (66%), Gaps = 5/291 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL G A+T V+IDGV HE S++ GV ED+T+IILNI Sbjct: 23 FVVEPLERGYGTTLGNSLRRVLLSSLPGVAVTQVKIDGVQHEFSTVPGVKEDVTEIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ K+ D K V I G VTAGDI+T +++E+L+P+ I L A + ME+T+ Sbjct: 83 KGLTAKLHSDGPKVVYIDAEGECKVTAGDIKTDSEVEILDPNMHIATLAAGAKLYMEITL 142 Query: 150 SKGHGYVPAKHHRTENDP-IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 KG GYV A+ ++ P IG+I +D++Y+P+ KV+Y VE+ R GQ+ DYDKL++ + TD Sbjct: 143 DKGRGYVAAERNKQNLQPAIGVIPVDSIYTPVLKVNYAVENTRVGQITDYDKLTLEVWTD 202 Query: 209 GSITGEDSVALASRILQDQLGMFINF--EEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 +I+ +++V++ ++IL + LG+F+ E E+ + + KS L +EEL+LS Sbjct: 203 ATISAKEAVSIGAKILNEHLGLFVALCAETQSTEIMVEKDDKS--KEKVLEMTIEELDLS 260 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 VRS NCL+ I + DLI RTE DM+++ N GRKSL E+ L ++G L Sbjct: 261 VRSFNCLKRAGINTVEDLINRTEDDMMKVRNLGRKSLEEVISKLNSLGFSL 311 >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 = 246 bits (628), Expect = 4e-63, Method: Compositional matrix adjust. Identities = 130/279 (46%), Positives = 184/279 (65%), Gaps = 7/279 (2%) 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 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY--VPAKHHRTENDPIGLIT 172 TA DI +D++V+NP HVICNL + + ME+ V +G GY V + + 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 NFE-EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 + + P +EV+E K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE + Sbjct: 181 DLQGTPVEEVEE----KTPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETE 236 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 +L+ N GRKSL EIK VL + GL LG L WPP +E Sbjct: 237 LLKTPNLGRKSLNEIKEVLASKGLTLGSKLEAWPPAGLE 275 >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 = 246 bits (627), Expect = 4e-63, Method: Compositional matrix adjust. Identities = 126/290 (43%), Positives = 198/290 (68%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ TLGNALRR+L+SSL G A ++V+IDGVLHE S+++GV ED+T++ILNIK Sbjct: 24 VVEPLERGYGITLGNALRRILLSSLPGVATSSVKIDGVLHEFSTVQGVKEDVTELILNIK 83 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + L+M+G+ K + I +GPG VT DI+T D+EV+N D I LD + + MELTV+ Sbjct: 84 SLALRMNGEGPKVIYIDAKGPGEVTGADIKTDGDVEVVNKDLHIATLDDNGRLYMELTVN 143 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 +G GYV ++++ PI I ID++Y+P+KKV++TV++ R GQ+ DYDKL++ I T+G+ Sbjct: 144 RGRGYVTQNKNKSDELPISSIAIDSIYTPVKKVNFTVDNTRVGQITDYDKLTLEIWTNGT 203 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 I +++++L+++IL + +F++ +V+ I + L VEEL+LSVRS Sbjct: 204 IKIDEAISLSAKILIEHFKLFMSLTNNTNDVEIMIEKEEDKKEKVLEMTVEELDLSVRSY 263 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 NCL+ I + +L ++ DM+++ N G+KSL E++ L +GL L +N Sbjct: 264 NCLKRAGINTVQELATKSMDDMMKVRNLGKKSLEEVERKLKELGLCLKLN 313 >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 = 246 bits (627), Expect = 4e-63, Method: Compositional matrix adjust. Identities = 124/288 (43%), Positives = 193/288 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL G A +++IDGVLHE S++ GV ED+T++ILNI Sbjct: 23 FVIEPLERGYGITLGNSLRRILLSSLPGVAANSIKIDGVLHEFSTVTGVKEDVTELILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM+G+ + I +GPG VTA DI + +IEV+N D I LD D + ME+ + Sbjct: 83 KGLALKMNGEGPSTIYIEAQGPGEVTAADIISDGNIEVMNKDMHIATLDDDGKLYMEINI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYV ++ E+ PIG I +D++Y+P+K+V++TVE+ R GQ+ DYDKLS+ + T+G Sbjct: 143 DRGRGYVTQNKNKKEDLPIGTIPVDSIYTPVKRVNFTVENTRVGQITDYDKLSIEVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I E++++L+++IL + +F+ + V+ + + L +EEL+LSVRS Sbjct: 203 TIQPEEAISLSAKILIEHFKLFMTLTDHADNVEIMVEKEEDKKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +RT DM+++ N G+KSL E++ L +GL L Sbjct: 263 YNCLKRAGINTVQELTERTIDDMMKVRNLGKKSLEEVQEKLAALGLGL 310 >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 = 246 bits (627), Expect = 5e-63, Method: Compositional matrix adjust. Identities = 136/308 (44%), Positives = 200/308 (64%), Gaps = 4/308 (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 GVLGTMGL 315 L +GL Sbjct: 299 NKLTELGL 306 >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 = 246 bits (627), Expect = 5e-63, Method: Compositional matrix adjust. Identities = 124/290 (42%), Positives = 199/290 (68%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ TLGNALRR+L+SSL G A T+V+IDGVLHE S+++GV ED+T++ILNIK Sbjct: 24 VVEPLERGYGITLGNALRRILLSSLPGVAPTSVKIDGVLHEFSTVQGVKEDVTELILNIK 83 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + LKM+G+ K + I +GPG VT DI+T D+EV+N D I LD D + MELTV+ Sbjct: 84 SLALKMNGEGPKVIYIDAKGPGEVTGADIKTDGDVEVVNKDLHIATLDSDGRLYMELTVN 143 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 G GYV +++++ PI I +D++Y+P+K+V++TV++ R GQ+ DYDKL++ I T+G+ Sbjct: 144 NGRGYVTQNKNKSDDLPISSIAVDSIYTPVKRVNFTVDNTRVGQITDYDKLTLEIWTNGT 203 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 I +++++L+++IL + +F++ + +++ + + L VEEL+LSVRS Sbjct: 204 IRIDEAISLSAKILIEHFKLFMSLTDNTNDIEVMVEKEEDKKEKVLEMTVEELDLSVRSY 263 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 NCL+ I + +L ++ DM+++ N G+KSL E++ L +GL L ++ Sbjct: 264 NCLKRAGINTVQELATKSMDDMMKVRNLGKKSLEEVERKLKELGLCLKLS 313 >gi|157493285|gb|ABV58008.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 272 Score = 246 bits (627), Expect = 5e-63, Method: Compositional matrix adjust. Identities = 124/275 (45%), Positives = 189/275 (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 LKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSK 151 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D 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++ + + + + F+P LL+ V++LEL+VR Sbjct: 181 GTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 237 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 272 >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 = 246 bits (627), Expect = 5e-63, Method: Compositional matrix adjust. Identities = 127/292 (43%), Positives = 193/292 (66%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDGVLHE SSI GV ED+T+II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDGVLHEFSSIPGVKEDVTEIIMNI 82 Query: 90 KGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K + D+ K I G GV+TA DIQ DIE++NPD VI L D+ M Sbjct: 83 KSLAIKNNSDTDEPKVAYIEFEGEGVITAADIQADADIEIMNPDQVIATLSGGTDSKFYM 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GY+ A ++ ++ PIG+I +D++Y+P+++V+ V + R GQ D+DKL++ I Sbjct: 143 ELTITKGRGYISADKNKNDDLPIGVIAVDSIYTPVERVNMAVTNTRVGQQTDFDKLTLEI 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E K + + + L ++ELEL Sbjct: 203 YTNGTLAPDEAVSLAAKVLSEHLNLFIDLSENAKTAEIMVEKEDNEKEKVLEMNIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 263 SVRSYNCLKRAGINTVEELCNRTSEDMMKVRNLGRKSLEEVLAKLKELGLQL 314 >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 = 246 bits (627), Expect = 5e-63, Method: Compositional matrix adjust. Identities = 129/289 (44%), Positives = 197/289 (68%), Gaps = 1/289 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL G A+T+V+IDGVLHE S++ GV ED+TDIILN+ Sbjct: 22 FIVEPLERGYGITLGNSLRRILLSSLPGVAVTSVKIDGVLHEFSTVPGVREDVTDIILNL 81 Query: 90 KGINLKMSGDSHKRV-TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 K + LKM G++ +++ I +G G V AGDI +D+E+LNPD I L + + M++T Sbjct: 82 KSLRLKMHGEADEKILRIEAQGEGEVRAGDIVPDSDVEILNPDMYIATLAANGRLSMDIT 141 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 +++G GY A+ ++ IG+I ID++++P+ KV+Y+VE+ R GQ DYDKLS+ I TD Sbjct: 142 IARGRGYFSAERNKKGEPIIGVIPIDSIFTPVYKVNYSVENTRVGQRTDYDKLSIEIWTD 201 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 GSI +++ +LA++I+ + L +FI E K+V+ + + + + +EEL+LSVR Sbjct: 202 GSIHPDEAASLAAKIMSEHLQLFIGLTEETKDVEIMVEKEEEKKDKIMEMTIEELDLSVR 261 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 S NCL+ I + +LIQR E DM+++ N G+KSL E+ L +G+ L Sbjct: 262 SYNCLKRACINTVEELIQRNEEDMMKVRNLGKKSLEEVIQKLNELGVSL 310 >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 = 245 bits (626), Expect = 5e-63, Method: Compositional matrix adjust. Identities = 126/295 (42%), Positives = 193/295 (65%), Gaps = 2/295 (0%) Query: 25 ENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EN T + EPL RG+ TLGN+LRR+L+SSL GAA+T VQIDG LHE S++ GV ED+ Sbjct: 16 ENATFGKFVVEPLERGYGATLGNSLRRILLSSLPGAAVTTVQIDGALHEFSTVDGVVEDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILN+K + LK+ + K + I +G G VTA D+ +D+EV+NPD I L+ Sbjct: 76 TTIILNLKKLALKIYSEEPKTLEIDVQGEGAVTAADLTYDSDVEVMNPDLHIATLNSKGN 135 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + M+L +G GY PA+ ++ ++ PIG+I ID++++P+ +V+Y VE+ R GQV +YDKL+ Sbjct: 136 LHMKLIAERGRGYRPAEENKNDDQPIGVIPIDSIFTPVSRVTYQVENTRVGQVANYDKLT 195 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 M + TDGSI E++V+L ++I+ + L +F+ + + + + + + +EE Sbjct: 196 MDVSTDGSIRPEEAVSLGAKIITEHLNIFVGLTDEAQNAEIMVEKEEDQKEKVMEMTIEE 255 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+LSVRS NCL+ I + +L ++E DM+++ N GRKSL E+K L +GL L Sbjct: 256 LDLSVRSYNCLKRAGINTVQELANKSEEDMMKVRNLGRKSLEEVKVKLEDLGLGL 310 >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 = 245 bits (626), Expect = 6e-63, Method: Compositional matrix adjust. Identities = 136/308 (44%), Positives = 200/308 (64%), Gaps = 4/308 (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 GVLGTMGL 315 L +GL Sbjct: 299 NKLTELGL 306 >gi|300089407|gb|ADJ67855.1| RNA polymerase alpha-subunit [Photobacterium jeanii] Length = 270 Score = 245 bits (626), Expect = 6e-63, Method: Compositional matrix adjust. Identities = 124/273 (45%), Positives = 185/273 (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 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKG 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++ + + + + F+P LL+ V++LEL+VRS Sbjct: 181 TLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRS 237 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 NCL+ E I Y+GDL+QRTE ++L+ N G+KS Sbjct: 238 ANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKS 270 >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 = 245 bits (626), Expect = 6e-63, Method: Compositional matrix adjust. Identities = 125/291 (42%), Positives = 196/291 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL G A +++IDGVLHE S++KGV ED+T++ILN+ Sbjct: 23 FVIEPLERGYGITLGNSLRRILLSSLPGVAANSIKIDGVLHEFSTVKGVKEDVTELILNV 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LKM+G+ K + I +GP VVTA DI T + +EV++ D I LD D ++ME+ V Sbjct: 83 KPLALKMNGEGPKTIYIDAQGPAVVTAADIITDDSVEVISKDLHIATLDEDGRLQMEIEV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + G GYV ++ ++ PIG I ID++Y+PI +V++TVE+ R GQ+ DYDKL++ + T+G Sbjct: 143 NSGRGYVTQNKNKRDDMPIGTIAIDSIYTPITRVNFTVENTRVGQITDYDKLTLEVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I E++++L+S+IL + L +F+ + V+ + + L +EEL+LSVRS Sbjct: 203 TIRPEEAISLSSKILIEHLKLFMTLTDNADNVEIMVEKEEDKKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 NCL+ I + +L +R+ DM+++ N G+KSL E+ L +GL L +N Sbjct: 263 YNCLKRAGINTVQELTERSMDDMMKVRNLGKKSLEEVDQKLTALGLGLKLN 313 >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 = 245 bits (626), Expect = 6e-63, Method: Compositional matrix adjust. Identities = 128/292 (43%), Positives = 197/292 (67%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAAI++V+IDGVLHE SSI GV ED+T+II+N+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAISSVKIDGVLHEFSSIPGVKEDVTEIIMNL 82 Query: 90 KGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K + +S K I G GVVT DIQ +DIE++NP+ VI L D+ + M Sbjct: 83 KSLAIKNTSESDEVKTAYIEYEGEGVVTGADIQADSDIEIVNPEQVIATLSGGKDSKLYM 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GYV + ++TE+ PIG++ ID++Y+PI +V+ TV++ R GQ+ DYDKL++ + Sbjct: 143 ELTITKGRGYVSSDKNKTEDMPIGVLPIDSIYTPIDRVNLTVQNTRVGQITDYDKLTLDV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T G++ +++V+LA+++L + L +FI+ E ++ + I + L ++ELEL Sbjct: 203 WTKGTMAPDEAVSLAAKVLSEHLKLFIDLSEVAQQAEVMIEKEDDEKEKVLEMSIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +L +T DM+++ N GRKSL E+ L + L L Sbjct: 263 SVRSYNCLKRAGINTVEELTNKTPEDMMKVRNLGRKSLEEVLAKLKELNLEL 314 >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 = 245 bits (626), Expect = 7e-63, Method: Compositional matrix adjust. Identities = 127/288 (44%), Positives = 191/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILNI Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNI 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K D K + + GP VTAGDI T +D+E++NPDH + + ++ +TV Sbjct: 81 KGLAVKSYVDDEKIIELDVEGPAEVTAGDILTDSDVEIVNPDHYLFTIAEGHSLKAIMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +K GYVPA+ ++ E+ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 141 AKKRGYVPAEGNKKEDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I ED++ L++R+L + L +F + E K + + L + +EEL+LSVRS Sbjct: 201 TIIPEDALGLSARVLIEHLNLFTDLTEVAKNTDVMKETEKVNDEKVLDRTIEELDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL ++TE +M+++ N GRKSL E+K L +GL L Sbjct: 261 YNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVKVKLADLGLGL 308 >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 = 245 bits (626), Expect = 7e-63, Method: Compositional matrix adjust. Identities = 126/288 (43%), Positives = 191/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE ++ GV ED+ IILNI Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNI 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K + + +GP VTAGDI T +DIE++NPDH + + A + +TV Sbjct: 81 KGLAVKSYVEDEKTIELDVQGPAEVTAGDILTDSDIEIVNPDHYLFTIAEGASFQATMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 S GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 141 STNRGYVPAEENKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIVTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I ED++ L++RIL + L +F + + K + + L + +EEL+LSVRS Sbjct: 201 TIIPEDALGLSARILIEHLNLFTDLTDVAKATDVMKETEKVNDEKLLDRTIEELDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL ++TE +M+++ N GRKSL E+K L +GL L Sbjct: 261 YNCLKRAGINTVHDLTEKTEPEMMKVRNLGRKSLEEVKVKLADLGLGL 308 >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 = 245 bits (626), Expect = 7e-63, Method: Compositional matrix adjust. Identities = 134/312 (42%), Positives = 204/312 (65%), Gaps = 8/312 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK--EVKEDI 245 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E K EV ++ Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSTEVMKEA 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + +S + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E Sbjct: 239 DTES--DDRILDRTIEELDLSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEE 296 Query: 306 IKGVLGTMGLFL 317 +K L +GL L Sbjct: 297 VKFKLIDLGLGL 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 = 245 bits (625), Expect = 7e-63, Method: Compositional matrix adjust. Identities = 124/288 (43%), Positives = 191/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE ++ GV ED+ IILNI Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNI 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K + + +GP VTAGDI T +DIE++NPDH + + A ++ +TV Sbjct: 81 KGLAVKSYVEDEKTIELDVQGPAEVTAGDILTDSDIEIVNPDHYLFTISEGASLKATMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GYVPA ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 141 ATNRGYVPADENKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I ED++ L++R+L + L +F + + K + + L + +EEL+LSVRS Sbjct: 201 TIIPEDALGLSARVLIEHLNLFTDLTDVAKATDVMKETEKVNDEKVLDRTIEELDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL ++TE +M+++ N GRKSL E+K L +GL L Sbjct: 261 YNCLKRAGINTVHDLTEKTEPEMMKVRNLGRKSLEEVKVKLADLGLGL 308 >gi|327438303|dbj|BAK14668.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Solibacillus silvestris StLB046] Length = 314 Score = 245 bits (625), Expect = 7e-63, Method: Compositional matrix adjust. Identities = 124/288 (43%), Positives = 190/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ +TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+++GV ED+ IILN+ Sbjct: 23 FVVEPLERGYGNTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTVEGVVEDVASIILNV 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +G G VTA DI +D+E+LNPD I + + +RM + Sbjct: 83 KKLALKIYSDEEKVIEIDVKGDGTVTAADITHDSDVEILNPDLYIATIAKNGHLRMRMYA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY PA ++ E+ PIG+I ID++Y+P+ +V++ VE+ R GQ DYDKLS+ + TDG Sbjct: 143 QRGRGYTPADQNKREDLPIGVIPIDSIYTPVSRVNFQVENTRVGQNSDYDKLSLDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI +++++L ++IL + L +F+ + + + + L +EEL+LSVRS Sbjct: 203 SIGPKEAISLGAKILTEHLNIFVGMTNEAQTAEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++E DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVLELANKSEDDMMKVRNLGRKSLEEVKHKLEELGLGL 310 >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 = 245 bits (625), Expect = 8e-63, Method: Compositional matrix adjust. Identities = 125/289 (43%), Positives = 198/289 (68%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ TLGNALRR+L+SSL G A T+V+IDGVLHE S+++GV ED+T++ILNIK Sbjct: 24 VVEPLERGYGITLGNALRRILLSSLPGVATTSVKIDGVLHEFSTVQGVKEDVTELILNIK 83 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + L+M+G+ K + I +GPG VT DI+T D+EV+N + I LD D + MELTV+ Sbjct: 84 SLALRMNGEGPKVIYIDAKGPGEVTGADIKTDGDVEVVNKNLHIATLDNDGRLYMELTVN 143 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYV ++++ PI I +D++Y+P+K+V++TV++ R GQ+ DYDKL++ I T+G+ Sbjct: 144 KGRGYVTQNKNKSDELPISAIAVDSIYTPVKRVNFTVDNTRVGQITDYDKLTLEIWTNGT 203 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 I +++++L+++IL + +F++ + +V+ I + L VEEL+LSVRS Sbjct: 204 IKIDEAISLSAKILIEHFKLFMSLTDNTNDVEIMIEKEDDKKEKVLEMTVEELDLSVRSY 263 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 NCL+ I + +L ++ DM+++ N G+KSL E++ L +GL L + Sbjct: 264 NCLKRAGINTVQELATKSMDDMMKVRNLGKKSLEEVERKLKELGLALKL 312 >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 = 245 bits (625), Expect = 9e-63, Method: Compositional matrix adjust. Identities = 134/312 (42%), Positives = 204/312 (65%), Gaps = 8/312 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK--EVKEDI 245 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E K EV ++ Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSTEVMKEA 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + +S + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E Sbjct: 239 DTES--DDRILDRTIEELDLSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEE 296 Query: 306 IKGVLGTMGLFL 317 +K L +GL L Sbjct: 297 VKLKLIDLGLGL 308 >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 = 244 bits (624), Expect = 9e-63, Method: Compositional matrix adjust. Identities = 128/298 (42%), Positives = 191/298 (64%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT+V+ GV HE S+IKGV ED+ DIILN+K + Sbjct: 28 PLEPGFGVTIGNALRRILLSSLEGYAITSVRFSGVSHEFSTIKGVAEDVVDIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQTV-NDIEVLNPDHVICNLDVDAVVRMELTVS 150 K +G+S +++ + G AGDI N+ EVLNPD V+CN++ + +ELT++ Sbjct: 88 FKKTGESGDSEKIFVIINGQESFKAGDITKFSNNFEVLNPDFVVCNMESSVTLEIELTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYV A+ ++ + +G+I ID++Y+PIK V YT+E+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVAAEENKNADAAVGVIAIDSIYTPIKNVKYTIENYRVEQKTDYEKLLLDISTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ED++ A++IL +F + E KE ++++ + L L ++ +L+LS Sbjct: 208 IHPEDALKEAAKILIQHFMLFSDENLILESQAKEETKEVDEEVLHMRKILKTELVDLDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ +I + DL+ ADML+ NFG+KSL EI+ ++ + GL GMNL + Sbjct: 268 VRALNCLKAADIRSLADLVSYDVADMLKFRNFGKKSLTEIQELVKSKGLSFGMNLSKY 325 >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 = 244 bits (624), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 127/288 (44%), Positives = 195/288 (67%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGNALRR+L+SSL G A T+V+ID VLHE S+I GV ED+T+IILN+K + Sbjct: 26 EPLERGYGITLGNALRRILLSSLPGVAPTSVKIDSVLHEFSTITGVKEDVTEIILNLKML 85 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 L M G+ K + I +GPGVVT DI+T D+EV+N D I LD D + ME+ V++G Sbjct: 86 ALTMEGEGPKTIYIDAQGPGVVTGADIKTDGDVEVVNKDLHIATLDNDGKLYMEIVVNRG 145 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV ++TE+ P+ I ID++Y+P+K+V+++V++ R GQ+ DYDKL++ I T+G+I Sbjct: 146 RGYVTQNKNKTEDLPLSAIAIDSIYTPVKRVNFSVQNTRVGQITDYDKLTLEIWTNGTIR 205 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 E++++L+++IL + +F+ + +V+ I + AL +EEL+LSVRS NC Sbjct: 206 IEEAISLSAKILIEHFKLFMTLTDNANDVEIMIEKEEDKKEKALEMTIEELDLSVRSYNC 265 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 L+ I + +L ++ DM+++ N G+KSL E++ L +GL L +N Sbjct: 266 LKRAGINTVQELAGKSMDDMMKVRNLGKKSLEEVERKLNELGLNLRLN 313 >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 = 244 bits (624), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 126/294 (42%), Positives = 198/294 (67%), Gaps = 12/294 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGNALRRVL+SSL GAA+T+V+I+GVLHE S++ GV ED T+IILN+ Sbjct: 23 FVVEPLERGYGITLGNALRRVLLSSLPGAAVTSVRIEGVLHEFSTLPGVVEDTTEIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + +KM D + + I +G G V A DI T D+E++N DH+I L+ D + ME+TV Sbjct: 83 KELAIKMYTDEPQVLRIEAQGEGEVRAADIITPPDVEIVNGDHLIATLEPDGRLFMEMTV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYVPA ++ + IG+I +D++++PI+KV++ VE+ R G+V DYD+L++ + T+G Sbjct: 143 QRGRGYVPADRNKDPDRSIGVIPVDSIFTPIRKVNFQVENTRVGKVTDYDRLTLEVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK------EVKEDINVKSLPFNPALLKKVEEL 263 +I +++ + A++IL D L +F+ + + E ++D K L + ++EL Sbjct: 203 TIAPDEAASQAAQILTDHLALFLTLTDQARGTGTAVEKEDDARAKLLEMS------IDEL 256 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +LSVRS NCL+ I +G+L+++T DM+R+ N G+KSL E++ L +GL L Sbjct: 257 DLSVRSYNCLKRAGINTIGELVEKTPEDMMRVRNLGKKSLEEVEEKLAALGLSL 310 >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 = 244 bits (624), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 128/293 (43%), Positives = 195/293 (66%), Gaps = 4/293 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAAI+ V+IDGVLHE SSI GV ED+T+II+N+ Sbjct: 26 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAISQVKIDGVLHEFSSIPGVKEDVTEIIMNL 85 Query: 90 KGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K + D K I G GVVTA DIQ DIE++NP+ VI L+ D+ + M Sbjct: 86 KSLAIKNTSETDEPKTAYIEFEGEGVVTAADIQVDQDIEIMNPETVIATLNGGADSKLYM 145 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT+++G GYV A ++ + PI +I ID++Y+P+++V+ TVE+ R GQ+ D+DKL++ + Sbjct: 146 ELTITRGRGYVSADKNKNDELPIAVIPIDSIYTPVERVNLTVENTRVGQITDFDKLTLDV 205 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E + + I + L ++ELEL Sbjct: 206 YTNGTLLPDEAVSLAAKVLSEHLKLFIDLSEVAQAAEVMIEKEDDEKEKVLEMSIDELEL 265 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 SVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 266 SVRSYNCLKRAGINTVEELTNRTPEDMMKVRNLGRKSLEEVLAKLDELGLSLS 318 >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 = 244 bits (623), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 125/288 (43%), Positives = 187/288 (64%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGNALRR+L+SSL GAA T+V+IDGVLHE S+I GV ED T+IILN+ Sbjct: 23 FVIEPLERGYGTTLGNALRRILLSSLPGAACTSVKIDGVLHEFSTIPGVVEDTTEIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L++ D K + I G G + AGDIQ +D+++LNP+ I L A + E+ Sbjct: 83 KHLALRIHSDEEKTLIIDAEGEGEIKAGDIQADSDVDILNPELHIATLAEGARLYAEIKA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 ++G GYVPA ++ E PIG+I +D++++PI +V+Y++E+ R GQV DYDKL+ + TDG Sbjct: 143 ARGRGYVPADRNKNEEQPIGVIPMDSIFTPISRVNYSIENTRVGQVTDYDKLTFEVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI +++V+ +RIL + L +F+ + + + L +EEL+LSVRS Sbjct: 203 SIRPDEAVSYGARILTEHLTLFLGLTDQPRAGDVLVERDEQRREKVLDMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +TE +M+++ N GRKSL E++ L +GL L Sbjct: 263 YNCLKRAGINTVAELCSKTEEEMMKVRNLGRKSLEEVQEKLAELGLAL 310 >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 = 244 bits (623), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 137/309 (44%), Positives = 201/309 (65%), Gaps = 6/309 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 IV E+ N + PL RG+ TLGN+LRRVL+SSL GAAI+ + I GV HE+S+IKG Sbjct: 11 IVELDEQNNYGKFVIMPLERGYGTTLGNSLRRVLLSSLPGAAISKINIQGVAHEMSTIKG 70 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +IILN+KGI +K + + + +GP V+TA DI D+EV NPDH I L Sbjct: 71 VKEDVPEIILNLKGIAVKKYNEEPISLNVDIKGPCVLTAKDILVDTDLEVKNPDHYIATL 130 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + DA + M++TV G GY ++ ++T+ D IG I ID+L+SP+KKV++TV++AR GQV+D Sbjct: 131 NEDASLEMQITVINGKGYKISEFNKTDEDIIGDIAIDSLFSPVKKVNFTVDNARVGQVID 190 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI---NFEEPKKEVKEDINVKSLPFNP 254 YDKL++ + T+G+I +D+++ S IL + L +F N+E ED N K Sbjct: 191 YDKLTIEVWTNGTIRPQDALSEGSNILINCLELFSELPNYECNTNSDDED-NQKDKETQM 249 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 + +EEL+ S+RS NCL+ NI +GD++ T+ADM+++ NFG+KSL E++ L MG Sbjct: 250 GI--NIEELDFSLRSFNCLKRANINTVGDIVSHTKADMMKIKNFGKKSLDEVEEKLQEMG 307 Query: 315 LFLGMNLPD 323 L + D Sbjct: 308 LAFKEEIKD 316 >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 = 244 bits (623), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 124/288 (43%), Positives = 191/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE ++ GV ED+ IILNI Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNI 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K + + +GP VTAGDI T +DIE++NPDH + + A ++ +TV Sbjct: 81 KGLAVKSYVEDEKTIELDVQGPAEVTAGDILTDSDIEIVNPDHYLFTIADGASLKATMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GYVPA ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 141 ATNRGYVPADENKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I ED++ L++R+L + L +F + + K + + L + +EEL+LSVRS Sbjct: 201 TIIPEDALGLSARVLIEHLNLFTDLTDVAKATDVMKETEKVNDEKVLDRTIEELDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL ++TE +M+++ N GRKSL E+K L +GL L Sbjct: 261 YNCLKRAGINTVHDLTEKTEPEMMKVRNLGRKSLEEVKVKLADLGLGL 308 >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 = 244 bits (623), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 138/310 (44%), Positives = 197/310 (63%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+I+P IE IV E+ + EPL RG+ TLGN+LRRVL+SSL GAA +V+IDG Sbjct: 3 EIIEPK-IE-IVEQAEDGTYGKFVVEPLERGYGITLGNSLRRVLLSSLPGAAPKSVKIDG 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|291542059|emb|CBL15169.1| DNA-directed RNA polymerase subunit alpha [Ruminococcus bromii L2-63] Length = 317 Score = 244 bits (623), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 123/290 (42%), Positives = 194/290 (66%), Gaps = 2/290 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF +TLGN+LRRVL+SSL G A+T+++IDGVLHE S+I GV ED+T+I+LN+ Sbjct: 23 FVVEPLERGFGNTLGNSLRRVLLSSLEGCAVTSIKIDGVLHEFSTIPGVKEDVTEIVLNM 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + K+ S K + I GP V A DI+ +++E+LNP+ I L A + ME+TV Sbjct: 83 KSLVAKLHETSPKVIEIAAEGPCEVKAADIKCDDEVEILNPELHIATLGEGAKLNMEITV 142 Query: 150 SKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GY+P++ ++ + N+ IG++ ID++Y+P+ KV+YTV++ R GQ+ DYDKL++ + T Sbjct: 143 DKGRGYIPSERNKQLSGNNVIGVLPIDSIYTPVLKVNYTVDNTRVGQITDYDKLTLDVWT 202 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G I +++V+LA+++L + L +F+N + + + L +E+L+LSV Sbjct: 203 NGVINAQEAVSLAAKVLTEHLNLFVNLSDKASSAEVMVEKDDKGKEKILEMTIEDLDLSV 262 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ I + DLI ++E DM+++ N GRKSL E+ L ++G L Sbjct: 263 RSFNCLKRAGINTVEDLINKSEEDMMKVRNLGRKSLEEVVQKLNSLGFSL 312 >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 = 244 bits (623), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 128/294 (43%), Positives = 201/294 (68%), Gaps = 8/294 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SS+ G A+T ++I+GVLHE SSI GV ED+T+I+LNI Sbjct: 23 FVVEPLERGYGITLGNSLRRIMLSSMPGVAVTQIKIEGVLHEFSSIPGVKEDVTEIVLNI 82 Query: 90 KGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + ++ + D K I G G VTA DIQ +DIE++NPD VI +L+ D+ + M Sbjct: 83 KQLAIRSNSQTDEPKVAYIEYEGEGTVTAADIQVDSDIEIVNPDLVIAHLNGGSDSKLYM 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT+SKG GYV + ++T++ PIG+I +D++Y+P+++V+ VE+ R GQV D+DKL++ + Sbjct: 143 ELTISKGRGYVSSDKNKTDDTPIGVIAVDSIYTPVERVNMNVENTRVGQVTDFDKLTLEV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK--KVEEL 263 T+G+I +++ +LA+++L + L +FI+ E + +I V+ + A +K ++EL Sbjct: 203 WTNGTIGPDEAASLAAKVLSEHLNLFIDLSENARNT--EIMVEKPSADTASMKMMNIDEL 260 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 ELSVRS NCL+ I + +L+ +T DM+++ N GRKSL E+ L MGL L Sbjct: 261 ELSVRSYNCLKRAGINTVEELVNKTPEDMMKVRNLGRKSLEEVLQKLQEMGLSL 314 >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 = 244 bits (623), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 123/288 (42%), Positives = 192/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL G A +++IDGVLHE S++ GV ED+T++ILNI Sbjct: 23 FVIEPLERGYGITLGNSLRRILLSSLPGGAANSIKIDGVLHEFSTVTGVKEDVTELILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM+G+ + I +GPG VTA DI + ++E++N D I LD D + ME+ V Sbjct: 83 KGLALKMNGEGPSTIYIDAQGPGEVTAADIISDGNVEIMNKDMHIATLDDDGKLYMEINV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV ++ E+ PIG I +D++Y+P+K+V++TVE+ R GQ+ DYDKLS+ + T+G Sbjct: 143 DNGRGYVTQNKNKKEDLPIGTIPVDSIYTPVKRVNFTVENTRVGQITDYDKLSIEVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I E++++L+++IL + +F+ + V+ + + L +EEL+LSVRS Sbjct: 203 TIQPEEAISLSAKILIEHFKLFMTLTDHADNVEIMVEKEEDKKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +RT DM+++ N G+KSL E++ L +GL L Sbjct: 263 YNCLKRAGINTVQELTERTIDDMMKVRNLGKKSLEEVQEKLAALGLGL 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 = 244 bits (623), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 123/288 (42%), Positives = 193/288 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL G A +++IDGVLHE S++ GV ED+T++ILNI Sbjct: 23 FVIEPLERGYGITLGNSLRRILLSSLPGVAANSIKIDGVLHEFSTVTGVKEDVTELILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM+G+ + I +GPG VTA DI + +IEV+N D I LD D + ME+ + Sbjct: 83 KGLALKMNGEGPSTIYIEAQGPGEVTAADIISDGNIEVMNKDMHIATLDDDGKLYMEINI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYV ++ ++ PIG I +D++Y+P+K+V++TVE+ R GQ+ DYDKLS+ + T+G Sbjct: 143 DRGRGYVTQNKNKKDDLPIGTIPVDSIYTPVKRVNFTVENTRVGQITDYDKLSIEVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I E++++L+++IL + +F+ + V+ + + L +EEL+LSVRS Sbjct: 203 TIQPEEAISLSAKILIEHFKLFMTLTDHADNVEIMVEKEEDKKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +RT DM+++ N G+KSL E++ L +GL L Sbjct: 263 YNCLKRAGINTVQELTERTIDDMMKVRNLGKKSLEEVQEKLAALGLGL 310 >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 = 244 bits (623), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 125/298 (41%), Positives = 186/298 (62%), Gaps = 4/298 (1%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 AEP RGF ++GN++RRVL+SSL G+A+T ++I G HE ++I GV ED+TDI+LN+K Sbjct: 32 AEPFERGFGASIGNSMRRVLLSSLVGSAVTQIKIRGAQHEFTTIPGVLEDVTDIVLNVKS 91 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + + + DS + +T+ + GVVT D+QT D+E++N DHVIC L D ME+ V Sbjct: 92 LIVNSNTDSTRVITVERNTAGVVTGADVQTDADVEIINKDHVICTLTDDVPFMMEMVVET 151 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GYVP+ H + + IG+I IDA++SPI +V Y VE+ R GQ +YD+L++ I TDG+I Sbjct: 152 GRGYVPSTEHSSVDHEIGIIPIDAVFSPIVRVRYEVEATRVGQKTNYDRLNLEIWTDGTI 211 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEV----KEDINVKSLPFNPALLKKVEELELSV 267 E ++ A++IL+ L F+ + E + + L + +L LSV Sbjct: 212 NPEMALTEAAKILRKHLNPFVQYRELGPSIFSAARGGAGSPEAQLEAKLNMTLADLRLSV 271 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 R+ NCL ENI+ + DL+QRTE +L + NFG +L E++ L GL LGM +P+ P Sbjct: 272 RANNCLESENIMTVRDLVQRTEDSLLEVRNFGDTTLNEVREKLSQYGLHLGMRVPNQP 329 >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 = 244 bits (623), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 135/319 (42%), Positives = 198/319 (62%), Gaps = 7/319 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 EL+ P ++ +G TL EPL RGF +TLG ALRRVL+SS+ GAA+T +ID Sbjct: 4 SELLTPRIVKIQEMGLNTSRVTL---EPLERGFGYTLGTALRRVLLSSIEGAAVTECEID 60 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE S I+GV ED+ D++LN+KG+ L + + + G V A D +++E Sbjct: 61 GVLHEYSGIEGVSEDVIDVLLNLKGLALILHEGERAEMRLSVNKAGEVKASDFSAPSNVE 120 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGY-VPAKHHRTENDPIGLITIDALYSPIKKVSY 185 + NPDHVI +L D M + V KG GY V + T ++ +DA +SPIK+++Y Sbjct: 121 ICNPDHVIAHLTQDVSFSMTVVVEKGRGYRVATQEIDTATHAPNVLRVDASFSPIKRIAY 180 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+AR Q D DKL + I+++G+I E ++ A+ IL Q+ +F+N E + E + Sbjct: 181 RVEAARVEQHTDLDKLVIDIESNGTIDPEQAIREAATILHKQIAVFVNLESTEVEAE--- 237 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + + +P LL+ V++LEL+VRS NCL+ ENI +GDL++RTE ++L+ N G+KSL E Sbjct: 238 YEEEVQVDPVLLRPVDDLELTVRSANCLKAENINNIGDLVRRTEVELLKTPNLGKKSLNE 297 Query: 306 IKGVLGTMGLFLGMNLPDW 324 IK VL GL LGM+L +W Sbjct: 298 IKEVLAAHGLELGMDLENW 316 >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 = 244 bits (623), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 127/293 (43%), Positives = 195/293 (66%), Gaps = 4/293 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL G+AI+ V+IDGVLHE SSI GV ED+T+I++N+ Sbjct: 26 FVVEPLERGYGTTLGNSLRRIMLSSLPGSAISQVKIDGVLHEFSSIPGVKEDVTEIVMNL 85 Query: 90 KGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K + D K I G GVVTA DIQ DIE++NP+ VI L+ D+ + M Sbjct: 86 KSLAIKNTSETDEPKTAYIEFEGEGVVTAADIQVDQDIEIMNPETVIATLNGGADSKLYM 145 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GYV A ++ + PI +I ID++Y+P+++V+ TVE+ R GQ+ D+DKL++ + Sbjct: 146 ELTITKGRGYVSADKNKNDELPIAVIPIDSIYTPVERVNLTVENTRVGQITDFDKLTLDV 205 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E + + I + L ++ELEL Sbjct: 206 YTNGTLLPDEAVSLAAKVLSEHLKLFIDLSEVAQAAEVMIEKEDDEKEKVLEMSIDELEL 265 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 SVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 266 SVRSYNCLKRAGINTVEELTNRTPEDMMKVRNLGRKSLEEVLAKLDELGLCLS 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 = 244 bits (622), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 134/314 (42%), Positives = 205/314 (65%), Gaps = 14/314 (4%) Query: 8 ELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E KPN I + + +RT + EPL RG+ T+GN+LRR+++SSL GAA+T V+I Sbjct: 3 EFQKPN----IEIAEISADRTYGKFVVEPLERGYGTTIGNSLRRIMLSSLPGAAVTNVKI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 + VLHE ++I GV ED+ IILN+K +++K+ D V I G G VTAGDI +D+ Sbjct: 59 ENVLHEFATIDGVAEDVLQIILNLKDLSVKLHSDGPVDVHIHSEGEGEVTAGDIICDSDV 118 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++NPD I +L DAV+ M +T+ G GYVP++ ++ E+ PIG + +D++++P+KK ++ Sbjct: 119 EIVNPDLHIASLMADAVLDMTITIDGGTGYVPSEKNKKEDMPIGTLPVDSIFTPVKKANF 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI----NFEEPKKEV 241 VE+ R G V DYDKL++ + TDG+I+ E++V+LA++++ D L +FI N V Sbjct: 179 AVENTRVGNVTDYDKLTIEVWTDGTISPEEAVSLAAKVINDHLQLFIDMNANLPNASLMV 238 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + N K L ++ELELSVRS+NCL+ +I + +LI R+E DM ++ N G+K Sbjct: 239 EREENEKE----KVLEMSIDELELSVRSSNCLKRTSINTVEELISRSEEDMSKVRNLGKK 294 Query: 302 SLVEIKGVLGTMGL 315 SL EIK L +GL Sbjct: 295 SLNEIKKKLAEIGL 308 >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 = 244 bits (622), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 137/302 (45%), Positives = 203/302 (67%), Gaps = 5/302 (1%) Query: 24 EENRT-LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+NR I EPL RG+ T GN+LRR+L+SSL GAAIT+++IDGVLHE S+I GV +D+ Sbjct: 16 EDNRYGKFICEPLERGYGTTFGNSLRRMLLSSLEGAAITSIRIDGVLHEFSTIPGVRDDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T+I+LN+K + LKM+G+ + + I G VTA DI DIE+LNPD I ++ D Sbjct: 76 TNIVLNLKELCLKMAGNEPRIIRIDVEGEKEVTAADIICDADIEILNPDLHIATVNEDGK 135 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 +++E+TV +G GYVPA ++ +D IG+I ID+++SP+K+V+YTV+ R G V DYD+L Sbjct: 136 LKIEMTVERGRGYVPADKNKKPDDTIGVIPIDSIFSPVKRVNYTVQDTRVGNVTDYDRLI 195 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEE-PKKEVKEDINVKSLPFNPA---LLK 258 + + TDGS+ E++V+ A+ IL L +F N + P++E +E+ + + L Sbjct: 196 LEVWTDGSLRPEEAVSKAAGILVMHLKLFQNMDGLPEEEEEEEATFPEEEEDDSSKVLDM 255 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L+LSVRS NCL+ NI + DL ++TE DM+++ N GRKSL E+K L +GL L Sbjct: 256 TIEDLDLSVRSFNCLKRANINTVADLAEKTEDDMMKVRNLGRKSLEEVKKKLEELGLTLK 315 Query: 319 MN 320 N Sbjct: 316 QN 317 >gi|326407604|gb|ADZ64675.1| DNA-directed RNA polymerase subunit alpha [Lactococcus lactis subsp. lactis CV56] Length = 312 Score = 244 bits (622), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 124/295 (42%), Positives = 194/295 (65%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E EN + EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ Sbjct: 14 ESENYGKFVVEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDV 73 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 I+L +KGI +K +S K++ + GP VTAGDI T +DIE++N DH + ++ Sbjct: 74 IQIVLAVKGIAIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHS 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 +R +TV KG+GYVPA ++ + PIG I +D++Y+P+ KV+Y VE AR G YDKL+ Sbjct: 134 IRAVMTVKKGYGYVPADENKVDGAPIGTIAVDSIYTPVSKVNYQVEPARVGGDSSYDKLT 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + I T+G+I +++++L+++IL D L +F++ E E + + + L K +EE Sbjct: 194 LEITTNGTIVSDEALSLSAKILTDHLNLFVDLSEVASEAETLVVKDEVKTERVLDKIIEE 253 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 ++ SVR+ N L+ I + D+++ +EADM+++ N G KS+ E+K L +GL L Sbjct: 254 MDFSVRAYNGLKRAGINTVADIVEMSEADMIKVKNLGHKSVEEVKVKLTELGLSL 308 >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 = 244 bits (622), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 136/311 (43%), Positives = 205/311 (65%), Gaps = 4/311 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIA-EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E+ KPN IE I E+N+ A EPL RG+ TLGN+LRRVL+SSL G A+T+++I+ Sbjct: 3 EIEKPN-IETI--ETSEDNKFGKFAVEPLERGYGTTLGNSLRRVLLSSLPGTAVTSIKIE 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 VLHE S+I GV ED+T I+LNIK + LK+ K + + GP VTA DI D + Sbjct: 60 NVLHEFSTIPGVREDVTQIVLNIKQLALKLYDVDEKDIELDITGPAEVTAADITADADFD 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 VLNP IC+L A + M + V G G+V A++++T++ PIG+I +D++Y+PIKKV+Y Sbjct: 120 VLNPYLHICSLAEGAKIHMLMHVKNGRGFVRAENNKTDDMPIGVIPVDSIYTPIKKVNYQ 179 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+ R G+V +YDKL+ I TDG+I +++++LA+++L + L +F++ + +E + + Sbjct: 180 VENTRIGEVNEYDKLTFDIWTDGTIAPKEALSLAAKVLTEHLAIFVSLTDEAQEAEIMVE 239 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L +EEL+LSVRS NCL+ I + +L Q+TEA+M+++ N GRKSL E+ Sbjct: 240 KEETQKEKMLEMTIEELDLSVRSYNCLKRAGINTVEELTQKTEAEMMKVRNLGRKSLDEV 299 Query: 307 KGVLGTMGLFL 317 KG L + L L Sbjct: 300 KGKLDALDLSL 310 >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 = 244 bits (622), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 130/310 (41%), Positives = 196/310 (63%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKDYGVFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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 GVLGTMGLFL 317 L +GL L Sbjct: 299 VKLADLGLGL 308 >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 = 244 bits (622), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 132/286 (46%), Positives = 193/286 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN+LRRVL+SSL GAAI+ ++IDGVLHE S+I GV ED T+IILN+ Sbjct: 23 FVIEPLERGFGITLGNSLRRVLLSSLPGAAISTIKIDGVLHEFSTIPGVVEDTTEIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L+ D K V + +RGP V AGDI +IE+LNP+ I L+ D + ME+TV Sbjct: 83 KQVVLRYDYDQPKTVFVEQRGPKEVKAGDIIRDAEIEILNPELHIATLNEDGRLAMEMTV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYV A + + + IGLI ID++++PI KV++TVE+AR G+V DYD+L + + T+G Sbjct: 143 ERGRGYVSADQKKKDENVIGLIPIDSIFTPINKVNFTVENARVGRVTDYDRLMLEVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI+ E++V+L++ IL D L +F + V+ + + + L +EELELSVR+ Sbjct: 203 SISPEEAVSLSAHILIDHLKLFTEINDSYSPVEILVEKEEDQKDKILDMSIEELELSVRA 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 +N L+ NI +GDL+++T +M ++ N G+KSL EI+ L +GL Sbjct: 263 SNGLKRANINTVGDLVEKTREEMSKIRNLGQKSLDEIERKLKELGL 308 >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 = 243 bits (621), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 123/288 (42%), Positives = 191/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE ++ GV ED+ IILN+ Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNV 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K + + +GP VTAGDI T +DIE++NPDH + + A ++ +TV Sbjct: 81 KGLAVKSYVEDEKTIELDVQGPAEVTAGDILTDSDIEIVNPDHYLFTIADGASLKATMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GYVPA ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 141 ATNRGYVPADENKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I ED++ L++R+L + L +F + + K + + L + +EEL+LSVRS Sbjct: 201 TIIPEDALGLSARVLIEHLNLFTDLTDVAKATDVMKETEKVNDEKVLDRTIEELDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL ++TE +M+++ N GRKSL E+K L +GL L Sbjct: 261 YNCLKRAGINTVHDLTEKTEPEMMKVRNLGRKSLEEVKVKLADLGLGL 308 >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 = 243 bits (621), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 125/288 (43%), Positives = 192/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+ Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNV 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K + + GP VTAGDI T +DIE++NPDH + + +R +TV Sbjct: 81 KGLAVKSYVEDEKIIELEVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLRATMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 141 AKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I ED++ L++R+L + L +F + E K + + + L + +EEL+LSVRS Sbjct: 201 TIIPEDALGLSARVLIEHLNLFTDLTEVAKSTEVMKETEKVNDEKVLDRTIEELDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL +++E +M+++ N GRKSL E+K L +GL L Sbjct: 261 YNCLKRAGINTVFDLTEKSEPEMMKVRNLGRKSLEEVKVKLADLGLGL 308 >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 = 243 bits (621), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 124/288 (43%), Positives = 192/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+ Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNV 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K + + GP +TAGDI T +DIE++NPDH + + ++ +TV Sbjct: 81 KGLAVKSYVEDEKIIELDVEGPAEITAGDILTDSDIEIVNPDHYLFTIAEGHSLKATMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 141 AKNRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I ED++ L++R+L + L +F + E K + + + L + +EEL+LSVRS Sbjct: 201 TIIPEDALGLSARVLIEHLNLFTDLTEVAKATEVMKETEKVNDEKVLDRTIEELDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL ++TE +M+++ N GRKSL E+K L +GL L Sbjct: 261 YNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVKIKLADLGLGL 308 >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 = 243 bits (621), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 129/298 (43%), Positives = 192/298 (64%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT+++ GV HE S+IKGV EDLT+IILN+K + Sbjct: 28 PLEPGFGVTIGNALRRILLSSLEGYAITSIRFSGVSHEFSTIKGVVEDLTEIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQTV-NDIEVLNPDHVICNLDVDAVVRMELTVS 150 K SGD+ ++V I G AGDI N+ EVLNPD VICN++ + +ELT++ Sbjct: 88 FKKSGDAGDSEKVFILVNGQEQFVAGDITKFSNNFEVLNPDFVICNMEKSVTLEVELTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ + +G+I ID++++P+K V YT+E+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPAEENKINDAVVGVIAIDSIFTPMKNVKYTIENYRVEQKTDYEKLILDISTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I E+++ A++IL +F + E KE ++++ + L L ++ +L+LS Sbjct: 208 IHPEEALKEAAKILIQHFMLFSDENLVLESQAKEETKEVDEEILHMRKILKTELVDLDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ +I + DL+ ADML+ NFG+KSL EI+ ++ + L GMNL + Sbjct: 268 VRALNCLKAADIRTLADLVSYDVADMLKFRNFGKKSLTEIQELVKSKSLSFGMNLSKF 325 >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 = 243 bits (621), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 130/300 (43%), Positives = 202/300 (67%), Gaps = 18/300 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL G+A++ V+IDGVLHE S I GV ED++DII+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGSAVSQVKIDGVLHEFSPIPGVKEDVSDIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRG---PGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVR 144 K + +K S DS++ + GVVTAGDI T +DIE++NPD I L+ D + Sbjct: 83 KNLAIKNSSDSNEPKIAYIECDGREGVVTAGDIHTDSDIEIMNPDLPIATLNGGNDCKLF 142 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MELT++ G GYV A+ ++ E+ PIG+++ID++Y+P+++V+ TV++ R GQV D+DKL++ Sbjct: 143 MELTITNGRGYVSAEKNKHEDTPIGVLSIDSIYTPVERVNMTVQNTRVGQVTDFDKLTLE 202 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV-------KEDINVKSLPFNPALL 257 + T+G++ +D+V+LA+++L + L +F++ + K+V ED VK+ N Sbjct: 203 VYTNGTLAPDDAVSLAAKVLCEHLNLFVDLSDNTKDVVGTFIEKPEDEKVKTGAIN---- 258 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 ++ELELSVRS NCL+ I + +L +T DM+++ N GRKSL E+ L +GL L Sbjct: 259 --IDELELSVRSYNCLKRAGINTVEELCSKTAEDMMKVRNLGRKSLEEVLAKLKELGLEL 316 >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 = 243 bits (621), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 125/288 (43%), Positives = 192/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+ Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNV 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K + + GP VTAGDI T +DIE++NPDH + + +R +TV Sbjct: 81 KGLAVKSYVEDEKIIELEVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLRATMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 141 AKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I ED++ L++R+L + L +F + E K + + + L + +EEL+LSVRS Sbjct: 201 TIIPEDALGLSARVLIEHLNLFTDLTEVAKATEVMKETEKVNDEKVLDRTIEELDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL +++E +M+++ N GRKSL E+K L +GL L Sbjct: 261 YNCLKRAGINTVFDLTEKSEPEMMKVRNLGRKSLEEVKVKLADLGLGL 308 >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 = 243 bits (621), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 124/290 (42%), Positives = 197/290 (67%), Gaps = 2/290 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRRVL+SSL G A+T+V+IDGV HE+S+I GV ED+T+IILN+ Sbjct: 31 FILEPLERGYGITLGNSLRRVLLSSLPGVAVTSVKIDGVHHELSTIPGVKEDVTEIILNL 90 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ K+ G+ K + I G VVTAGDI+ +++++L PD I L A + ME+T+ Sbjct: 91 KGLTAKLYGEGPKTIYIEAEGECVVTAGDIKADSEVDILVPDMHIATLGAGAKLYMEITI 150 Query: 150 SKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYV A+ +++ +N PIG+I +D++YSP+ KV+YTV++ R G + D+DKL++ + T Sbjct: 151 DRGRGYVSAEKNKSLMQNAPIGIIAVDSIYSPVLKVNYTVDNTRVGHITDFDKLTLEVWT 210 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 DG+I+ +++V++A+++L + L F++ E V+ + L +EEL+LSV Sbjct: 211 DGTISAKEAVSMAAKLLNEHLNPFVDLSEEANVVEIMVEKDDQSQAKVLEMTIEELDLSV 270 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ I + DLI+++ +M+++ N G+KS E+K L ++G L Sbjct: 271 RSFNCLKRAGINTVNDLIEKSAEEMMKVRNLGKKSFDEVKEKLHSLGYEL 320 >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 = 243 bits (620), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 129/298 (43%), Positives = 193/298 (64%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT+V+ GV HE S+IKGV ED+T+IILN+K + Sbjct: 28 PLEPGFGITIGNALRRILLSSLEGYAITSVRFSGVNHEFSTIKGVVEDVTEIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQTV-NDIEVLNPDHVICNLDVDAVVRMELTVS 150 +K SG+S +++ + G +AGDI N+ VLNPD VICN+D + +E+TV Sbjct: 88 MKKSGESGDSEKIFVIINGQDTFSAGDITKFSNNFTVLNPDLVICNMDSSVTLEIEITVG 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVP++ ++ + +G+I ID++Y+PIK V YT+E+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPSEENKNPDAMVGVIAIDSIYTPIKNVKYTIENYRVEQKTDYEKLVLDIATDGS 207 Query: 211 ITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 + ED++ A++IL +F + E KE ++++ + L L ++ +L+LS Sbjct: 208 VHPEDALKEAAKILIQHFMLFSDENMMLEAQAKEETKEVDEEILHMRKILKTELVDLDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ +I + DL+ ADML+ NFG+KSL EI+ ++ + GL GMNL + Sbjct: 268 VRALNCLKAADIRSLADLVSYDVADMLKFRNFGKKSLTEIQDLVKSKGLSFGMNLSKF 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 = 243 bits (620), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 132/312 (42%), Positives = 202/312 (64%), Gaps = 4/312 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P IE+ N +AEP RGFA T+GN+LRR LMSS+ GAAI+A++I+GV H Sbjct: 12 RPKKIEFNTEASTP-NYGKFVAEPFERGFATTIGNSLRRTLMSSIEGAAISAIRIEGVNH 70 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMS---GDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 E S I+GV ED+T IILN+K + +K D K + + +G G AGD+ + IE+ Sbjct: 71 EFSFIEGVAEDVTRIILNLKQVRIKYEPEEKDQSKIIHLELKGAGYFRAGDLAVDSSIEI 130 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPD I L+ DA + M+L + +G GYVPA+ + + + +G I +D+++SP++KV + V Sbjct: 131 MNPDLHIATLNEDANLVMDLEIQRGRGYVPAEEKKKDIEVLGTIPVDSIFSPVQKVVFEV 190 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 R Q DY+KL++ + TDGS++ +D+VA A++IL++ L +FINFEE +E ++++ Sbjct: 191 SETRVAQRSDYEKLTLEVWTDGSVSPDDAVAQAAKILKEHLTVFINFEEELEEEDDELDE 250 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 +L K VEELELSVRS N LR I ++GDL++R+E +M + ++ + L E+K Sbjct: 251 ADEKLKASLSKHVEELELSVRSLNVLRSLEIDFIGDLVKRSEEEMSKSKHYSDQCLQELK 310 Query: 308 GVLGTMGLFLGM 319 G L T+GL GM Sbjct: 311 GKLSTLGLSFGM 322 >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 = 243 bits (620), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 128/300 (42%), Positives = 198/300 (66%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 IV E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+V+I+GVLHE +++ G Sbjct: 11 IVEQSEDNTYGKFVVEPLERGYGITLGNSLRRILLSSLPGAAVTSVKIEGVLHEFATVPG 70 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+TDIILN+K + LK+ D K + + + G VTAGDI D+E+LNPD + L Sbjct: 71 VQEDVTDIILNLKNLCLKIHSDEEKVLRVEAQTEGPVTAGDIIHDADVEILNPDLHLATL 130 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + ME++V+KG GY A+ ++ IG+I ID++Y+P+++V+Y VE+ R GQ+ D Sbjct: 131 DTGGRLFMEISVNKGRGYSSAEKNKKGEHIIGVIPIDSIYTPVRRVNYNVENTRVGQITD 190 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 YDKL++ + T+GSI +++ +L+++IL + L +FI E +V+ + + + L Sbjct: 191 YDKLTLEVWTNGSIRPDEATSLSAKILSEHLRLFIGLTETVNDVEIMVEKEEEQKDKILE 250 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL++SVRS NCL+ I + +LIQR E DM+++ N G+KSL E+ L +GL L Sbjct: 251 MTIEELDMSVRSYNCLKRAGINTVEELIQRNEEDMMKVRNLGKKSLEEVINKLHELGLSL 310 >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 = 243 bits (620), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 126/294 (42%), Positives = 197/294 (67%), Gaps = 12/294 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGNALRRVL+SSL GAA+T+V+I+GVLHE S+I GV ED T+IILN+ Sbjct: 23 FVVEPLERGYGITLGNALRRVLLSSLPGAAVTSVRIEGVLHEFSTIPGVVEDTTEIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + +KM D + + + +G G V A DI ++E++N DH+I L+ D + ME+TV Sbjct: 83 KELAIKMHTDEPQILRVEAQGEGEVRAADIIAPPEVEIVNGDHLIATLEHDGRLFMEMTV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYVPA ++ + IGLI +D++++PI+KV++ VE+ R G+V DYD+L++ I T+G Sbjct: 143 QRGRGYVPADRNKGPDRSIGLIPVDSIFTPIRKVNFQVENTRVGKVTDYDRLTLEIWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK------EVKEDINVKSLPFNPALLKKVEEL 263 ++ +++ + A+RIL D L +F+ + + E ++D K L + ++EL Sbjct: 203 TVAPDEAASQAARILTDHLALFLTLTDQTRGAGTAAEKEDDARAKLLEMS------IDEL 256 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +LSVRS NCL+ I +G+L+++T DM+R+ N G+KSL E++ L +GL L Sbjct: 257 DLSVRSYNCLKRAGINTIGELVEKTPEDMMRVRNLGKKSLEEVEEKLAALGLSL 310 >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 = 243 bits (620), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 132/310 (42%), Positives = 195/310 (62%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKDYGKFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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 GVLGTMGLFL 317 L +GL L Sbjct: 299 VKLTDLGLGL 308 >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 = 243 bits (620), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 124/295 (42%), Positives = 194/295 (65%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E EN + EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ Sbjct: 14 ESENYGKFVVEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDV 73 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 I+L +KGI +K +S K++ + GP VTAGDI T +DIE++N DH + ++ Sbjct: 74 IQIVLAVKGIAIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHS 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 +R +TV KG+GYVPA ++ + PIG I +D++Y+P+ KV+Y VE AR G YDKL+ Sbjct: 134 MRAVMTVKKGYGYVPADENKVDGAPIGTIAVDSIYTPVSKVNYQVEPARVGGDSSYDKLT 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + I T+G+I +++++L+++IL D L +F++ E E + + + L K +EE Sbjct: 194 LEITTNGTIVSDEALSLSAKILTDHLNLFVDLSEVAAEAETLVVKDEVKTERVLDKIIEE 253 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 ++ SVR+ N L+ I + D+++ +EADM+++ N G KS+ E+K L +GL L Sbjct: 254 MDFSVRAYNGLKRAGINTVADIVEMSEADMIKVKNLGHKSVEEVKVKLTELGLSL 308 >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 = 243 bits (620), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 124/295 (42%), Positives = 194/295 (65%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E EN + EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ Sbjct: 14 ESENYGKFVVEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDV 73 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 I+L +KGI +K +S K++ + GP VTAGDI T +DIE++N DH + ++ Sbjct: 74 IQIVLAVKGIAIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHS 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 +R +TV KG+GYVPA ++ + PIG I +D++Y+P+ KV+Y VE AR G YDKL+ Sbjct: 134 MRAVMTVKKGYGYVPADENKVDGAPIGTIAVDSIYTPVSKVNYQVEPARVGGDSSYDKLT 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + I T+G+I +++++L+++IL D L +F++ E E + + + L K +EE Sbjct: 194 LEITTNGTIVSDEALSLSAKILTDHLNLFVDLSEVAAEAETLVVKDEVKTERVLDKIIEE 253 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 ++ SVR+ N L+ I + D+++ +EADM+++ N G KS+ E+K L +GL L Sbjct: 254 MDFSVRTYNGLKRAGINTVADIVEMSEADMIKVKNLGHKSVEEVKVKLTELGLSL 308 >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 = 243 bits (620), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 137/321 (42%), Positives = 205/321 (63%), Gaps = 24/321 (7%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+I+P IE IV E+ + EPL RG+ TLGN+LRRVL+SSL GAA +V+IDG Sbjct: 3 EMIEPK-IE-IVEQSEDGTYGKFVVEPLERGYGITLGNSLRRVLLSSLPGAAPKSVKIDG 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF-----------EE 236 E+ R G V DYDKL++ + T+G+IT ++++++AS +L FI+F ++ Sbjct: 181 ENTRVGHVTDYDKLTLEVWTNGTITPKEAISMASDMLIKYFQKFISFTGEYKSSDIFVDK 240 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 P+K+V++ +++ +EEL+LSVRS NCL+ I + +L Q+TE +M+++ Sbjct: 241 PEKKVEKPLDM-----------TIEELDLSVRSYNCLKRAGINTVQELTQKTEEEMMKVR 289 Query: 297 NFGRKSLVEIKGVLGTMGLFL 317 N G+KSL E+K L +GL L Sbjct: 290 NLGKKSLEEVKQKLEALGLSL 310 >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 = 243 bits (620), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 132/289 (45%), Positives = 190/289 (65%), Gaps = 1/289 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL G A+T +Q+DGVLHE S+I GV ED+ IILNI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGTAVTDIQMDGVLHEFSTIDGVVEDVAAIILNI 82 Query: 90 KGINLK-MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 K I LK S D +K + I +GP VVTAGDI+ +DI+VLNPD IC + + + Sbjct: 83 KKIALKSFSEDENKVLEIDVKGPAVVTAGDIKHDSDIQVLNPDLYICTVAEGHHFHVRMN 142 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYV + ++++EN PIG+I ID++Y+PI KV+Y VE+ R GQ YDKL++ + TD Sbjct: 143 AKNGRGYVRSDYNKSENMPIGVIPIDSIYTPISKVNYQVENTRIGQKNVYDKLTLDVWTD 202 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 GSI +D+++LA+RIL + L +F+N ++ + + L +EEL+LSVR Sbjct: 203 GSIAPQDAISLAARILTEHLNIFVNLTNEALPMEIMVEKEETQKERLLEMTIEELDLSVR 262 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 S NCL+ I + +L ++EA+M+++ N GRKSL E+K L + L L Sbjct: 263 SYNCLKRAGINTVHELTSKSEAEMIKVRNLGRKSLEEVKQKLIDLNLDL 311 >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 = 243 bits (620), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 126/288 (43%), Positives = 190/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILNI Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNI 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K D K + + GP VTAGDI T +D+E++N DH + + ++ +TV Sbjct: 81 KGLAVKSYVDDEKIIELDVEGPAEVTAGDILTDSDVEIVNTDHYLFTIAEGHSLKATMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +K GYVPA+ ++ E+ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 141 AKKRGYVPAEGNKKEDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I ED++ L++R+L + L +F + E K + + L + +EEL+LSVRS Sbjct: 201 TIIPEDALGLSARVLIEHLNLFTDLTEVAKNTDVMKEAEKVNDEKVLDRTIEELDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL ++TE +M+++ N GRKSL E+K L +GL L Sbjct: 261 YNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVKVKLADLGLGL 308 >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 = 243 bits (619), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 123/289 (42%), Positives = 186/289 (64%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+S+L GAA+T+++IDG+LHE S+I GV ED+T+IILNI Sbjct: 23 FVIEPLERGYGITLGNSLRRVLLSTLPGAAVTSIRIDGILHEFSTIPGVTEDVTEIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + ++ + TI GP +TA DI +++++ N DH I LD DA + MEL + Sbjct: 83 KRLAIRAWSEEPIVATIKASGPCEITAADIDCGSEVKIFNEDHHIATLDKDAELDMELVI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY A+ ++ ++DPI I ID+++SP++K ++ V R GQV D+DKL + + TDG Sbjct: 143 DRGRGYSSAEQNKGKDDPISTIAIDSIFSPVEKANFIVSDTRVGQVTDFDKLELEVRTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI+ D+VA+A+RI+Q+ L +F+ E E + + + L K +E+LEL+VRS Sbjct: 203 SISANDAVAVAARIMQEHLALFVELSEEATEYSIMLEHEDIEQTRVLEKNIEDLELTVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 N L I + DL+ TE ++ + N G+KSL EIK + +GL L Sbjct: 263 LNALTQAGIDTVSDLVSMTEGELNSVKNLGKKSLSEIKDKIRELGLSLS 311 >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 = 243 bits (619), Expect = 4e-62, Method: Compositional matrix adjust. Identities = 130/301 (43%), Positives = 189/301 (62%), Gaps = 7/301 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 IA+PL RG+ TLGNA+RRVL++SL G AIT ++IDGV HE S+I GV ED+ +I+LN+ Sbjct: 25 FIAQPLERGYGVTLGNAMRRVLLASLPGTAITGIKIDGVFHEFSTIDGVREDVPEIVLNL 84 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELT 148 K + K + + T+ GP AGDI + EVLN D I ++ +A V +++ Sbjct: 85 KKVRFKSNCKRSCKTTLTLAGPKDFLAGDIVAQEGEFEVLNKDLHIATINSEATVTIDIY 144 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + +G GYVPA+ +R++ PIG I ID++Y+PIK V TVE+ R GQ DY+K+ + ++TD Sbjct: 145 IGRGRGYVPAEENRSDGMPIGFIAIDSIYTPIKNVKLTVENTRVGQKTDYEKMILDVETD 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL-----PFNPALLKKVEEL 263 GSIT +D+++LA +I+ D + F NF P +E + K L L K+E+L Sbjct: 205 GSITPDDAISLAGKIINDHITFFANF-SPTEEEFSEEEYKQLDDEFESMRKLLQTKIEDL 263 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +LSVRS NCLR I +GDL+ R E ++L NFG+KSL E+K L L GM++ Sbjct: 264 DLSVRSHNCLRLAEIDSLGDLVSRREEELLNYKNFGKKSLTELKEQLEKFNLKFGMDITR 323 Query: 324 W 324 + Sbjct: 324 Y 324 >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 = 243 bits (619), Expect = 4e-62, Method: Compositional matrix adjust. Identities = 132/310 (42%), Positives = 195/310 (62%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKDYGKFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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 GVLGTMGLFL 317 L +GL L Sbjct: 299 IKLTDLGLGL 308 >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 = 243 bits (619), Expect = 4e-62, Method: Compositional matrix adjust. Identities = 135/312 (43%), Positives = 203/312 (65%), Gaps = 8/312 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIDG 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK--EVKEDI 245 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E K EV ++ Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSTEVMKEA 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + +S + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E Sbjct: 239 DTES--DDRILDRTIEELDLSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEE 296 Query: 306 IKGVLGTMGLFL 317 +K L +GL L Sbjct: 297 VKLKLIDLGLGL 308 >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 = 243 bits (619), Expect = 4e-62, Method: Compositional matrix adjust. Identities = 124/279 (44%), Positives = 185/279 (66%), Gaps = 7/279 (2%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V A Sbjct: 3 GCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVILTLNKSGAGPVVA 62 Query: 117 GDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLIT 172 GDI +E+ NP+HVIC+L D +A + M + V +G GYVPA H + PIG + Sbjct: 63 GDITHDGGVEIANPEHVICHLTDSNAEISMRIKVERGRGYVPASARIHTEEDERPIGRLL 122 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 +DA +SP+ +++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F+ Sbjct: 123 VDATFSPVDRIAYNVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFV 182 Query: 233 NFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++ Sbjct: 183 DLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVEL 239 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 L+ N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 240 LKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 278 >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 = 243 bits (619), Expect = 4e-62, Method: Compositional matrix adjust. Identities = 135/311 (43%), Positives = 201/311 (64%), Gaps = 4/311 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRT-LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E+I+P IE ++ Q E+ R + EPL RG+ TLGN+LRRVL+SS+ GAA +V+ID Sbjct: 3 EIIEPK-IE--IVEQSEDGRYGKFVVEPLERGYGITLGNSLRRVLLSSIPGAAPKSVKID 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE S++ GV ED+ +IILN+K + +K+ D I G G VTAG I+ ++E Sbjct: 60 GVLHEFSTLPGVKEDVVEIILNLKEVAVKLHSDEPVIGRIDVEGKGEVTAGHIKGGPELE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +LNPDH I L D + ME+ KG GYVPA+ ++ N PIG+I +D++++PI+KV+YT Sbjct: 120 ILNPDHHIATLSDDGKIHMEIVFVKGKGYVPAEKNKEPNQPIGVIPVDSIFTPIRKVNYT 179 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+ R G V DYDKL++ + T+G+IT +++V++A+ +L FI+F K + Sbjct: 180 VENTRVGHVTDYDKLTLEVWTNGTITPKEAVSMAADMLIKYFQKFISFTGEYKSPDVFVE 239 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L +EEL+LSVRS NCL+ I + +L Q+TE +M+++ N G+KSL E+ Sbjct: 240 KQEKKVEKPLDMTIEELDLSVRSYNCLKRAGINTVQELTQKTEEEMMKIRNLGKKSLEEV 299 Query: 307 KGVLGTMGLFL 317 K L +GL L Sbjct: 300 KQKLAALGLSL 310 >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 = 243 bits (619), Expect = 4e-62, Method: Compositional matrix adjust. Identities = 133/298 (44%), Positives = 197/298 (66%), Gaps = 4/298 (1%) Query: 24 EENR-TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+NR + EPL RG+ TLGN+LRR+++SSL GAA++AV+I GVLHE SS+ GV ED+ Sbjct: 16 EDNRFGRFVVEPLVRGYGTTLGNSLRRIMLSSLPGAAVSAVKIKGVLHEFSSVPGVKEDV 75 Query: 83 TDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 +II+NIK + +K S D K+ I G GVVTAGDI+ +DIE+LNPD VI L D Sbjct: 76 PEIIMNIKSLAIKNNSSTDEPKQAFIECSGSGVVTAGDIKADSDIEILNPDMVIATLSGD 135 Query: 141 -AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 A + MELT++KG GYV A E + I I +DA+Y+P+++V+ VE+ R GQV DYD Sbjct: 136 DAHLDMELTITKGRGYVGADKADKEGNSIDEIAVDAIYTPVERVNLKVENTRVGQVTDYD 195 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL++ + T+G+++ +++V+LA+++L + L +F++ E K + + + L Sbjct: 196 KLTLDVFTNGTLSPDEAVSLAAKVLCEHLNLFVDLSENAKTAEVMVEKEDDEKEKVLEMS 255 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 ++ELELSVRS NCL+ I + +L +T DM+++ N GRKSL E+ L +GL L Sbjct: 256 IDELELSVRSYNCLKRAGINTVEELTNKTSEDMMKVRNLGRKSLEEVLAKLNELGLAL 313 >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 = 242 bits (618), Expect = 5e-62, Method: Compositional matrix adjust. Identities = 129/298 (43%), Positives = 192/298 (64%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT+++ GV HE S++KGV EDLT+IILN+K + Sbjct: 28 PLEPGFGVTIGNALRRILLSSLEGYAITSIRFSGVSHEFSTMKGVVEDLTEIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQTV-NDIEVLNPDHVICNLDVDAVVRMELTVS 150 K GDS ++V I G TAGDI N+ EVLNPD VICN++ + +ELT++ Sbjct: 88 FKKVGDSGDSEKVFILVNGQDQFTAGDITKFSNNFEVLNPDFVICNMEKTVTLEVELTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ + +G+I ID++++P+K V YT+E+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPAEENKINDAVVGVIAIDSIFTPMKNVKYTIENYRVEQKTDYEKLILDISTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I E+++ A++IL +F + E KE ++++ + L L ++ +L+LS Sbjct: 208 IHPEEALKEAAKILIQHFMLFSDENLVLESQAKEETKEVDEEILHMRKILKTELVDLDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ +I + DL+ ADML+ NFG+KSL EI+ ++ + L GMNL + Sbjct: 268 VRALNCLKAADIRTLADLVSYDVADMLKFRNFGKKSLTEIQELVKSKSLSFGMNLSKF 325 >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 = 242 bits (618), Expect = 5e-62, Method: Compositional matrix adjust. Identities = 124/288 (43%), Positives = 192/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+ Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNV 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K + + GP +TAGDI T +DIE++NPDH + + ++ +TV Sbjct: 81 KGLAVKSYVEDEKIIELDVEGPAEITAGDILTDSDIEIVNPDHYLFTIAEGHSLKATMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 141 AKNRGYVPAEGNKKDDVPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I ED++ L++R+L + L +F + E K + + + L + +EEL+LSVRS Sbjct: 201 TIIPEDALGLSARVLIEHLNLFTDLTEVAKATEVMKETEKVNDEKVLDRTIEELDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL ++TE +M+++ N GRKSL E+K L +GL L Sbjct: 261 YNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVKIKLADLGLGL 308 >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 = 242 bits (618), Expect = 5e-62, Method: Compositional matrix adjust. Identities = 125/288 (43%), Positives = 191/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILNI Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNI 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K + + GP VTAGDI T +DIE++NPDH + + ++ +TV Sbjct: 81 KGLAVKSYVEDEKMIELDVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLKATMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 141 AKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I ED++ L++R+L + L +F + E K + + L + +EEL+LSVRS Sbjct: 201 TIIPEDALGLSARVLIEHLNLFTDLTEVAKATDVMKETEKVNDEKVLDRTIEELDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL +++E +M+++ N GRKSL E+K L +GL L Sbjct: 261 YNCLKRAGINTVFDLTEKSEPEMMKVRNLGRKSLEEVKVKLADLGLGL 308 >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 = 242 bits (618), Expect = 6e-62, Method: Compositional matrix adjust. Identities = 124/295 (42%), Positives = 194/295 (65%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E EN + EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ Sbjct: 14 ESENYGKFVVEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDV 73 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 I+L +KGI +K +S K++ + GP VTAGDI T +DIE++N DH + ++ Sbjct: 74 IQIVLAVKGIAIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHS 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 +R +TV KG+GYVPA ++ + PIG I +D++Y+P+ KV+Y VE AR G YDKL+ Sbjct: 134 MRAVMTVKKGYGYVPADENKVDGAPIGTIAVDSIYTPVSKVNYQVEPARVGGDSSYDKLT 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + I T+G+I +++++L+++IL D L +F++ E E + + + L K +EE Sbjct: 194 LEITTNGTIVSDEALSLSAKILTDHLNLFVDLSEVAAEAETLVVKDEVKTERVLDKIIEE 253 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 ++ SVR+ N L+ I + D+++ +EADM+++ N G KS+ E+K L +GL L Sbjct: 254 MDFSVRAYNGLKRAGINTVTDIVEMSEADMIKVKNLGHKSVEEVKVKLTELGLSL 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 = 242 bits (617), Expect = 7e-62, Method: Compositional matrix adjust. Identities = 124/288 (43%), Positives = 192/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+ Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNV 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K + + GP VTAGDI T +DIE++NPDH + + +R +TV Sbjct: 81 KGLAVKSYVEDEKIIELEVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLRATMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 141 AKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I ED++ L++R+L + L +F + + K + + + L + +EEL+LSVRS Sbjct: 201 TIIPEDALGLSARVLIEHLNLFTDLTDVAKATEVMKETEKVNDEKVLDRTIEELDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL +++E +M+++ N GRKSL E+K L +GL L Sbjct: 261 YNCLKRAGINTVFDLTEKSEPEMMKVRNLGRKSLEEVKVKLADLGLGL 308 >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 = 242 bits (617), Expect = 7e-62, Method: Compositional matrix adjust. Identities = 130/310 (41%), Positives = 194/310 (62%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKDYGKFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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 GVLGTMGLFL 317 L +GL L Sbjct: 299 VKLADLGLGL 308 >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 = 242 bits (617), Expect = 7e-62, Method: Compositional matrix adjust. Identities = 129/301 (42%), Positives = 189/301 (62%), Gaps = 7/301 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 IA+PL RG+ TLGNA+RRVL++SL G AIT ++IDGV HE S+I GV ED+ +I+LN+ Sbjct: 25 FIAQPLERGYGVTLGNAMRRVLLASLPGTAITGIKIDGVFHEFSTIDGVREDVPEIVLNL 84 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELT 148 K + K + + T+ GP AGDI + EVLN D I ++ +A V +++ Sbjct: 85 KKVRFKSNCKRSCKTTLTLAGPKDFLAGDIVAQEGEFEVLNKDLHIATINSEAAVTIDIY 144 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + +G GYVPA+ +R++ PIG I ID++Y+PIK V TVE+ R GQ DY+K+ + ++TD Sbjct: 145 IGRGRGYVPAEENRSDGMPIGFIAIDSIYTPIKNVKLTVENTRVGQKTDYEKMILDVETD 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-----FNPALLKKVEEL 263 GSI+ +D+++LA RI+ D + F NF P +E + K L L K+E+L Sbjct: 205 GSISPDDAISLAGRIINDHVTFFANF-SPTEEEYAEEEYKQLDEEFENMRKKLQTKIEDL 263 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +LSVRS NCLR I + DL+ R E ++L NFG+KSL E++ L GL GM++ Sbjct: 264 DLSVRSHNCLRLAEIDTLADLVSRREDELLNYKNFGKKSLTELREALEKEGLKFGMDITR 323 Query: 324 W 324 + Sbjct: 324 Y 324 >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 = 241 bits (616), Expect = 8e-62, Method: Compositional matrix adjust. Identities = 123/290 (42%), Positives = 197/290 (67%), Gaps = 2/290 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRRVL+SSL G A+T+V+IDGV HE+S+I GV ED+T+IILN+ Sbjct: 24 FILEPLERGYGITLGNSLRRVLLSSLPGVAVTSVKIDGVHHELSTIPGVKEDVTEIILNL 83 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ K+ G+ K + I G VVTAGDI+ +++++L PD I L A + ME+T+ Sbjct: 84 KGLTAKLYGEGPKTIYIEAEGECVVTAGDIKADSEVDILVPDMHIATLGAGAKLYMEITI 143 Query: 150 SKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYV A+ +++ +N PIG+I +D++YSP+ KV+YTV++ R G + D+DKL++ + T Sbjct: 144 DRGRGYVSAEKNKSLMQNAPIGIIAVDSIYSPVLKVNYTVDNTRVGHITDFDKLTLEVWT 203 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 DG+I+ +++V++A+++L + L F++ E V+ + L +EEL+LSV Sbjct: 204 DGTISAKEAVSMAAKLLNEHLNPFVDLSEETNVVELIVEKDDQGKEKILEMTIEELDLSV 263 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ I + DLI+++ +M+++ N G+KS E++ L ++G L Sbjct: 264 RSFNCLKRAGINTVNDLIEKSAEEMMKVRNLGKKSFDEVREKLHSLGYEL 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 = 241 bits (616), Expect = 8e-62, Method: Compositional matrix adjust. Identities = 133/312 (42%), Positives = 203/312 (65%), Gaps = 8/312 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK--EVKEDI 245 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E K EV ++ Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSAEVMKEA 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + +S + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E Sbjct: 239 DTES--DDRILERTIEELDLSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEE 296 Query: 306 IKGVLGTMGLFL 317 +K L +GL L Sbjct: 297 VKVKLIDLGLGL 308 >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 = 241 bits (616), Expect = 8e-62, Method: Compositional matrix adjust. Identities = 122/272 (44%), Positives = 186/272 (68%), Gaps = 8/272 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 2 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 61 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D A + M + V Sbjct: 62 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKVE 121 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 122 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMET 181 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 182 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 238 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 RS NCL+ E I Y+GDL+QRTE ++L+ N G Sbjct: 239 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLG 270 >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 = 241 bits (616), Expect = 9e-62, Method: Compositional matrix adjust. 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|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 = 241 bits (616), Expect = 9e-62, Method: Compositional matrix adjust. Identities = 130/310 (41%), Positives = 194/310 (62%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E +N + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKNYGKFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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|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 = 241 bits (616), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 125/324 (38%), Positives = 208/324 (64%), Gaps = 10/324 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + IKP+ + +L +E + PL GF T+GNALRRVL+SSL G AI++++I+G Sbjct: 5 QFIKPDKV---ILLNSDEFKGQFEFRPLEPGFGLTIGNALRRVLLSSLEGYAISSIKIEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMS--GDSHKRVTIFKRGPGVVTAGDI-QTVND 124 V HE S+I GV ED+T+IILN+K + LK + G ++++V G V+TAGD+ +++N Sbjct: 62 VEHEFSTIPGVIEDVTEIILNLKQVRLKAAAEGQANEQVVAKVSGQTVITAGDLGKSING 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 EVLNPD VICNL+ D + + KG GYVP++ +++ N P+G I ID++++PIKKV Sbjct: 122 FEVLNPDLVICNLNTDVTFEITFNIEKGRGYVPSEQNKSNNAPVGTIAIDSIFTPIKKVQ 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y++E+ R Q DY+KL + I+TDGSI+ ++++ AS+IL +F I E + Sbjct: 182 YSIENYRVEQKTDYEKLVLDIETDGSISPQNALTEASKILIYHFMLFSDERITLETEAVK 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + ++L L K+ +++LSVR+ NCL+ + +G+L+ +++D+++ NFG+ Sbjct: 242 ASIQYDEETLHTRQLLKSKLADMDLSVRALNCLKAAEVETLGELVSYSKSDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDW 324 KSL E++ ++ + GL G ++ + Sbjct: 302 KSLTELEELVHSKGLNFGFDVAKY 325 >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 = 241 bits (616), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 132/296 (44%), Positives = 193/296 (65%), Gaps = 13/296 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +AEPL RGF TLGN+LRRVL+SSL G A+ +V+IDG+ HE S+I GV ED+T+IILNI Sbjct: 23 FVAEPLDRGFGTTLGNSLRRVLLSSLPGVAVISVKIDGIQHEFSTIPGVKEDVTEIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ K+ D K V I +G VTAG I+ +++E+L+P I LD A + ME+T+ Sbjct: 83 KGLTAKLYCDEPKTVRIDAQGECEVTAGSIECDSEVEILDPSMHIATLDTGAKLAMEITL 142 Query: 150 SKGHGYVPA---KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 KG GYV A KH E P+G I +D++Y+P+ KV+YTVE+ R Q+ DYDKL++ + Sbjct: 143 KKGQGYVSADRNKHTELEKAPVGTIAVDSIYTPVLKVNYTVENTRVEQITDYDKLTLEVW 202 Query: 207 TDGSITGEDSVALASRILQDQLGMFINF--EEPKKEV---KEDINVKSLPFNPALLKKVE 261 TDG+I+ +++V+LA++IL QL F++ E E+ KED L L +E Sbjct: 203 TDGTISAKEAVSLAAKILNRQLNHFVDLSDEVSATEIMDKKEDTGKDKL-----LEMTIE 257 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 EL+LSVR+ NCL+ + + DLI ++ +M+++ N G+KSL E+ L ++G L Sbjct: 258 ELDLSVRAFNCLKRAGVNTVADLINKSPDEMMKVRNLGKKSLEEVIWKLQSLGFDL 313 >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 = 241 bits (615), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 135/293 (46%), Positives = 196/293 (66%), Gaps = 9/293 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RGF TLGN+LRRVL+SSL G A+T+++IDGV HE S+I GV ED+T+I+LNI Sbjct: 23 FILEPLERGFGTTLGNSLRRVLLSSLPGVAVTSIKIDGVQHEFSTIPGVKEDVTEIVLNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ K+ GD K V I G VTAGDI+ +++E+L+P I LD A + MEL + Sbjct: 83 KGLIAKVHGDVPKTVYIEAEGECEVTAGDIKADSEVEILDPGMHIATLDEGAKLYMELVI 142 Query: 150 SKGHGYVPAKHHRTENDP-IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 +G GYV + ++ P IG+I ID++Y+P+ KV+Y+VE+ R GQ+ DYDKL++ I TD Sbjct: 143 DRGRGYVSSDRNKQIMQPVIGVIPIDSIYTPVLKVNYSVENTRVGQITDYDKLTLEIWTD 202 Query: 209 GSITGEDSVALASRILQDQLGMFINF-EEPKKE---VKEDINVKSLPFNPALLKKVEELE 264 G+I+ +++V+LA+++L + L +F++ EE E V++D K L +EEL+ Sbjct: 203 GTISAKEAVSLAAKVLNEHLNLFVDLSEEGYTEQIMVEKDDKCK----EKVLEMTIEELD 258 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LSVRS NCL+ I + DL +TE DM+++ N GRKSL E+ L ++G L Sbjct: 259 LSVRSFNCLKRAGINTVEDLTNKTEEDMMKVRNLGRKSLDEVVLKLKSLGYDL 311 >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 = 241 bits (615), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 134/310 (43%), Positives = 197/310 (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 EMIEPK-IE-IIEQSEDGTYGKFVVEPLERGYGITLGNSLRRVLLSSLPGAAPKSVKIDG 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|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 = 241 bits (615), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 125/292 (42%), Positives = 194/292 (66%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL G+AI+ V+IDGVLHE SSI GV ED+T+I++N+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGSAISYVKIDGVLHEFSSIPGVKEDVTEIVMNL 82 Query: 90 KGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K + D K I G GVVT DIQ +DIE++NP+ VI L+ D+ + M Sbjct: 83 KSLAIKNTSETDEPKTAYIEFEGEGVVTGADIQVDSDIEIMNPETVIATLNGGADSKLYM 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++ G GYV A +++ PI +I ID++Y+P+++V+ TVE+ R GQ+ D+DKL++ + Sbjct: 143 ELTITNGRGYVSADKNKSSELPIAVIPIDSIYTPVERVNLTVENTRVGQITDFDKLTLDV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E + + I + L ++ELEL Sbjct: 203 YTNGTLAPDEAVSLAAKVLNEHLKLFIDLSEVAQAAEVMIEKEDDEKEKVLEMSIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 263 SVRSYNCLKRAGINTVEELTNRTSEDMMKVRNLGRKSLEEVLAKLKELGLEL 314 >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 = 241 bits (615), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 132/294 (44%), Positives = 192/294 (65%), Gaps = 12/294 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN+LRR+L+SSL GAA+TAVQIDGVLHE S+I GV ED+T IILN+ Sbjct: 23 FVVEPLERGFGTTLGNSLRRILLSSLPGAAVTAVQIDGVLHEFSTIDGVVEDVTQIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I +G GVVTA +I +D+E+LNP+ I L A + M LT Sbjct: 83 KKLALKVYSEEEKTLEIDIQGAGVVTAANITHDSDVEILNPELHIATLAEGASLHMRLTA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYV A+ ++ ++ PIG+I ID++Y+PI++V+Y VE R GQ +DKL++ + TDG Sbjct: 143 RRGRGYVQAEDNKRDDMPIGVIPIDSIYTPIQRVNYQVEKTRVGQDASFDKLTLDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINF------EEPKKEVKEDINVKSLPFNPALLKKVEEL 263 SI E++V+L ++I+ + L +F+ E E +ED K L +EEL Sbjct: 203 SIRPEEAVSLGAKIMTEHLNIFVGLTDEALHAEIMVEKEEDQKEKVLEMT------IEEL 256 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +LSVRS NCL+ I + +L ++E +M+++ N GRKSL E++ L +GL L Sbjct: 257 DLSVRSYNCLKRAGINTVQELANKSEDEMMKVRNLGRKSLEEVQAKLDELGLGL 310 >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 = 241 bits (615), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 128/288 (44%), Positives = 198/288 (68%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EPL RG+ TLGN+LRR+L+SSL G+A+T++QIDGVLHE ++++G+ ED+ IILN+ Sbjct: 23 IVVEPLERGYGTTLGNSLRRILLSSLPGSAVTSIQIDGVLHEFATVEGIVEDVPTIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ K + + GP VVTA DI ND+++LNP+ IC L A ++M L V Sbjct: 83 KKLALKLHTQESKVIELNVTGPKVVTAADIMHDNDVQILNPELYICTLADGAELKMRLNV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + G GYV ++H++ E+ PIG++ ID++Y+PIKKV+Y VE+ R GQ YDKL++ I TDG Sbjct: 143 ANGRGYVRSEHNKREDMPIGVLPIDSIYTPIKKVNYQVENTRIGQKNVYDKLTLDIWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI+ E S++LA++IL + L +F+N + ++ + + + L+ +EEL+LSVRS Sbjct: 203 SISPEKSLSLAAKILTEHLNIFVNLNDEARQTEIMVEKEEAEKEKMLIMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++EA+M+++ N GRKSL E+K L + L L Sbjct: 263 YNCLKRAGINTIQELTNKSEAEMIKVRNLGRKSLEEVKQKLANLELSL 310 >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 = 241 bits (615), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 137/308 (44%), Positives = 192/308 (62%), Gaps = 12/308 (3%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EE+ R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+IDGV HE +I GV ED+ Sbjct: 15 EEDRRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRIDGVPHEFRTIAGVKEDV 74 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILNIK I L D + + K GPGVVTAGDI +E+ NPD VI NL+ Sbjct: 75 TQIILNIKEIVLSSENDEPVVMYLRKSGPGVVTAGDITPPAGVEIHNPDLVIANLNEKGK 134 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +ELTV +G GYV A ++ N I I +D++YSP+KKVSY VE+ R Q D+D+L Sbjct: 135 LEIELTVERGRGYVSANQNKDPNGEISRIPVDSIYSPVKKVSYAVEATRVEQRTDFDRLV 194 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKK- 259 + ++T SIT D++A A + L + G+ +N E E I V P + AL + Sbjct: 195 VDVETKASITPRDALASAGKTLVELFGLARELNVE------AEGIEVGPSPMDQALQQDL 248 Query: 260 ---VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 ++EL+L RS+N L+ E I +G+L+ R+EAD+L + NFG KS+ EIK L +GL Sbjct: 249 ALMIDELDLQARSSNALKREGIHTVGELVARSEADLLDIRNFGAKSISEIKEKLAELGLS 308 Query: 317 LGMNLPDW 324 L + D+ Sbjct: 309 LKGSSVDY 316 >gi|157493263|gb|ABV57997.1| RNA polymerase alpha subunit [Vibrio mimicus] Length = 270 Score = 241 bits (615), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 122/273 (44%), Positives = 187/273 (68%), Gaps = 8/273 (2%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS 97 GF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ Sbjct: 1 GFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVA 60 Query: 98 -GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGY 155 G +T+ K G G V AGDI D+E++NP+HVIC+L D 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++ + + + + F+P LL+ V++LEL+VRS NC Sbjct: 181 PEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANC 237 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 238 LKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 270 >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 = 241 bits (615), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 129/310 (41%), Positives = 204/310 (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-IETIEINDDSKFGKFVV-EPLERGYGTTLGNSLRRILLSSLPGTAVTSIQIDD 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|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 = 241 bits (614), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 123/288 (42%), Positives = 192/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+ Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIRIDGVLHEFDTIPGVREDVMQIILNV 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K + + GP VTAGDI T +DIE++NPDH + + ++ +TV Sbjct: 81 KGLAVKSYVEDEKIIELDVEGPAEVTAGDILTDSDIELVNPDHYLFTIADGYTLKASMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 141 AKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I ED++ L++R+L + L +F + + K + + + L + +EEL+LSVRS Sbjct: 201 TIIPEDALGLSARVLIEHLNLFTDLTDVAKATEVMKEAEKVNDEKVLDRTIEELDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL +++E +M+++ N GRKSL E+K L +GL L Sbjct: 261 YNCLKRAGINTVFDLTEKSEPEMMKVRNLGRKSLEEVKVKLADLGLGL 308 >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 = 241 bits (614), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 124/288 (43%), Positives = 190/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++ DGVLHE +I GV ED+ IILNI Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKFDGVLHEFDTIPGVREDVMQIILNI 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K + + GP VTAGDI T +DIE++NPDH + + ++ +TV Sbjct: 81 KGLAVKSYVEDEKMIELEVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLKATMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 141 AKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I ED++ L++R+L + L +F + E K + + L + +EEL+LSVRS Sbjct: 201 TIIPEDALGLSARVLIEHLNLFTDLTEVAKATDVMKETEKVNDEKVLDRTIEELDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL +++E +M+++ N GRKSL E+K L +GL L Sbjct: 261 YNCLKRAGINTVFDLTEKSEPEMMKVRNLGRKSLEEVKVKLADLGLGL 308 >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 = 241 bits (614), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 137/316 (43%), Positives = 204/316 (64%), Gaps = 4/316 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KPN IE V E+ + EPL RG+ TLGN+LRR+L+SSL G+A+T+V+I+G Sbjct: 3 EIEKPN-IE-CVERSEDNTYAKFVIEPLERGYGITLGNSLRRILLSSLPGSAVTSVKIEG 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 GVLGTMGLFLGMNLPD 323 L + LG P+ Sbjct: 301 NKLKELS--LGFRSPE 314 >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 = 241 bits (614), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 123/295 (41%), Positives = 199/295 (67%), Gaps = 4/295 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDGV+HE S I GV ED+T+II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDGVVHEFSPIPGVKEDVTEIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K + ++++ T + G GVV AGDIQ DIE+LNP+ VI L D+ + + Sbjct: 83 KNLAIKNTSETNEPKTAYIEFEGEGVVRAGDIQADPDIEILNPELVIATLSGGADSKLYI 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++KG GY+ A ++ ++ PIG+I +D++Y+P+++V+ +VE+ R GQ+ D+DKL++ + Sbjct: 143 ELTITKGRGYISADKNKNDDLPIGVIAVDSIYTPVERVNLSVENTRVGQITDFDKLTLDV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L FI+ E K + + + L ++ELEL Sbjct: 203 FTNGTLGPDEAVSLAAKVLSEHLNSFIDLSENAKTAEVMVEKEDNEKEKVLEMNIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 SVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L ++ Sbjct: 263 SVRSYNCLKRAGINTVEELCNRTSEDMMKVRNLGRKSLEEVLAKLKELGLSLNLS 317 >gi|270265495|emb|CBI68384.1| RNA polymerase alpha-subunit [Vibrio tapetis] Length = 286 Score = 241 bits (614), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 123/272 (45%), Positives = 185/272 (68%), Gaps = 8/272 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 18 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 77 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 +K++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 78 AVKVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 137 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 138 RGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 197 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ ++ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 198 NGTLDPEEAIRRSATILAEQLDAFVDLRDIRVPEE---KEEKPEFDPILLRPVDDLELTV 254 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 RS NCL+ E I Y+GDL+QRTE ++L+ N G Sbjct: 255 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLG 286 >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 = 241 bits (614), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 130/305 (42%), Positives = 192/305 (62%), Gaps = 15/305 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 IA+PL RG+ TLGN +RRVL++SL G AIT ++IDGV HE +++ GV ED+ +I+LN+ Sbjct: 25 FIAQPLERGYGVTLGNVMRRVLLASLPGTAITGLKIDGVFHEFAAVDGVREDVPEIVLNL 84 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELT 148 K + K + + + T+ GP TAGDI + EVLN D I ++ A ++++L Sbjct: 85 KRVRFKSTCKRNCKTTLAIVGPKEFTAGDIIAQEGEFEVLNKDMHIATVNAGATLKIDLY 144 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V +G GYVPA+ +R E PIG I IDA+Y+PI+ V +TVE+ R GQ DY+K+ + ++TD Sbjct: 145 VGRGRGYVPAEENRPEGMPIGYIAIDAIYTPIRNVRFTVENTRVGQRTDYEKMILDVETD 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFE---------EPKKEVKEDINVKSLPFNPALLKK 259 GS+T +DS++LA +I+ D + F NF E K++ E ++ L L K Sbjct: 205 GSVTPDDSISLAGKIITDHVTFFANFSPTEEEFTEEEFKQQDDEFETMRRL-----LHTK 259 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +E+L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL E+K L L GM Sbjct: 260 IEDLDLSVRSHNCLRLAEIDTIGDLVSRKEDELLNYKNFGKKSLTELKEQLEKFDLKFGM 319 Query: 320 NLPDW 324 ++ + Sbjct: 320 DITKY 324 >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 = 241 bits (614), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 137/312 (43%), Positives = 194/312 (62%), Gaps = 17/312 (5%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+IDGVLHE ++I GV ED++DII Sbjct: 18 RSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVKIDGVLHEFTTISGVKEDVSDII 77 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LNIKG+ L D + + K GPGVVTAGDIQ +E+ NPD I L+ A + +E Sbjct: 78 LNIKGLVLSSDSDEPVVMQLVKEGPGVVTAGDIQPPAGVEIHNPDLHIATLNETAKIEIE 137 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 L V +G GYVPA T + IG I +D +YSP+ KVSY VE+ R Q D+DKL + ++ Sbjct: 138 LIVERGRGYVPATVTATGGE-IGRIPVDQIYSPVLKVSYKVEATRVEQRTDFDKLVIDVE 196 Query: 207 TDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNPALLK 258 T SIT D++A A + L + G+ +N P + E I S+P Sbjct: 197 TKNSITARDALASAGKTLVELFGLARELNIAAEGIEIGPSPQETEYIAAYSMP------- 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L+ SVRS NCL+ E+I +G+L +R E+D+L + NFG+KS+ E+K L +GL L Sbjct: 250 -IEDLDFSVRSYNCLKREDIHTVGELAERAESDLLDIRNFGQKSINEVKIKLAGLGLTLK 308 Query: 319 MNLPDWPPESIE 330 D+ P ++E Sbjct: 309 DAPEDFDPSTLE 320 >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 = 241 bits (614), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 123/288 (42%), Positives = 191/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+ Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNV 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K + + GP VTAGDI T +DIE++NPDH + + ++ +TV Sbjct: 81 KGLAVKSYVEDEKMIELDVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLKATMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +K GY+PA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 141 AKKRGYIPAEGNKQDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I ED++ L++R+L + L +F + E K + + L + +EEL+LSVRS Sbjct: 201 TIIPEDALGLSARVLIEHLNLFTDLTEVAKTTDVMKETEKVNDEKILDRTIEELDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL +++E +M+++ N GRKSL E+K L +GL L Sbjct: 261 YNCLKRAGINTVFDLTEKSEPEMMKVRNLGRKSLEEVKVKLADLGLGL 308 >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 = 241 bits (614), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 132/304 (43%), Positives = 192/304 (63%), Gaps = 1/304 (0%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+IDGVLHE ++I GV ED++DII Sbjct: 18 RSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVKIDGVLHEFTTISGVKEDVSDII 77 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LNIKG+ L D + + K GPGVVTAGDIQ +E+ NPD I L+ A + +E Sbjct: 78 LNIKGLVLSSDSDEPVVMQLVKEGPGVVTAGDIQPPAGVEIHNPDLHIATLNETAKIEIE 137 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 L V +G GYVPA T + IG I +D +YSP+ KVSY VE+ R Q D+DKL + ++ Sbjct: 138 LIVERGRGYVPATVTATGGE-IGRIPVDQIYSPVLKVSYKVEATRVEQRTDFDKLVIDVE 196 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T SIT D++A A + L + G+ + ++ + + + A +E+L+ S Sbjct: 197 TKNSITARDALASAGKTLVELFGLARELNIAAEGIEIGPSPQETEYIAAYSMPIEDLDFS 256 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 VRS NCL+ E+I +G+L +R E+D+L + NFG+KS+ E+K L +GL L D+ P Sbjct: 257 VRSYNCLKREDIHTVGELAERAESDLLDIRNFGQKSINEVKIKLAGLGLTLKDAPEDFDP 316 Query: 327 ESIE 330 ++E Sbjct: 317 STLE 320 >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 = 241 bits (614), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 125/302 (41%), Positives = 191/302 (63%), Gaps = 11/302 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EP RGF T+GN+LRR+L+SSL G+++T+V+I GV HE ++I G+ ED+T+I+LN+K I Sbjct: 31 EPFERGFGSTIGNSLRRILLSSLEGSSVTSVKIQGVQHEFTTIPGIVEDVTEIVLNLKAI 90 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K S K + I K GVVTAGDI T + +E+LN D VI + D + +E+TV G Sbjct: 91 IVKNHSPSTKTLRIEKTSRGVVTAGDIITDDQVEILNRDLVIATMTDDVPLYLEMTVENG 150 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GY+PA H +G+I +DA++SP+ +V Y +E R GQ +YD+L + I T+G++T Sbjct: 151 RGYIPAADHHGPEQELGVIPLDAIFSPVVRVRYLIEETRVGQRTNYDRLILEIWTNGTVT 210 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS-----------LPFNPALLKKVE 261 E ++ +++IL+ L FI + EP E+ + +++ L L + + Sbjct: 211 PESALVESAKILRKHLNPFITYREPGPEMFPEGGLRNMLEATGYAPVDLELEEKLGQSLA 270 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 EL LSVR+TNCL E I ++ DL+ RTE +L++ NFG +L E++ LG +GL LGM L Sbjct: 271 ELNLSVRATNCLESEGINFVRDLVTRTEDQLLQVRNFGETTLTEVRERLGLIGLRLGMKL 330 Query: 322 PD 323 P+ Sbjct: 331 PN 332 >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 = 240 bits (613), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 123/295 (41%), Positives = 193/295 (65%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E EN + EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ Sbjct: 14 ESENYGKFVVEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDV 73 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 I+L +KGI +K +S K++ + GP VTAGDI T +DIE++N DH + ++ Sbjct: 74 IQIVLAVKGIAIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHS 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 +R +TV KG+GYVP ++ + PIG I +D++Y+P+ KV+Y VE AR G YDKL+ Sbjct: 134 MRAVMTVKKGYGYVPDDENKVDGAPIGTIAVDSIYTPVSKVNYQVEPARVGGDSSYDKLT 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + I T+G+I +++++L+++IL D L +F++ E E + + + L K +EE Sbjct: 194 LEITTNGTIVSDEALSLSAKILTDHLNLFVDLSEVAAEAETLVVKDEVKTERVLDKIIEE 253 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 ++ SVR+ N L+ I + D+++ +EADM+++ N G KS+ E+K L +GL L Sbjct: 254 MDFSVRAYNGLKRAGINTVADIVEMSEADMIKVKNLGHKSVEEVKVKLTELGLSL 308 >gi|171911662|ref|ZP_02927132.1| DNA-directed RNA polymerase subunit alpha [Verrucomicrobium spinosum DSM 4136] Length = 371 Score = 240 bits (613), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 130/303 (42%), Positives = 191/303 (63%), Gaps = 18/303 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +AEP RG+ HT+GN+LRRVL+SSL GA+IT+V+I G HE +++ GV ED+T I+LN+ Sbjct: 28 FVAEPFDRGYGHTIGNSLRRVLLSSLEGASITSVRIKGAEHEFTTLPGVLEDVTQIVLNL 87 Query: 90 KGINLKMSGDSHKR---VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 K + + + R V++ K G VVTAGDI+ +V+N D VIC LD E Sbjct: 88 KKVKFRHFENKETRLLQVSVDKEG--VVTAGDIKDDTSYQVINKDQVICTLDRKGKFEAE 145 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 L V G G+ + ++ + PIG+I ID+++SP+ +V Y VE+ R GQ DYDKL + + Sbjct: 146 LEVKVGRGFATNEDNKRPDMPIGVIPIDSIFSPVTRVKYGVEATRVGQNTDYDKLLIDVW 205 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEE--------PKKEVKEDINVKSLPFNPALLK 258 TDG IT +D++ +S IL+ L +F+N+++ P+ + +E++ ++ L L Sbjct: 206 TDGRITPQDALLQSSAILRKHLDVFVNYDDNQVEFEVAPEAQSEENLELRKL-----LNM 260 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 V E+ELSVR+ NCL NI +G L ++EA+MLR NFG+KSL EIK L +GL LG Sbjct: 261 SVNEIELSVRAANCLNNANITSVGQLAMKSEAEMLRYRNFGKKSLTEIKEKLSELGLTLG 320 Query: 319 MNL 321 M L Sbjct: 321 MKL 323 >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 = 240 bits (612), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 122/288 (42%), Positives = 189/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+++GV ED+ IILNI Sbjct: 23 FVIEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTVEGVEEDVATIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +G G VTA DI +D+E+LNPD I + + +RM + Sbjct: 83 KKLALKIYSDEEKVIEIDVKGDGTVTAADITHDSDVEILNPDLYIATIAKNGHLRMRMYA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 ++G GY A ++ E+ PIG+I ID++Y+P+ +V++ VE+ R GQ+ +DKLS+ + TDG Sbjct: 143 NRGRGYARADQNKREDLPIGVIPIDSIYTPVSRVNFQVENTRVGQLAHFDKLSLDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI ++++AL ++I + L +F+ + + + + + L +EEL+LSVRS Sbjct: 203 SIGPKEAIALGAKIFTEHLNIFVGLTDEAQTAEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++E DM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVHELASKSEDDMMKVRNLGRKSLEEVKVKLEDLGLGL 310 >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 = 240 bits (612), Expect = 3e-61, Method: Compositional matrix adjust. Identities = 126/309 (40%), Positives = 194/309 (62%), Gaps = 15/309 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +A+PL RG+ TLGNA+RRVL++SL G AIT ++IDGV HE S+I GV ED+ +I+LN+ Sbjct: 25 FVAQPLERGYGVTLGNAMRRVLLASLPGTAITGIKIDGVFHEFSTIDGVREDVPEIVLNL 84 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELT 148 K + K + + ++ GP AGDI + EVLN D I L+ DA + +++ Sbjct: 85 KKVRFKSTTKRSCKTSLSIEGPADFKAGDIVAQEGEFEVLNKDMHIATLNGDAKLNIDIY 144 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + +G GYVPA+ +R E PIG I ID++++PIK V ++VE+ R GQ DY+K+ + ++TD Sbjct: 145 IGRGRGYVPAEENRGEGMPIGFIAIDSIFTPIKNVKFSVENTRVGQRTDYEKMILDVETD 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEP---------KKEVKEDINVKSLPFNPALLKK 259 GSI+ +DS++LA +++ + + +F NF K++ E N++ L L + Sbjct: 205 GSISPDDSISLAGKVINEHVSLFANFSPTEEEFAEEEYKQQDDEFENMRKL-----LQTR 259 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +E+L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL E+K L L GM Sbjct: 260 IEDLDLSVRSHNCLRLAEIDTLGDLVSRKEDELLTYKNFGKKSLTELKEQLDKCELKFGM 319 Query: 320 NLPDWPPES 328 ++ + +S Sbjct: 320 DITKYQMKS 328 >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 = 240 bits (612), Expect = 3e-61, Method: Compositional matrix adjust. Identities = 129/299 (43%), Positives = 183/299 (61%), Gaps = 11/299 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 IAEP G+ HT+GN+LRRVL+SS+ G+AI++++I+GV HE SI GV ED+TDI+LN+ Sbjct: 28 FIAEPFEAGYGHTIGNSLRRVLLSSIEGSAISSIKIEGVNHEFQSIDGVVEDVTDIVLNL 87 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L + + I G VTA DIQ +++ V+NP+ VIC LD E+ + Sbjct: 88 KKVLLISTKRDPITLQIRVNREGPVTAADIQADSNVTVVNPNQVICTLDRARPFNAEIEI 147 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GY P + ++ E IG+I ID+L+SP+ V Y VE+ R GQ+ DYDKL++ I TDG Sbjct: 148 KTGRGYYPGEQNKKEEQAIGVIAIDSLFSPVTLVKYAVENTRVGQITDYDKLNLEIWTDG 207 Query: 210 SITGEDSVALASRILQDQLGMF-------INFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 IT +D++ ++ IL+ + +F FE + EV E+ N L V E Sbjct: 208 RITPDDALKQSAAILKHHIDVFDRVSGENYEFENQQSEVSEEQN----KLRKLLNMSVNE 263 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +ELSVR+ NCL NI +G+L +TE +ML+ NFG+KSL EIK L +GL LGM Sbjct: 264 IELSVRAANCLNNANITTVGELAMKTEQEMLKYRNFGKKSLNEIKDKLEALGLSLGMKF 322 >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 = 240 bits (612), Expect = 3e-61, Method: Compositional matrix adjust. Identities = 120/288 (41%), Positives = 194/288 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L++SL G+A+T+VQ + VLHE S+I+GV ED+T IILN+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLNSLPGSAVTSVQFNNVLHEFSTIEGVVEDVTTIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K ++LK+ + K + I +G GV+TA D+ +D+EVLNPD I L A V+M++T Sbjct: 83 KKLSLKIFSEEEKTLEIEAQGEGVITARDLTHDSDVEVLNPDLHIATLSKGAQVQMKVTA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYVPA+ + T++ PIG+I +D++++P+ +V+Y VE+ R GQ+ ++DKL++ + TDG Sbjct: 143 KRGRGYVPAEGNNTDDLPIGVIPVDSIFTPVSRVNYQVENTRVGQITNFDKLTLDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI E++ +L ++IL + L +F+ + + + + + L +EEL+LSVRS Sbjct: 203 SIRPEEATSLGAKILNEHLNIFVGLTDQAQHAEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++E DM+++ N GRKSL E++ L + L L Sbjct: 263 YNCLKRAGINTVQELTHKSEEDMMKVRNLGRKSLEEVQEKLHELSLGL 310 >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 = 239 bits (611), Expect = 4e-61, Method: Compositional matrix adjust. Identities = 126/283 (44%), Positives = 188/283 (66%), Gaps = 13/283 (4%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 G+AIT IDGVLHE S+I+GV ED+ D++LN+K + +K++ +VT+ K+GP VTA Sbjct: 3 GSAITEASIDGVLHEYSTIEGVQEDVVDLLLNLKLVAIKLTTGEEAQVTLSKQGPCQVTA 62 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA----KHH--RTENDPIGL 170 GDIQ + ++V+NP+ VI NL+ + M L V +G G+ +H E +G Sbjct: 63 GDIQLTHGVDVVNPELVIANLNEKGKLNMTLKVERGIGFHSTDSFIRHFDDEVERKSVGK 122 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 + ID +SP+KKV+Y V+SAR D DKL++ ++T+G+I E+++ +++ ILQ QL Sbjct: 123 LKIDNSFSPVKKVAYYVDSARVENRTDLDKLTIELETNGTIDAEEAIRISASILQRQLHA 182 Query: 231 FIN--FEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 F++ FEE + + KE + F+P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRT Sbjct: 183 FVDMKFEESRSDNKERND-----FDPVLLRSVDDLELTVRSANCLKAENIHYIGDLVQRT 237 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 E ++L+ N G+KSL EIK VL + L LGM L +WPP S+ E Sbjct: 238 ENELLKTPNLGKKSLTEIKDVLASRSLSLGMKLENWPPASLGE 280 >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 = 239 bits (611), Expect = 4e-61, Method: Compositional matrix adjust. Identities = 128/313 (40%), Positives = 194/313 (61%), Gaps = 6/313 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 +V+ + ++ L +PL +G+ T+GNALRR+L+SSL G AIT+V+ GVLHE SSI+G Sbjct: 5 VVMEKADDFHGLFEFKPLEKGYGVTIGNALRRILLSSLEGYAITSVKFPGVLHEFSSIEG 64 Query: 78 VHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVIC 135 + ED+T+IILN+K + K D S R+ + + V+TAGDI + + EVLNPD VIC Sbjct: 65 IVEDVTEIILNLKMVRFKKVSDLSESRIVVNLKNVSVITAGDIGKFTSAFEVLNPDQVIC 124 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 ++D MEL + KG GYVPA R P G I +D++Y+PIK V Y+VE+ R Q Sbjct: 125 HIDDQKEFEMELLLDKGRGYVPADEPRANELPFGYIAVDSIYTPIKNVKYSVENTRVEQR 184 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLP 251 DY++L + I TDGSI ED++ A+ IL +F + FE+ K E ++ + L Sbjct: 185 TDYERLLIDIQTDGSIHPEDALKGAANILIQHFMLFSDQTMTFEKQKAEEDNQVDEEMLR 244 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L + EL+LSVR+ NCL+ ++ +GDL++ +DM++ NFG+KSL E++ ++ Sbjct: 245 MRKLLKTSLSELDLSVRAYNCLKSADVKTLGDLVRLEISDMMKFRNFGKKSLTELEQLVA 304 Query: 312 TMGLFLGMNLPDW 324 L GM++ + Sbjct: 305 DKQLTFGMDVSKY 317 >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 = 239 bits (611), Expect = 4e-61, Method: Compositional matrix adjust. Identities = 125/292 (42%), Positives = 194/292 (66%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL G+A++ V+I+GVLHE SSI GV ED+T+II+N+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGSAVSQVKIEGVLHEFSSIPGVKEDVTEIIMNL 82 Query: 90 KGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K +++K S D K I G G+V A DIQ DIE++NPD +I +L+ D + M Sbjct: 83 KNLSIKNNSSSDEPKVAYIEYDGEGIVRASDIQVDQDIEIMNPDQIIAHLNGGPDCKLYM 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++ G GYV A + E+ PIG+I +DA+Y+P+++V+ TVE+ R GQ+ D+DKL++ + Sbjct: 143 ELTITNGRGYVGADKGKPEDLPIGVIAVDAIYTPVERVNMTVENTRVGQITDFDKLTLDV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+ ++ +++V+LA+++L + L +FI+ E K + I + L ++ELEL Sbjct: 203 YTNKTLGPDEAVSLAAKVLSEHLKLFIDLSENAKTAEVMIEHQDDEKEKVLEMNIDELEL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +L +T DM+++ N GRKSL E+ L +GL L Sbjct: 263 SVRSYNCLKRAGINTVEELCNKTSEDMMKVRNLGRKSLEEVLAKLNELGLSL 314 >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 = 239 bits (610), Expect = 4e-61, Method: Compositional matrix adjust. Identities = 121/271 (44%), Positives = 185/271 (68%), 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 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D 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++ + + + + F+P LL+ V++LEL+V Sbjct: 181 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 237 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 RS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RSANCLKAEAIHYIGDLVQRTEVELLKTPNL 268 >gi|157493277|gb|ABV58004.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 269 Score = 239 bits (610), Expect = 4e-61, Method: Compositional matrix adjust. Identities = 121/271 (44%), Positives = 185/271 (68%), 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: 2 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 61 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D A + M + V Sbjct: 62 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKVE 121 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 122 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMET 181 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 182 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 238 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 RS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 239 RSANCLKAEAIHYIGDLVQRTEVELLKTPNL 269 >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 = 239 bits (610), Expect = 4e-61, Method: Compositional matrix adjust. Identities = 131/312 (41%), Positives = 201/312 (64%), Gaps = 4/312 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P IE+ N +AEP RGFA T+GN+LRR LMSS+ GAAI+A++I+GV H Sbjct: 12 RPKKIEFNTEANTP-NYGKFVAEPFERGFATTIGNSLRRTLMSSIEGAAISAIRIEGVNH 70 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMS---GDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 E S I+GV ED+T IILN+K + +K D K + + +G G AGD+ + IE+ Sbjct: 71 EFSFIEGVAEDVTRIILNLKQVRIKYEPEEKDQSKIIHLELKGAGYFRAGDLAVDSSIEI 130 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPD I L+ DA + M+L + +G GYVPA+ + + + +G I +D+++SP++KV + V Sbjct: 131 MNPDLHIATLNEDANLVMDLEIQRGRGYVPAEEKKKDIEVLGTIPVDSIFSPVQKVVFEV 190 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 R Q DY+KL++ + TDGS++ +D+VA A++IL++ L +FINFEE +E ++++ Sbjct: 191 SETRVAQRSDYEKLTLEVWTDGSVSPDDAVAQAAKILKEHLTVFINFEEELEEEDDELDE 250 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 +L K VEELELSVRS N LR I ++GDL++R+E +M + ++ + L E+K Sbjct: 251 ADEKLKASLSKHVEELELSVRSLNVLRSLEIDFIGDLVKRSEEEMSKSKHYSDQCLQELK 310 Query: 308 GVLGTMGLFLGM 319 L T+GL GM Sbjct: 311 VKLSTLGLSFGM 322 >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 = 239 bits (610), Expect = 5e-61, Method: Compositional matrix adjust. Identities = 127/305 (41%), Positives = 186/305 (60%), Gaps = 10/305 (3%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + N +AEP G+ HTLGN+LRRVL+ SL GAAIT+V+I G HE SS+ GV ED+T Sbjct: 34 DANHLTFVAEPFENGYGHTLGNSLRRVLLGSLEGAAITSVRIAGAQHEFSSLPGVVEDVT 93 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 +I+LN+K + K +G + +++ GVVTA DI +V+NPD +IC LD D + Sbjct: 94 EIVLNLKKVKFKHNGKEPRLLSLRVHKQGVVTAADIADDTVYQVVNPDQIICTLDQDTMF 153 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 E V G G+ ++ + PIG+I ID+++SP+ +V Y+V++ R GQ+ DYDKL + Sbjct: 154 ECEFQVRVGRGFATGDENKVPDMPIGVIPIDSIFSPVTRVKYSVQNTRVGQMTDYDKLIL 213 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMF-------INFEEPKKEVKEDINVKSLPFNPAL 256 + TDG I D++ AS IL+ L +F +NFEE V+++ + L Sbjct: 214 EVWTDGRIAPADAMLQASAILRHHLDVFVNYDDKQVNFEEAPSAVQDEETAR---LRKLL 270 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 V E+ELSVR+ NCL NI +G L ++E++ML+ NFG+KSL EIK L +GL Sbjct: 271 NMSVNEIELSVRAANCLNNANITTVGQLAMKSESEMLKYRNFGKKSLNEIKDKLLELGLS 330 Query: 317 LGMNL 321 LG+ + Sbjct: 331 LGVQV 335 >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 = 239 bits (610), Expect = 5e-61, Method: Compositional matrix adjust. Identities = 123/290 (42%), Positives = 192/290 (66%), Gaps = 2/290 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN+LRRVL+SSL G A+T+++IDGVLHE S+I GV ED+T+I+LN+ Sbjct: 23 FVVEPLERGFGTTLGNSLRRVLLSSLPGVAVTSIKIDGVLHEFSTIPGVKEDVTEIVLNM 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ K+ D K V I GP VTA I+ +++E+LNP+ I L A + ME+T+ Sbjct: 83 KGLTAKLHCDGAKTVEISAEGPCEVTADSIKCDSEVEILNPEMHIATLGDGARLYMEITL 142 Query: 150 SKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GY+ A+ ++ +N+ IG++ ID++Y+P+ KV++ VE+ R GQ+ DYDKL++ + T Sbjct: 143 DKGRGYISAERNKANMQNNVIGILPIDSIYTPVLKVNFGVENTRVGQITDYDKLTLEVWT 202 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G I +++V+LA+++L + L +F++ + + + L +EEL+LSV Sbjct: 203 NGVINAQEAVSLAAKVLTEHLNLFVDLSDKGYNTEIMVEKDDKGKEKVLEMTIEELDLSV 262 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ I + DLI ++E DM+++ N GRKSL E+ L ++G L Sbjct: 263 RSFNCLKRAGINTVEDLINKSEDDMMKVRNLGRKSLEEVVYKLNSLGFSL 312 >gi|324985144|gb|ADY69170.1| RNA polymerase subunit A [Photobacterium halotolerans] Length = 270 Score = 239 bits (609), Expect = 5e-61, Method: Compositional matrix adjust. Identities = 121/265 (45%), Positives = 182/265 (68%), Gaps = 7/265 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 9 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDVLEILLNLKGL 68 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V + Sbjct: 69 AVKVEGKDEVILTLSKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNADISMRIKVER 128 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA +SP+ +++Y+VE+AR Q D DKL + ++T+ Sbjct: 129 GRGYVPASARIHSDEDERPIGRLLVDATFSPVDRIAYSVEAARVEQRTDLDKLVIDMETN 188 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+VR Sbjct: 189 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 245 Query: 269 STNCLRGENIVYMGDLIQRTEADML 293 S NCL+ E I Y+GDL+QRTE ++L Sbjct: 246 SANCLKAEAIHYIGDLVQRTEVELL 270 >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 = 239 bits (609), Expect = 5e-61, Method: Compositional matrix adjust. Identities = 130/288 (45%), Positives = 187/288 (64%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL G+ T+GN+LRRVL+SSL GAAI+ + I GV HE ++I GV ED+ IILNI Sbjct: 23 FVVEPLESGYGITIGNSLRRVLLSSLPGAAISFINIRGVEHEFATIPGVLEDVPQIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KGI LK + D +V I K+G G + A DIQT D+E++N DH I L+ DA V +ELT+ Sbjct: 83 KGIVLKTNEDEPVKVIIEKKGEGEILASDIQTGGDVEIINLDHHIATLNEDADVYIELTI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY P++ + E IG+I ID+ Y+PIKKV++ VE+ R G DYD+L + + TDG Sbjct: 143 ERGRGYEPSELKKDEITEIGVIPIDSNYTPIKKVNWKVENTRVGNRTDYDRLILEVTTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 S+ +++ +LA++IL + L +FI E V + + L VEEL+LSVRS Sbjct: 203 SMKADEATSLAAKILTEHLNLFIGLTEHVNNVNIMVEKEEDQKEKVLEMTVEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ NI + +L Q++E DM+++ N G+KSL E++ L +GL L Sbjct: 263 FNCLKRANINTVEELTQKSEDDMMKVRNLGKKSLEEVENKLAELGLGL 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 = 238 bits (608), Expect = 7e-61, Method: Compositional matrix adjust. Identities = 123/291 (42%), Positives = 193/291 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ T+GNALRR+L+SSL G A+ AV+I+GVLHE S+I GV ED+T+IIL + Sbjct: 23 FVVEPLERGYGITIGNALRRILLSSLPGVAVNAVKIEGVLHEFSTIPGVKEDVTEIILTL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K ++ + G+ ++ + I +GP VT DI D+E++N D I LD + + M++ V Sbjct: 83 KELSATIDGEGNRTLKIEAQGPCTVTGADIICPPDVEIINKDLKIATLDEGSKLNMDIHV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYVPA+ ++TEN PIG++ +D++Y+P++KV+Y VE+ R GQ DYDKL++ + T+G Sbjct: 143 DKGRGYVPAEENKTENMPIGVLPVDSIYTPVEKVNYHVENTRVGQKSDYDKLTLEVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI ++ ++LA+++L + L +FI+ E V+ + + L +EEL+LSVRS Sbjct: 203 SINPQEGISLAAKVLVEHLKLFIDLTEHVSNVEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 NCL+ I + +L ++E DM+++ N G+KSL E+ L +GL L N Sbjct: 263 YNCLKRAGINTVEELANKSEDDMMKVRNLGKKSLEEVIQKLDELGLGLKPN 313 >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 = 238 bits (608), Expect = 7e-61, Method: Compositional matrix adjust. Identities = 123/288 (42%), Positives = 190/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ T+GNALRR+L+SSL G A+ A++IDGVLHE S+I GV ED+T+IIL + Sbjct: 23 FVIEPLERGYGITIGNALRRILLSSLPGVAVNAIKIDGVLHEFSTIPGVKEDVTEIILTL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K ++ + G+ + + I +GP +T DI D+E+L+ D I LD +A + ME+ V Sbjct: 83 KELSATIDGEGSRTLKIEAQGPCSITGADIICSPDVEILSKDLAIATLDDNAKLNMEIFV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYV A+ ++TEN PIG++ +D++Y+P++KVSY VE+ R GQ DYDKL + + T+G Sbjct: 143 DKGRGYVSAEENKTENVPIGVLPVDSIYTPVEKVSYHVENTRVGQKTDYDKLVLEVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI ++ ++LA+++L + L +FI+ E V+ + + L +EEL+LSVRS Sbjct: 203 SINPQEGISLAAKVLVEHLNLFIDLTEHVSSVEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++E DM+++ N G+KSL E+ L +GL L Sbjct: 263 YNCLKRAGINTVEELANKSEDDMMKVRNLGKKSLEEVIQKLEELGLGL 310 >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 = 238 bits (608), Expect = 8e-61, Method: Compositional matrix adjust. Identities = 130/294 (44%), Positives = 190/294 (64%), Gaps = 12/294 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+TAVQIDGVLHE S+I GV ED+T I+LN+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTAVQIDGVLHEFSTIDGVVEDVTQIVLNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I G VTA DI +D+E+LNP+ I L +A +RM LT Sbjct: 83 KKLALKVYSEEEKTLEINVSSAGAVTAADITHDSDVEILNPELHIATLADNATLRMRLTA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYV A+ ++ ++ PIG+I ID++Y+PI++V+Y V+ R GQ +DKL + + TDG Sbjct: 143 RRGRGYVQAEDNKRDDMPIGVIPIDSIYTPIQRVNYEVDKTRVGQDASFDKLLLDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINF------EEPKKEVKEDINVKSLPFNPALLKKVEEL 263 SI E++V+L ++IL + L +F+ E E +ED K L +EEL Sbjct: 203 SIRPEEAVSLGAKILTEHLNIFVGLTDEALNAEIMVEKEEDQKEKVLEMT------IEEL 256 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +LSVRS NCL+ I + +L ++E +M+++ N GRKSL E++ L +GL L Sbjct: 257 DLSVRSYNCLKRAGINTVQELANKSEEEMMKVRNLGRKSLEEVQHKLDELGLGL 310 >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 = 238 bits (608), Expect = 8e-61, Method: Compositional matrix adjust. Identities = 124/297 (41%), Positives = 188/297 (63%), Gaps = 4/297 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +AEP RGF T+GN+LRR+L+SSL G+AIT ++I G HE ++I GV ED+TDI+LN+ Sbjct: 28 FVAEPFERGFGTTIGNSLRRILLSSLEGSAITQIKIRGAQHEFTTIPGVLEDVTDIVLNV 87 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + +K +S + +T+ K G++T D+Q +D+E++N +HV+ L + ME+ V Sbjct: 88 KSLVVKNHSESTRVITVEKNTTGLITGADVQVDSDVEIINKNHVLATLTDNVPFMMEMVV 147 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GY+PA H T + IG+I IDA++SPI +V Y VE R GQ +YD+L++ I T+G Sbjct: 148 ENGRGYIPATEHSTGDHEIGIIPIDAVFSPITRVRYEVEETRVGQKTNYDRLTLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK----VEELEL 265 SI E ++ +++IL+ L F+ + E V S + AL K + EL+L Sbjct: 208 SIHPEMALVESAKILRKHLNPFVQYSELGPRVHAPSRGGSPVVDGALDGKLAMSLAELKL 267 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 SVR+ NCL ENI + DL+Q+TE +L + NFG +L E+K L +G++LGM +P Sbjct: 268 SVRAMNCLESENIHTVRDLVQKTEDQLLEVRNFGETTLNEVKDKLHDLGMYLGMRVP 324 >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 = 238 bits (607), Expect = 9e-61, Method: Compositional matrix adjust. Identities = 125/294 (42%), Positives = 193/294 (65%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +EN EPL RGF T+GN+LRRVL+SSL G A+T++++DGVLHE S+I GV ED+T Sbjct: 15 KENYGKFALEPLERGFGITVGNSLRRVLLSSLPGVAVTSIKVDGVLHEFSTIPGVKEDVT 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 ++IL +K +++KM D + + I G GV+ AGDI D+E+LN D I L DA + Sbjct: 75 ELILTLKELSMKMDSDGARTLKIEHTGEGVIKAGDIICPPDVEILNKDLHIATLSEDAKL 134 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 ME+ V KG GYV A+++++++ PIG+I +D++Y+P+ KVSY E+ R G D+++L + Sbjct: 135 YMEINVDKGRGYVSAENNKSDDMPIGVIPVDSIYTPVHKVSYLTENTRVGTRTDFERLVL 194 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 + TDGSI ++ V+L ++IL + L +FI+ + EV+ + + AL +EEL Sbjct: 195 EVWTDGSIGAQEGVSLGAKILVEHLNLFIDLTDHLGEVELMVEKEEDKKEKALEMTIEEL 254 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +LSVRS NCL+ I + +L ++TE DM+++ N G+KSL E+ L +G L Sbjct: 255 DLSVRSYNCLKRAGINTVEELTEKTEDDMMKVRNLGKKSLEEVIQKLEELGFSL 308 >gi|323126337|gb|ADX23634.1| DNA-directed RNA polymerase subunit alpha [Streptococcus dysgalactiae subsp. equisimilis ATCC 12394] Length = 312 Score = 238 bits (607), Expect = 9e-61, Method: Compositional matrix adjust. Identities = 123/288 (42%), Positives = 191/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+ Sbjct: 21 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNV 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K + + GP VTAGDI T +DIE++NPDH + + +R +TV Sbjct: 81 KGLAVKSYVEDEKILELEVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLRATMTV 140 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 141 AKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 200 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I ED++ L++R+L + L +F + + K + + + L + +E L+LSVRS Sbjct: 201 TIIPEDALGLSARVLIEHLNLFTDLTDVAKATEVMKETEKVNDEKVLDRTIEVLDLSVRS 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + DL +++E +M+++ N GRKSL E+K L +GL L Sbjct: 261 YNCLKRAGINTVFDLTEKSEPEMMKVRNLGRKSLEEVKVKLADLGLGL 308 >gi|5163231|gb|AAD40610.1|AF115283_29 RNA polymerase alpha-subunit [Leptospira interrogans] Length = 325 Score = 238 bits (607), Expect = 9e-61, Method: Compositional matrix adjust. Identities = 130/312 (41%), Positives = 200/312 (64%), Gaps = 4/312 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P IE+ N +AEP RGFA T+GN+LRR LMSS+ GAAI+A++I+GV H Sbjct: 12 RPKKIEFNTEANTP-NYGKFVAEPFERGFATTIGNSLRRTLMSSIEGAAISAIRIEGVNH 70 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMS---GDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 E S I+GV ED+T IILN+K + +K D K + + +G G AGD+ + IE+ Sbjct: 71 EFSFIEGVAEDVTRIILNLKQVRIKYEPEEKDQSKIIHLELKGAGYFRAGDLAVDSSIEI 130 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPD I L+ DA + M+L + +G GYVPA+ + + + +G I +D+++SP++KV + V Sbjct: 131 MNPDLHIATLNEDANLVMDLEIQRGRGYVPAEEKKKDIEVLGTIPVDSIFSPVQKVVFEV 190 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 R Q DY+KL++ + TDGS++ +D+VA A++IL++ L +FINFEE +E ++++ Sbjct: 191 SETRVAQRSDYEKLTLEVWTDGSVSPDDAVAQAAKILKEHLTVFINFEEELEEEDDELDE 250 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 +L K VEELELS RS N LR I ++GDL++R+E +M + ++ + L E+K Sbjct: 251 ADEKLKASLSKHVEELELSARSLNVLRSLEIDFIGDLVKRSEEEMSKSKHYSDQCLQELK 310 Query: 308 GVLGTMGLFLGM 319 L T+GL GM Sbjct: 311 VKLSTLGLSFGM 322 >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 = 238 bits (607), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 128/300 (42%), Positives = 181/300 (60%), Gaps = 13/300 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +AEP G+ +T+GN+LRRVL+SSL GAAIT+V+I G HE ++ V +D+TDI+LN+ Sbjct: 19 FVAEPFEAGYGNTIGNSLRRVLLSSLEGAAITSVKITGAQHEFQTLPHVVDDVTDIVLNL 78 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + K + + +TI G VTAGDI+ + EVLN D +IC LD EL V Sbjct: 79 KKVKFKANDHEIRNLTINVNKEGAVTAGDIEDSSQCEVLNKDQIICTLDKKTKFEAELEV 138 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G G+ ++ + PIG+I ID+++SP+ +V YTV + R GQ DYDKL + I TDG Sbjct: 139 KVGRGFSTGDENKHPDQPIGVIAIDSIFSPVTRVKYTVGNTRVGQRTDYDKLELEIWTDG 198 Query: 210 SITGEDSVALASRILQDQLGMFINFEE--------PKKEVKEDINVKSLPFNPALLKKVE 261 +T E+++ AS IL+ F ++E P+ + +E+ +K L L V Sbjct: 199 RLTPEEALVQASSILKKHFEPFYAYDENAVQFDETPQAQSQENQKMKKL-----LNMSVN 253 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 E+ELSVR+ NCL NI +G L +TEA+ML+ NFG+KSL EIK L +GL LGM Sbjct: 254 EIELSVRAANCLNNANITTVGQLAMKTEAEMLKYRNFGKKSLNEIKDKLTQLGLSLGMKF 313 >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 = 238 bits (607), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 123/288 (42%), Positives = 190/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ T+GNALRR+L+SSL G A+ A++IDGVLHE S+I GV ED+T+IIL + Sbjct: 23 FVIEPLERGYGITIGNALRRILLSSLPGVAVNAIKIDGVLHEFSTIPGVKEDVTEIILTL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K ++ + G+ + + I +GP +T DI D+E+L+ D I LD +A + ME+ V Sbjct: 83 KELSATIDGEGSRTLKIEAQGPCSITGADIICPPDVEILSKDLAIATLDDNAKLNMEIFV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYV A+ ++TEN PIG++ +D++Y+P++KVSY VE+ R GQ DYDKL + + T+G Sbjct: 143 DKGRGYVSAEENKTENVPIGVLPVDSIYTPVEKVSYHVENTRVGQKTDYDKLVLEVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI ++ ++LA+++L + L +FI+ E V+ + + L +EEL+LSVRS Sbjct: 203 SINPQEGISLAAKVLVEHLNLFIDLTEHVSSVEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++E DM+++ N G+KSL E+ L +GL L Sbjct: 263 YNCLKRAGINTVEELANKSEDDMMKVRNLGKKSLEEVIQKLEELGLGL 310 >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 = 238 bits (606), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 129/293 (44%), Positives = 196/293 (66%), Gaps = 5/293 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL G+AI++V+IDGVLHE SSI GV ED+T+II+N+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGSAISSVKIDGVLHEFSSIPGVKEDVTEIIMNL 82 Query: 90 KGINLK-MS-GDSHKRVTIFKRGPGVVTAGDIQTVN-DIEVLNPDHVICNLD--VDAVVR 144 K + ++ MS D K V I G GVVT DI + DIE++NPD VI L D + Sbjct: 83 KSLAIRNMSESDEPKTVYIEFEGEGVVTGADININDPDIEIVNPDQVIATLSGGKDCRLN 142 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MELT++KG GYV + ++TE+ PIG+I ID++Y+P+++V+ TVE+ R GQ+ DYDKL++ Sbjct: 143 MELTITKGRGYVSSDKNKTEDMPIGVIAIDSIYTPVERVNLTVENTRVGQITDYDKLTLD 202 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 + T G++ +++V+LA+++L + L +F++ E + + I + L ++ELE Sbjct: 203 VWTKGTMLPDEAVSLAAKVLSEHLKLFVDLSEVAQVAEVMIEKEDDEKEKVLEMSIDELE 262 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LSVRS NCL+ I + +L +T DM+++ N GRKSL E+ L + L L Sbjct: 263 LSVRSYNCLKRAGINTVEELTNKTPEDMMKVRNLGRKSLEEVLAKLKELNLEL 315 >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 = 238 bits (606), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 131/300 (43%), Positives = 189/300 (63%), Gaps = 20/300 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL G+ T GN+LRR+L+SSL GAA+T++QIDGVLHE S+I GV +D+T I+LNI Sbjct: 23 FVCEPLEPGYGTTFGNSLRRMLLSSLEGAAVTSIQIDGVLHEFSTIPGVRDDVTSIVLNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LKM G + I G VTA DI+ +DIE+LNP+ I L+ +++E+TV Sbjct: 83 KQLCLKMQGSDPHTIRIDVAGEREVTAADIECGSDIEILNPELHIATLNATGKLKIEMTV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYVPA ++ +D IG+I ID+++SP+ +V+YTVE R G V DYD+L + + T+G Sbjct: 143 ERGRGYVPADKNKKPDDSIGVIPIDSIFSPVHRVNYTVEDTRVGNVTDYDRLILDVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEE------------PKKEVKEDINVKSLPFNPALL 257 SI E++V+ A+ IL L +F N + P +EV + V L Sbjct: 203 SIRPEEAVSKAAAILVMHLRLFQNMDGNVVEEEEEVANFPPEEVDDSAKV--------LE 254 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +++L+LSVRS NCL+ I + DL Q+TE DM+++ N GRKSL E+K L +GL L Sbjct: 255 MTIDDLDLSVRSFNCLKRAGINSVADLTQKTEEDMMKVRNLGRKSLDEVKKKLEELGLSL 314 >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 = 238 bits (606), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 128/300 (42%), Positives = 186/300 (62%), Gaps = 10/300 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EP RGF HT+GN+LRR+L+SSL G+A+T ++I+GV HE SSI G+ ED+TD++LN+ Sbjct: 28 FVIEPFERGFGHTVGNSLRRILLSSLEGSAVTRIKIEGVQHEFSSIPGMVEDITDLVLNL 87 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K D K + I + G+VTA DI IEV+NPDH++C L DA + M +TV Sbjct: 88 KGLIVKNHSDQPKTIVIERDREGIVTAADIVHDETIEVVNPDHILCTLSGDARLHMRMTV 147 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GY PA TE+ G I IDA++SP+++V Y VE R GQ ++DKL M I T G Sbjct: 148 ENGRGYRPAAEGHTEDLEPGAIPIDAIFSPVQRVEYRVEETRVGQKTNFDKLIMRIWTTG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEV------KEDINVKSLPFNPALLKKVE-- 261 +I + ++ A++IL+ L F+ + EP + DI P + L +K+ Sbjct: 208 TIRPDMALVEAAKILRKHLNPFVQYFEPGPGLPAEGSGPADIGRGLEPHDAELERKLNMS 267 Query: 262 --ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 ELELSVR+TNCL E I + +L+ R+E +L + NFG +L E++ L +G+ LGM Sbjct: 268 LAELELSVRATNCLESEGITTIRELVSRSEEQLLTVRNFGETTLKEVRSKLNDLGIDLGM 327 >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 = 238 bits (606), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 131/317 (41%), Positives = 197/317 (62%), Gaps = 11/317 (3%) Query: 6 WQELIKPN-NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 E I+P ++E I EN + AEPL RG+ TLGN+LRRVL+SSL GAA+ A+Q Sbjct: 1 MSEFIRPQVSVEEI-----SENLARVSAEPLERGYGDTLGNSLRRVLLSSLEGAAVEAIQ 55 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLK-MSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 IDGV HE ++++GV+ED+TDI+LN+KG+ + M +I GP VT GD + Sbjct: 56 IDGVQHEFTTVEGVYEDVTDIVLNVKGLVFRSMGTGDEATASISIDGPCTVTGGDFKVPA 115 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 + E++N D VIC L A + M++ + G GYV + + DPIG+I +D+LYSP+++ Sbjct: 116 EFELVNEDQVICTLGEGAHLSMQMRIGTGRGYVAGDDNERDGDPIGIIHVDSLYSPVRRC 175 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + VE R GQ +YD+L + ++TDGSIT D+V A+ I+ + F+ + ++ V E Sbjct: 176 AKAVEPCRVGQHTNYDRLVLEVETDGSITPRDAVVDAANIVNQHMSAFMALADEEEPV-E 234 Query: 244 DINVKSLPF---NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 D ++ + N L K++E+L+LSVRS NCL+ I + L++ +E D+L + NFG Sbjct: 235 DASIFATGVEEDNTELDKQIEDLDLSVRSYNCLKRAGIHSVRQLVEFSENDLLNIRNFGV 294 Query: 301 KSLVEIKGVLGTMGLFL 317 KS+ E+K L TMGL L Sbjct: 295 KSIEEVKDKLETMGLGL 311 >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 = 237 bits (605), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 124/292 (42%), Positives = 193/292 (66%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL GAA++ V+I+GVLHE SSI GV ED+++II+N+ Sbjct: 79 FVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIEGVLHEFSSIPGVKEDVSEIIMNL 138 Query: 90 KGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 K + +K + ++ K I G GVVTA DIQ DIE+LN D +I L D+ + M Sbjct: 139 KSLAIKNTSKTNEPKVAYIEYDGEGVVTAADIQVDQDIEILNKDQIIATLSGGPDSKLYM 198 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 E+T++KG GY+ A +T + PIG+I +D++Y+P+++V+ TVE+ R Q D+DKL++ + Sbjct: 199 EITITKGRGYISADEGKTPDMPIGVIAVDSIYTPVERVNMTVENTRVAQATDFDKLTLDV 258 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ +++V+LA+++L + L +FI+ E K + I + L ++ELEL Sbjct: 259 YTNGTLAPDEAVSLAAKVLSEHLSLFIDLSESAKTAEIMIEKEDNEKEKVLEMNIDELEL 318 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 319 SVRSYNCLKRAGINTVEELCNRTPEDMMKVRNLGRKSLEEVLAKLKELGLQL 370 >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 = 237 bits (605), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 133/320 (41%), Positives = 200/320 (62%), Gaps = 8/320 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 EL+ P ++ +G TL EPL RGF +TLG ALRRVL+SS+ GAAIT QIDG Sbjct: 5 ELLTPRIVQIKEIGSNTSRVTL---EPLERGFGYTLGTALRRVLLSSIEGAAITECQIDG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE S+I+GV ED+ D++LN+K I L M + + G +TAGD + +E+ Sbjct: 62 VSHEYSAIEGVKEDVIDVLLNLKNIALLMPDLERAEIRLSVTEKGAITAGDFELPAGVEI 121 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGY--VPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +NPD VI +L D + V KG GY P +E+ ++ +DA +SP+++++Y Sbjct: 122 VNPDCVIAHLTRDIPFSLTAVVEKGRGYRVAPQADDNSESTRSNVLRLDASFSPVRRIAY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE AR Q D DKL + I+++G+I E ++ A+ IL +Q+ +F++ E ++E +E+ Sbjct: 182 RVEQARVEQRTDLDKLIIEIESNGTIDPEQAIRDAATILHNQIKVFVDLESTEEETEEEE 241 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + +P LL+ V++LEL+VRS NCL+ ENI +GDL++RTE ++L+ N G+KSL E Sbjct: 242 EIY---IDPVLLRPVDDLELTVRSANCLKAENINNIGDLVRRTEVELLKTPNLGKKSLNE 298 Query: 306 IKGVLGTMGLFLGMNLPDWP 325 IK VL L LGM++ +WP Sbjct: 299 IKEVLAAHNLELGMDIENWP 318 >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 = 237 bits (605), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 132/294 (44%), Positives = 197/294 (67%), Gaps = 7/294 (2%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + EPL G+ +TLGN+LRRVL+SSL G A+T+V+IDGV HE S+I GV ED+T+IILN Sbjct: 23 MFTLEPLECGYGNTLGNSLRRVLLSSLPGVAVTSVKIDGVQHEFSTIPGVKEDVTEIILN 82 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 IKG+ KM G+ K V I G VTAGDI+T ++IE+L+P I L A + ME+T Sbjct: 83 IKGLIAKMYGECPKTVYIEAEGECDVTAGDIKTDSEIEILDPGMHIATLGPGAKLYMEIT 142 Query: 149 VSKGHGYVPAKHHRTENDP-IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + KG GYV A+ ++ + P IG+I +D++Y+P+ KV+YTVE+ R GQ DYDKL + + T Sbjct: 143 LDKGRGYVSAEKNKQQLQPVIGIIAVDSIYTPVLKVNYTVENTRVGQRTDYDKLILEVWT 202 Query: 208 DGSITGEDSVALASRILQDQLGMFINF--EEPKKEVKEDINVKSLPFNPALLK-KVEELE 264 DG+I+ +++V+ A+++L D L F+ E + E+ D KS LL+ +++L+ Sbjct: 203 DGTISAKEAVSYAAKLLVDHLQPFVELSDEAIQPELMAD---KSESGKDKLLEMTIDDLD 259 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 LSVRS NCL+ NI + DLI +++ DM+++ N G+KS E++ L ++G L Sbjct: 260 LSVRSFNCLKRANINTVDDLINKSQGDMMKVRNLGKKSFEEVRAKLQSLGFDLA 313 >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 = 237 bits (605), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 124/291 (42%), Positives = 192/291 (65%), Gaps = 2/291 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+TA++++G HE S+++GV ED+T+IILN+ Sbjct: 23 FVVEPLDRGYGVTLGNSLRRVLLSSLPGAAVTAIRVEGAFHEFSTVEGVIEDMTEIILNV 82 Query: 90 KGINLKMSGDSHKRVTI-FKRG-PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K I +K++ D K + + + G GVVTAGDI T +++++NP+ I L+ DA + MEL Sbjct: 83 KCIRVKLNADGPKTIYLNTEEGRTGVVTAGDIVTDEEVQIMNPEQPIATLNGDARLFMEL 142 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 TV G GY A+ ++ N PIG+I +D++++P+KKV+Y+VE+ R GQ D+DKL++ + T Sbjct: 143 TVCSGIGYNSAERNKWPNQPIGVIPVDSIFTPVKKVNYSVENTRVGQFTDFDKLTLEVWT 202 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 D +I + +V+ A+ IL D L F++ + S N L +E++ SV Sbjct: 203 DRTIAADTAVSNAANILMDHLQYFVDLQGGPTGTGTRSYDGSGESNELLETAIEDMNFSV 262 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 R+ NCL+ I +GDL+ R+E DM+++ N G+KSL E+ +L MGL L Sbjct: 263 RTYNCLKRAGINVIGDLVIRSEDDMMKVRNLGKKSLEEVIQILDEMGLSLA 313 >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 = 237 bits (605), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 127/298 (42%), Positives = 190/298 (63%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT+++ GV HE S+IKGV ED+T+IILN+K I Sbjct: 28 PLEPGFGVTIGNALRRILLSSLEGYAITSIRFSGVSHEFSTIKGVVEDVTEIILNLKQIR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQTV-NDIEVLNPDHVICNLDVDAVVRMELTVS 150 K +G+ +++ + G AGDI N+ VLNPD V+CN+D + +EL+V+ Sbjct: 88 FKKTGEQGDSEKIFVVINGQEQFLAGDITKFSNNFTVLNPDFVVCNMDSSVTIEVELSVA 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYV A+ ++ + P+GLI ID++++PIK V YT+E+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVNAEENKVTDGPVGLIAIDSIFTPIKNVKYTIENYRVEQKTDYEKLLLDITTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ED++ A++IL +F + E KE + ++ + L L ++ +L+LS Sbjct: 208 IHPEDALKEAAKILIQHFMLFSDENMLLESQTKEETKVVDEEILHMRKILKTELVDLDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ +I + +L+ ADML+ NFG+KSL EI+ ++ + GL GMNL + Sbjct: 268 VRALNCLKAADIRTLAELVTYDVADMLKFRNFGKKSLSEIQELVKSKGLSFGMNLSKF 325 >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 = 237 bits (605), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 140/319 (43%), Positives = 206/319 (64%), Gaps = 14/319 (4%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + ++ + T +I EPL RG+ TLGNALRR+L+SSL GAA+T V+I+ Sbjct: 3 EIEKPR-IERVDSNEDNTHGTFVI-EPLERGYGITLGNALRRILLSSLPGAAVTNVKIEN 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK----- 242 E+ R GQ DYDKL+M + TDGSI +++++L ++IL LG+F+N E EV+ Sbjct: 181 ENTRVGQHTDYDKLTMDVWTDGSIRPDEAISLGAKILSKHLGLFVNLTEKVDEVEILDEK 240 Query: 243 -EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ED K + +EEL+LSVRS NCL+ I + +L+ ++E +M+++ N G+K Sbjct: 241 DEDDKTKVMEMT------IEELDLSVRSYNCLKRAGINTVQELVNKSEDEMMKVRNLGKK 294 Query: 302 SLVEIKGVLGTMGLFLGMN 320 SL E++ L + L L N Sbjct: 295 SLEEVQHKLEELQLNLRDN 313 >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 = 237 bits (604), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 125/288 (43%), Positives = 190/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+GVLHE S+I V ED++ II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEGVLHEFSAIDNVVEDVSTIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I + G VTA DI +D+E+LNP+ I + +++ L Sbjct: 83 KELALKIYSEEDKTLEIDVKDEGEVTAADITHDSDVEILNPELKIATVSKGGHLKIRLVA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GY A+ + T + PIG+I +D+LYSP+++V+YTVE+ R GQ D+DKL++ + TDG Sbjct: 143 NKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTVENTRVGQSSDFDKLTLDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SIT ++SV+LA++IL + L +F+ + K + I + L +EEL+LSVRS Sbjct: 203 SITPQESVSLAAKILTEHLNIFVGLTDEAKNAEIMIEKEEDQKEKVLEMSIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++EADM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINTVQELADKSEADMMKVRNLGRKSLEEVKYKLEDLGLGL 310 >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 = 237 bits (604), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 128/328 (39%), Positives = 199/328 (60%), Gaps = 12/328 (3%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 W+ L PN + +I N +AEP RGF T+GN+LRR+L+SSL G+++T V+I Sbjct: 5 WRGLELPNRL-FIDRETATPNYGKFVAEPFERGFGSTIGNSLRRILLSSLEGSSVTRVKI 63 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 G HE ++I GV ED+TDI LN+K + +K K + I K GVVT D+ + + Sbjct: 64 QGAQHEFTTIPGVVEDVTDICLNLKSLIVKSYAAGPKTIRIEKHTRGVVTGADVIADDQV 123 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EV+N D VI + D + +ELTV G GY+PA H + +G+I +DALYSP+++V++ Sbjct: 124 EVINKDMVIATMTDDVPLSLELTVENGRGYIPASEHFDRDPEVGVIPLDALYSPVERVNF 183 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE R GQ +YDKL + I T+G+++ E ++ +++I++ L FI + EP EV D Sbjct: 184 QVEETRVGQRTNYDKLILEIWTNGTVSPEMALVESAKIMRKHLNPFITYREPGPEVSPDG 243 Query: 246 NVKSL-------PFNPALLKKVE----ELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 ++ + P + L +K+ EL LSVR+TNCL E IV + DL+ ++E +L+ Sbjct: 244 GLQGMAEATGHSPIDLELEEKLNQSLAELNLSVRATNCLESEGIVTVRDLVSKSEDQLLQ 303 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLP 322 + NFG +L E++ L ++GL +GM +P Sbjct: 304 VRNFGETTLQEVRERLSSIGLRMGMKMP 331 >gi|58416042|emb|CAH57435.1| RNA polymerase alpha-subunit [Vibrio sp. R-21432] Length = 287 Score = 237 bits (604), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 121/267 (45%), Positives = 184/267 (68%), Gaps = 8/267 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 22 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 81 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 82 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 141 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 142 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMET 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 202 NGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 258 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLR 294 RS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 259 RSANCLKAEAIHYIGDLVQRTEVELLK 285 >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 = 237 bits (604), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 125/294 (42%), Positives = 200/294 (68%), Gaps = 3/294 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL G A+++++I+GVLHE SSI GV ED+T+I++NI Sbjct: 27 FVVEPLERGYGLTLGNSLRRIMLSSLVGTAVSSIKIEGVLHEFSSIPGVKEDVTEIVMNI 86 Query: 90 KGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVVRME 146 K +++K +G+S K I G GVV A DIQ DIE++NPD VI +L+ D+ + ME Sbjct: 87 KQLSIKNNGNSVEPKEAHIDFVGEGVVRASDIQVDPDIEIINPDLVIAHLNGADSKLTME 146 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LT++ G GYV ++ ++ ++ P G+I ID++Y+P+++V+ V++ R GQ D+DKL++ I Sbjct: 147 LTITNGRGYVSSEKNKRDDQPAGVIAIDSIYTPVERVNMAVQNTRVGQDTDFDKLTLDIF 206 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+G+I +++++LA+++L + L FIN E ++V+ + + L +E+LELS Sbjct: 207 TNGTIEPDEALSLAAKVLSEHLKGFINLSENAQKVEIMVEQEEDETTKVLSMSIEDLELS 266 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 VRS+NCLR I + +L +T DM+++ N G+KSL E+ L MGL L N Sbjct: 267 VRSSNCLRRAGINTVEELCNKTSDDMMKVRNLGKKSLDEVLLKLKEMGLHLRPN 320 >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 = 237 bits (604), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 127/284 (44%), Positives = 181/284 (63%), Gaps = 12/284 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA ++ I+GV HE +IKGV ED+T+II+N+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRMLISSLPGAAARSIDIEGVQHEFQAIKGVVEDVTEIIMNV 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I + + K+V+I +GP VVTA DI +DIEV+N D I + M + V Sbjct: 83 KNIAFVVHSEEEKQVSISVKGPAVVTAADIAIDSDIEVVNTDQHIATVSEGGQFEMIIYV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG G+VPA ++ + PIG+I ID++Y+P+ KV+YTVE R GQ D+DKL + + T+G Sbjct: 143 GKGRGFVPADGNKKRDLPIGVIPIDSIYTPVSKVNYTVEKTRVGQSTDFDKLILDVTTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEV------KEDINVKSLPFNPALLKKVEEL 263 SIT D++ALAS+IL L +F+ E K +ED V+ L +EEL Sbjct: 203 SITANDALALASKILISHLELFMEMSEEAKAAEILVAKEEDNKVQMLEMT------IEEL 256 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 +LSVRS NCL+ I + +L +TE +M+++ N GRKSL E+K Sbjct: 257 DLSVRSYNCLKRAGINTVQELASKTEQEMIKVRNLGRKSLEEVK 300 >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 = 237 bits (604), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 133/312 (42%), Positives = 193/312 (61%), Gaps = 10/312 (3%) Query: 8 ELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E KPN NIE E+ + + EPL RG+ TLGN+LRR+L+SSL GAA+ VQI Sbjct: 3 EFEKPNIHNIE------EDAHYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGV+HE S++ GV ED+T IILN+K + L + D + + I +GP VTA D+Q D+ Sbjct: 57 DGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDERSLEIDVQGPADVTAADLQAGADV 116 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKV 183 EVLNPD I + + M +T KG GY A ++ D PIG++ +D++Y+PI++V Sbjct: 117 EVLNPDLHIATVAAGKSLHMTVTAVKGRGYSSADENKQLRDEMPIGVLAVDSIYTPIERV 176 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+ R G DYDKL+ I T+GSI D+++L S+IL + L +F++ E Sbjct: 177 NYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDALSLGSKILAEHLNLFMDISPVAAEANV 236 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + + + + +E+L+LSVRS NCL+ I + +L RTEADM+++ N GRKSL Sbjct: 237 MVEAEPVAASASDSAPIEDLDLSVRSYNCLKRAGINTIVELTDRTEADMMKVRNLGRKSL 296 Query: 304 VEIKGVLGTMGL 315 EI+ L MGL Sbjct: 297 DEIQEKLTEMGL 308 >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 = 237 bits (604), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 127/284 (44%), Positives = 181/284 (63%), Gaps = 12/284 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA ++ I+GV HE +IKGV ED+T+II+N+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRMLISSLPGAAARSIDIEGVQHEFQAIKGVVEDVTEIIMNV 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I + + K+V+I +GP VVTA DI +DIEV+N D I + M + V Sbjct: 83 KNIAFVVHSEEEKQVSISVKGPAVVTAADIAIDSDIEVVNTDQHIATVSEGGQFEMIIYV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG G+VPA ++ + PIG+I ID++Y+P+ KV+YTVE R GQ D+DKL + + T+G Sbjct: 143 GKGRGFVPADGNKKRDLPIGVIPIDSIYTPVSKVNYTVEKTRVGQSTDFDKLILDVTTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEV------KEDINVKSLPFNPALLKKVEEL 263 SIT D++ALAS+IL L +F+ E K +ED V+ L +EEL Sbjct: 203 SITANDALALASKILISHLELFMEMSEEAKAAEILVAKEEDNKVQMLEMT------IEEL 256 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 +LSVRS NCL+ I + +L +TE +M+++ N GRKSL E+K Sbjct: 257 DLSVRSYNCLKRAGINTVQELANKTEQEMIKVRNLGRKSLEEVK 300 >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 = 236 bits (603), Expect = 3e-60, Method: Compositional matrix adjust. Identities = 121/288 (42%), Positives = 192/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ T+GNALRR+L+SSL G A+ +++IDGVLHE S+I GV ED+T+IIL++ Sbjct: 23 FVVEPLERGYGITIGNALRRILLSSLPGVAVNSIKIDGVLHEFSTIPGVKEDVTEIILSL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K ++ + G+ + + I +GP + DI D+E+L+ D I LD +A + ME+ V Sbjct: 83 KELSATIDGEGSRTLKIEAQGPCSIKGSDIICPPDVEILSKDLHIATLDDNAKLNMEIYV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYVPA+ ++T+N PIG++ +D++Y+P++KVSY VE+ R GQ DYDKL++ + T+G Sbjct: 143 DKGRGYVPAEENKTDNMPIGVLPVDSIYTPVEKVSYHVENTRVGQKSDYDKLTLEVMTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI ++ ++LA+++L + L +FI+ E V+ + + L +EEL+LSVRS Sbjct: 203 SINPQEGISLAAKVLVEHLNLFIDLTEHVSNVEIMVEKEEDQKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++E DM+++ N G+KSL E+ L +GL L Sbjct: 263 YNCLKRAGINTVEELANKSEDDMMKVRNLGKKSLEEVIQKLEELGLGL 310 >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 = 236 bits (603), Expect = 3e-60, Method: Compositional matrix adjust. Identities = 128/298 (42%), Positives = 191/298 (64%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT+V+ GV HE S+I GV ED+T+IILN+K + Sbjct: 28 PLEPGFGVTIGNALRRILLSSLEGYAITSVRFSGVSHEFSTITGVVEDVTEIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K +G+S +++ + G AGDI + N+ VLNPD VICN++ + +ELTV+ Sbjct: 88 FKKTGESGDSEKIFVVINGQDQFKAGDITSHSNNFTVLNPDLVICNMESSVTLEVELTVN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYV A+ ++ + +G+I ID++Y+PIK V YT+E+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVNAEENKVADAAVGVIAIDSIYTPIKNVKYTIENFRVEQKTDYEKLLLDISTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ED++ A++IL +F I E KE ++++ + L L ++ +L+LS Sbjct: 208 IHPEDALKEAAKILIHHFMLFSDENILLESQTKEETKEVDEEILHMRKILKTELVDLDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ +I + +L+ ADML+ NFG+KSL EI+ ++ + GL GMNL + Sbjct: 268 VRALNCLKAADIRSLAELVSYDVADMLKFRNFGKKSLTEIQELVKSKGLSFGMNLSKY 325 >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 = 236 bits (603), Expect = 3e-60, Method: Compositional matrix adjust. Identities = 131/312 (41%), Positives = 193/312 (61%), Gaps = 10/312 (3%) Query: 8 ELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E KPN NIE E++ + EPL RG+ TLGN+LRR+L+SSL GAA+ VQI Sbjct: 3 EFEKPNIHNIE------EDDRYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGV+HE S++ GV ED+T IILN+K + L + D + + I +GP VTA D+Q D+ Sbjct: 57 DGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDERSLEIDVQGPADVTAADLQAGADV 116 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKV 183 E+LNPD + + + M +T KG GY A ++ D PIG++ +D++Y+PI++V Sbjct: 117 EILNPDLHLATVAAGKSLHMTVTAVKGRGYSSADENKQLRDEMPIGVLAVDSIYTPIERV 176 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+ R G DYDKL+ I T+GSI D+++L S+IL + L +F++ E Sbjct: 177 NYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDALSLGSKILAEHLNLFMDISPVAAEASV 236 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + + N + +E+L+LSVRS NCL+ I + +L RTEADM+++ N GRKSL Sbjct: 237 MVEAEPVATNASDSAPIEDLDLSVRSYNCLKRAGINTIVELTDRTEADMMKVRNLGRKSL 296 Query: 304 VEIKGVLGTMGL 315 EI+ L MG+ Sbjct: 297 DEIQEKLTEMGI 308 >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 = 236 bits (603), Expect = 3e-60, Method: Compositional matrix adjust. Identities = 126/298 (42%), Positives = 190/298 (63%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT+++ GV HE S+IKGV ED+T+IILN+K + Sbjct: 28 PLEPGFGVTIGNALRRILLSSLEGYAITSIRFSGVSHEFSTIKGVVEDVTEIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQTV-NDIEVLNPDHVICNLDVDAVVRMELTVS 150 K +G+ +++ + G AGDI N+ VLNPD V+CN+D + +EL+V+ Sbjct: 88 FKKTGEQGDSEKIFVVINGQEQFLAGDITKFSNNFTVLNPDFVVCNMDSSVTIEVELSVA 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYV A+ ++ + P+GLI ID++++PIK V YT+E+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVNAEENKVTDGPVGLIAIDSIFTPIKNVKYTIENYRVEQKTDYEKLLLDITTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ED++ A++IL +F + E KE + ++ + L L ++ +L+LS Sbjct: 208 IHPEDALKEAAKILIQHFMLFSDENMLLESQTKEETKVVDEEILHMRKILKTELVDLDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ +I + +L+ ADML+ NFG+KSL EI+ ++ + GL GMNL + Sbjct: 268 VRALNCLKAADIRTLAELVTYDVADMLKFRNFGKKSLSEIQELVKSKGLSFGMNLSKF 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 = 236 bits (602), Expect = 3e-60, Method: Compositional matrix adjust. Identities = 132/288 (45%), Positives = 190/288 (65%), Gaps = 6/288 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E EN +AEPL RG+ TLGN+LRRVL+SSL GAAI +VQIDGVLHE ++I GV ED Sbjct: 13 EESENYGKFVAEPLERGYGTTLGNSLRRVLLSSLPGAAINSVQIDGVLHEFTTIDGVTED 72 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILN+K + +++ D K + + G G +TAGDI++ D+E+LNPD I + Sbjct: 73 VTQIILNLKKVAMRIDSDEQKTLEVDFSGAGELTAGDIKSDGDVEILNPDLHIATVSAGK 132 Query: 142 VVRMELTVSKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + M LT +G GY A+ ++ + + IG++ ID++Y+PI KV+YTVE R G DYDK Sbjct: 133 SLHMALTAVRGRGYDSAEENKAKMELGIGVLAIDSIYTPISKVNYTVEKTRVGHRDDYDK 192 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP-KKEVKEDIN-VKSLPFNPALLK 258 L++ + TDGS++ +S++L S+IL + L +FI+ KKE+ D + V+++ N + Sbjct: 193 LTLEVWTDGSVSPSESLSLGSKILSEHLALFIDLSNAGKKEMMLDPDAVETVMENK---E 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 +EELELSVRS NCL+ I + DL +T DM + N GRKSL EI Sbjct: 250 PIEELELSVRSFNCLKRAGINTIEDLTDKTLHDMGEVRNLGRKSLEEI 297 >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 = 236 bits (602), Expect = 4e-60, Method: Compositional matrix adjust. Identities = 131/294 (44%), Positives = 197/294 (67%), Gaps = 7/294 (2%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + EPL G+ +TLGN+LRRVL+SSL G A+T+V+IDGV HE S+I GV ED+T+IILN Sbjct: 23 MFTLEPLECGYGNTLGNSLRRVLLSSLPGVAVTSVKIDGVQHEFSTIPGVKEDVTEIILN 82 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 IKG+ KM G+ + V I G VTAGDI+T ++IE+L+P I L A + ME+T Sbjct: 83 IKGLIAKMYGECPQTVYIEAEGECDVTAGDIKTDSEIEILDPGMHIATLGPGAKLYMEIT 142 Query: 149 VSKGHGYVPAKHHRTENDP-IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + KG GYV A+ ++ + P IG+I +D++Y+P+ KV+YTVE+ R GQ DYDKL + + T Sbjct: 143 LDKGRGYVSAEKNKQQLQPVIGIIAVDSIYTPVLKVNYTVENTRVGQRTDYDKLILEVWT 202 Query: 208 DGSITGEDSVALASRILQDQLGMFINF--EEPKKEVKEDINVKSLPFNPALLK-KVEELE 264 DG+I+ +++V+ A+++L D L F+ E + E+ D KS LL+ +++L+ Sbjct: 203 DGTISAKEAVSYAAKLLVDHLQPFVELSDEAIQPELMAD---KSESGKDKLLEMTIDDLD 259 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 LSVRS NCL+ NI + DLI +++ DM+++ N G+KS E++ L ++G L Sbjct: 260 LSVRSFNCLKRANINTVDDLINKSQGDMMKVRNLGKKSFEEVRAKLQSLGFDLA 313 >gi|291334082|gb|ADD93755.1| DNA directed RNA polymerase alpha subunit [uncultured marine bacterium MedDCM-OCT-S05-C114] Length = 332 Score = 236 bits (602), Expect = 4e-60, Method: Compositional matrix adjust. Identities = 129/299 (43%), Positives = 182/299 (60%), Gaps = 11/299 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 IA+P G+ HT+GNA RRVL+SS+ GAAI+++++DGV HE SI GV ED+TDI+LN+ Sbjct: 28 FIADPFESGYGHTIGNAFRRVLLSSIEGAAISSLKLDGVQHEFQSIDGVVEDVTDIVLNL 87 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + + +TI G VTAGDI IE++NP+ +I D V E+ V Sbjct: 88 KKVLVISHKADPVTLTIDVEKDGEVTAGDISPAEGIEIINPEQIILTTDRKLQVTGEMIV 147 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + G G+ + +++ PIG+I +DALYSP+K V Y V++ R GQ+ DYDKL + + TDG Sbjct: 148 TVGRGFCLGEDSKSDEQPIGMINVDALYSPVKLVKYEVQNTRVGQMTDYDKLLLEVTTDG 207 Query: 210 SITGEDSVALASRILQDQLGMF-------INFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 IT +D++ ++ IL+ L +F I FE KEV E+ N L V E Sbjct: 208 RITPDDALKQSAAILRHHLDVFDQISEEQIEFESHTKEVSEEQN----RLRNLLSMSVNE 263 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +ELSVR+ NCL NI +G+L ++E +ML+ NFG+KSL EIK L +GL LGM Sbjct: 264 IELSVRAANCLNNANITTVGELATKSEPEMLKYRNFGKKSLNEIKAKLEQLGLSLGMKF 322 >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 = 236 bits (602), Expect = 4e-60, Method: Compositional matrix adjust. Identities = 125/288 (43%), Positives = 190/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+GVLHE S+I V ED++ II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEGVLHEFSAIDNVVEDVSTIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I R G VTA DI +D+EVLNP+ I + +++ L Sbjct: 83 KKLALKIYSEEDKTLEIDVRDEGEVTASDITHDSDVEVLNPELKIATVSKGGHLKIRLVA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GY A+ + T + PIG+I +D+LYSP+++V+YTVE+ R GQ D+DKL++ + T+G Sbjct: 143 NKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTVENTRVGQSSDFDKLTLDVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SIT ++SV+LA++IL + L +F+ + + + I + L +EEL+LSVRS Sbjct: 203 SITPQESVSLAAKILTEHLNIFVGLTDEAQNAEIMIEKEEDQKEKVLEMSIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++EADM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVKYKLEDLGLGL 310 >gi|291166852|gb|EFE28898.1| DNA-directed RNA polymerase, alpha subunit [Filifactor alocis ATCC 35896] Length = 315 Score = 236 bits (602), Expect = 4e-60, Method: Compositional matrix adjust. Identities = 123/287 (42%), Positives = 193/287 (67%), Gaps = 2/287 (0%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF T+GN+LRRVL+SSL G A+ +++I+GVLHE S+I GV ED+T+I+L +K + Sbjct: 24 EPLERGFGITVGNSLRRVLLSSLPGVAVNSIKIEGVLHEFSTIPGVKEDVTEIMLTLKEL 83 Query: 93 NLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + M+ + ++ T+ + G G++TAGDI D+EVLNPD I D + ME+ VS Sbjct: 84 AMVMNSEESRQRTLIIEQEGEGIITAGDIICPPDVEVLNPDLHIMTCSKDTKLYMEINVS 143 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYV ++ ++TE+ PIG+I +D++Y+P+KKV+YT+E R G + +KL+ I T+GS Sbjct: 144 KGRGYVSSEDNKTEDMPIGVIPMDSIYTPVKKVNYTIEPTRVGARSNLEKLTFEIWTNGS 203 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 +++V+L S+IL + L +F+N + E++ + + AL +EEL+LSVRS Sbjct: 204 FEVQEAVSLGSKILIEHLNLFLNLSDKLSEIELMVEKEEGKKEKALEMTIEELDLSVRSY 263 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ +I + +L ++TE DM+++ N G+KSL E+ G L +G L Sbjct: 264 NCLKRASINTVEELTKKTEDDMMKVRNLGKKSLEEVVGKLHDLGFTL 310 >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 = 236 bits (601), Expect = 4e-60, Method: Compositional matrix adjust. Identities = 132/323 (40%), Positives = 199/323 (61%), Gaps = 20/323 (6%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++I+G LHE +++ GV ED+T+ Sbjct: 16 EQRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIEGTLHEFTTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+KG L +S DS + VT++ K+GPG VTA DI +EV NP+ I L+ Sbjct: 76 IILNLKG--LVVSSDSDEPVTMYLRKQGPGEVTAADIAPPAGVEVHNPELHIATLNGKGR 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+D+L Sbjct: 134 LEIELVVERGRGYVPAPQNKQPGQEIGRIPVDSIYSPVLKVTYAVEATRVEQRTDFDRLV 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNP 254 + ++T SI D++A A L + G+ +N + P DI S+P Sbjct: 194 VDVETKPSIAPRDAIASAGSTLVELFGLLRELNIDAEGIEVGPSPAEAADIANFSMP--- 250 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +E+++L+VRS NCL+ E + +G+L+ R+EAD+L + NFG KS+ E+K L MG Sbjct: 251 -----IEDMDLTVRSYNCLKREGVHTVGELVTRSEADLLDIRNFGAKSIDEVKMKLAAMG 305 Query: 315 LFLGMNLPDWPPESIEELAKKYE 337 L L + P + P S+E + YE Sbjct: 306 LALKDSPPGFIPTSVESYDEGYE 328 >gi|291544484|emb|CBL17593.1| DNA-directed RNA polymerase subunit alpha [Ruminococcus sp. 18P13] Length = 318 Score = 236 bits (601), Expect = 5e-60, Method: Compositional matrix adjust. Identities = 128/291 (43%), Positives = 195/291 (67%), Gaps = 4/291 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + PL RG+ TLGN+LRRVL+SSL G A+ +V+IDGV HE+S+I GV ED+T+IIL+I Sbjct: 24 FVLAPLERGYGITLGNSLRRVLLSSLPGVAVNSVKIDGVHHELSTIPGVKEDVTEIILSI 83 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ K+ GD K V I G VTAGDI+T +++ +L+P I L DA + ME+T+ Sbjct: 84 KGLTAKLYGDGPKTVYIEATGECEVTAGDIKTDSEVNILDPGMHIATLGKDASLYMEITL 143 Query: 150 SKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GYV A+ ++ N PI +I +D++Y+P+ KV+YTVE R GQV DYDKL+M + T Sbjct: 144 DKGRGYVSAERNKQLMPNLPIDVIAVDSIYTPVLKVNYTVEDTRLGQVTDYDKLTMEVWT 203 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK-KVEELELS 266 DG+I+ +++++ A+ +L + L +F++ E + + E + K +L+ +EEL+LS Sbjct: 204 DGTISAKEALSQAANLLNEHLKLFVDLSE-EASIAEVLVEKDDKGKEKILEMTIEELDLS 262 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 VRS NCL+ I + DLI ++E +M+++ N G+KS E+K L ++G L Sbjct: 263 VRSFNCLKRAGINTVDDLINKSEEEMMKVRNLGKKSFDEVKEKLQSLGFDL 313 >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 = 236 bits (601), Expect = 5e-60, Method: Compositional matrix adjust. Identities = 120/288 (41%), Positives = 194/288 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGNALRR+L+SSL G A ++ID VLHE S+++GV ED+T++ILNI Sbjct: 23 FVIEPLERGYGITLGNALRRILLSSLPGVAADHIKIDSVLHEFSTVQGVKEDVTELILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L M+G+ K + I + GP VTA DI+T D+EV+N D I LD + + ME+ V Sbjct: 83 KCLALTMNGEGPKTIYIDEVGPKEVTAADIKTDGDVEVINKDLHIATLDENGKMYMEINV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 ++G GYV ++T++ PIG I +D++Y+P+K+V+++VE+ R GQ+ DYDKL++ + T+G Sbjct: 143 NRGRGYVTQNKNKTKDMPIGSIAVDSIYTPVKRVNFSVENTRVGQITDYDKLTIEVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +I E++V+L+++IL + +F+ + +++ + + L +EEL+LSVRS Sbjct: 203 TIRPEEAVSLSAKILIEHFKLFMTLTDHADDMEIMVEKEEDKKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +R+ DM+++ N G+KSL E++ L +GL L Sbjct: 263 YNCLKRAGINTVQELCERSMDDMMKVRNLGKKSLEEVEQKLEALGLGL 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 = 235 bits (600), Expect = 6e-60, Method: Compositional matrix adjust. Identities = 130/293 (44%), Positives = 194/293 (66%), Gaps = 7/293 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL G A+T V+I GVLHE SSI GV ED+T+I++NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRIMLSSLPGTAVTHVKIKGVLHEFSSIPGVKEDVTEIVMNI 82 Query: 90 KGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVVRME 146 K + +K + + K+ I G VV A DI DIE++NPD VI NL DA + ME Sbjct: 83 KSLVIKNNSLTNEPKQAYIDVAGDCVVRASDIHVDGDIEIINPDLVIANLSGPDARLEME 142 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LT+ G GYV + ++ + PI +I ID++Y+P+++V+ TV++ R GQV DYDKL++ + Sbjct: 143 LTIGNGRGYVGSDKNKEADAPIDVIAIDSIYTPVERVNLTVQNTRVGQVTDYDKLTLDVF 202 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP--FNPALLKKVEELE 264 T+G+I +++V+LA+R+L + L +F++ E K V D+ V+S+ L ++ELE Sbjct: 203 TNGAIAPDEAVSLAARVLVEHLNLFVDLSENAKSV--DVMVESVTDEKEKVLEMNIDELE 260 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LSVRS NCL+ I + +LI +T DM+++ N GRKSL E+ L +GL L Sbjct: 261 LSVRSYNCLKRAGINTVEELINKTPEDMMKVRNLGRKSLDEVLAKLKELGLSL 313 >gi|37912970|gb|AAR05302.1| DNA-directed RNA polymerase alpha subunit [uncultured marine gamma proteobacterium EB000-45B06] Length = 283 Score = 235 bits (600), Expect = 6e-60, Method: Compositional matrix adjust. Identities = 126/286 (44%), Positives = 190/286 (66%), Gaps = 7/286 (2%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 +GNALRR+L+SS+ GAA+T V IDG+ HE S+I+GV ED+ DI+LNIK + + + + Sbjct: 1 MGNALRRILLSSMPGAAVTDVAIDGISHEYSTIEGVREDVIDILLNIKDMPVNIIEGNTA 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV-VRMELTVSKGHGYVPAKHH 161 +T+ GP V A ++E++N D + + VD V ++M LTV G GY PA Sbjct: 61 EITLDVTGPCDVLASSFDVPGNVELVNQDFHVATI-VDKVNLKMTLTVQTGRGYEPADTR 119 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 E+ +G + +DA YSP+++VSYTV++AR + D DKL + ++TDG++ + ++ ++ Sbjct: 120 DDEDRVVGALKVDASYSPVRRVSYTVDNARFEKRTDLDKLVIELETDGTLDPKMAIEHSA 179 Query: 222 RILQDQLGMFINFEE-PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVY 280 ILQ QL F++ + ++E K+D N F+P LL+ +EELEL+VRSTNCL+ E+I Sbjct: 180 TILQQQLSSFVDLDAIAEQEAKKDQN----DFDPFLLRSIEELELTVRSTNCLKAESIFL 235 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 +GDLI R+E D+L+ N G+KSL EIK VL + L LGMN+ +WPP Sbjct: 236 IGDLIHRSEFDLLKTPNLGKKSLNEIKDVLASKELSLGMNVDNWPP 281 >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 = 235 bits (600), Expect = 7e-60, Method: Compositional matrix adjust. Identities = 124/288 (43%), Positives = 190/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+GVLHE S+I V ED++ II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEGVLHEFSAIDNVVEDVSTIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I R G VTA DI +D+EVLNP+ I + +++ L Sbjct: 83 KKLALKIYSEEDKTLEIDVRDEGEVTASDITHDSDVEVLNPELKIATVSKGGHLKIRLVA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GY A+ + T + PIG+I +D+LYSP+++V+YTVE+ R GQ D+DKL++ + T+G Sbjct: 143 NKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTVENTRVGQSSDFDKLTLDVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SIT ++SV+LA++I+ + L +F+ + + + I + L +EEL+LSVRS Sbjct: 203 SITPQESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEKEEDQKEKVLEMSIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++EADM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVKYKLEDLGLGL 310 >gi|326692212|ref|ZP_08229217.1| DNA-directed RNA polymerase subunit alpha [Leuconostoc argentinum KCTC 3773] Length = 314 Score = 235 bits (600), Expect = 7e-60, Method: Compositional matrix adjust. Identities = 132/312 (42%), Positives = 192/312 (61%), Gaps = 10/312 (3%) Query: 8 ELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E KPN NIE E+ + EPL RG+ TLGN+LRR+L+SSL GAA+ VQI Sbjct: 3 EFEKPNIHNIE------EDARYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGV+HE S++ GV ED+T IILN+K + L + D + + I +GP VTA D+Q D+ Sbjct: 57 DGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDERSLEIDVQGPAEVTAADLQAGADV 116 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKV 183 EVLNPD I + + M +T KG GY A ++ E PIG++ +D++Y+PI++V Sbjct: 117 EVLNPDLHIATVAAGKSLHMTVTAVKGRGYSSADENKQLREEMPIGVLAVDSIYTPIERV 176 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+ R G DYDKL+ I T+GSI D+++L ++IL + L +F++ E Sbjct: 177 NYHVENTRVGARDDYDKLTFDIWTNGSIKPSDALSLGAKILAEHLNLFMDISPVAAEANV 236 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + + + + +E+L+LSVRS NCL+ I + +L RTEADM+++ N GRKSL Sbjct: 237 MVEAEPVAVSASDSAPIEDLDLSVRSYNCLKRAGINTIVELTDRTEADMMKVRNLGRKSL 296 Query: 304 VEIKGVLGTMGL 315 EI+ L MGL Sbjct: 297 DEIQEKLTEMGL 308 >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 = 235 bits (599), Expect = 8e-60, Method: Compositional matrix adjust. Identities = 122/288 (42%), Positives = 190/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+GVLHE S++ V ED++ II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLSGAAVKYIEIEGVLHEFSAVDNVVEDVSTIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I R G VTA DI +D+E+LNP+ I + +++ L Sbjct: 83 KQLALKIYSEEDKTLEIDVRDEGEVTASDITHDSDVEILNPELKIATVSKGGHLKIRLVA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GY A+ + T + PIG+I +D+LYSP+++V+YTVE+ R GQ D+DKL++ + T+G Sbjct: 143 NKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTVENTRVGQSSDFDKLTLDVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SIT ++SV+LA++I+ + L +F+ + + + I + L +EEL+LSVRS Sbjct: 203 SITPQESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEKEEDQKEKVLEMSIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++EADM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVKYKLEDLGLGL 310 >gi|260656838|gb|ACX47809.1| RNA polymerase alpha-subunit [Vibrio casei] Length = 275 Score = 235 bits (599), Expect = 8e-60, Method: Compositional matrix adjust. Identities = 123/270 (45%), Positives = 185/270 (68%), Gaps = 8/270 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 9 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 68 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 + ++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + V Sbjct: 69 AVSVAEGKDEVFITLKKSGSGPVVAGDIIHDGDVEIANPEHVICHLTDDKAEIAMRIKVQ 128 Query: 151 KGHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVP A+ H E++ PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 129 RGRGYVPSSARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 188 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 189 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 245 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 RS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 246 RSANCLKAEAIHYIGDLVQRTEVELLKTPN 275 >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 = 235 bits (599), Expect = 8e-60, Method: Compositional matrix adjust. Identities = 120/252 (47%), Positives = 170/252 (67%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ Sbjct: 7 EEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDV 66 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILNIKG+ LKM GD K + I GP VTAGDI +D+E+LN D ICN+ A Sbjct: 67 AQIILNIKGLALKMYGDEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICNVSEGAS 126 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+ Sbjct: 127 FHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLT 186 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 M I TDGSI ++++LA++I+ + L +F+N + K + + + L +EE Sbjct: 187 MEIWTDGSIEPLEAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 246 Query: 263 LELSVRSTNCLR 274 L+LSVRS NCL+ Sbjct: 247 LDLSVRSYNCLK 258 >gi|328813991|gb|AEB52111.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 269 Score = 235 bits (599), Expect = 8e-60, Method: Compositional matrix adjust. Identities = 124/269 (46%), Positives = 178/269 (66%), 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 VRMELTVSKGHGYVPAK--HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 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|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 = 235 bits (599), Expect = 9e-60, Method: Compositional matrix adjust. Identities = 120/265 (45%), Positives = 182/265 (68%), 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 LKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 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++ + + + + F+P LL+ V++LEL+VR Sbjct: 181 GTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 237 Query: 269 STNCLRGENIVYMGDLIQRTEADML 293 S NCL+ E I Y+GDL+QRTE ++L Sbjct: 238 SANCLKAEAIHYIGDLVQRTEVELL 262 >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 = 235 bits (599), Expect = 9e-60, Method: Compositional matrix adjust. Identities = 132/312 (42%), Positives = 192/312 (61%), Gaps = 10/312 (3%) Query: 8 ELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E KPN NIE E+ + EPL RG+ TLGN+LRR+L+SSL GAA+ VQI Sbjct: 3 EFEKPNIHNIE------EDARYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGV+HE S++ GV ED+T IILN+K + L + D + + I +GP VTA D+Q D+ Sbjct: 57 DGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDERSLEIDIQGPADVTAADLQGGADV 116 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKV 183 EVLNPD I + + M +T KG GY A ++ D PIG++ +D++Y+PI++V Sbjct: 117 EVLNPDLHIATVAAGKSLHMTVTAVKGRGYTSADENKKLRDEMPIGVLAVDSIYTPIERV 176 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+ R G DYDKL+ I T+GSI D+++L ++IL + LG+F++ E Sbjct: 177 NYQVENTRIGARDDYDKLTFDIWTNGSIKPSDALSLGAKILAEHLGLFMDISPVAAEASV 236 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + + + + +E+L+LSVRS NCL+ I + +L RTEADM+++ N GRKSL Sbjct: 237 MVEAEPVAASASDSAPIEDLDLSVRSYNCLKRAGINTIVELTDRTEADMMKVRNLGRKSL 296 Query: 304 VEIKGVLGTMGL 315 EI+ L M L Sbjct: 297 DEIQEKLTDMNL 308 >gi|330718947|ref|ZP_08313547.1| DNA-directed RNA polymerase subunit alpha [Leuconostoc fallax KCTC 3537] Length = 314 Score = 235 bits (599), Expect = 9e-60, Method: Compositional matrix adjust. Identities = 132/312 (42%), Positives = 193/312 (61%), Gaps = 10/312 (3%) Query: 8 ELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E KPN NIE E+ + EPL RG+ TLGN+LRR+L+SSL GAA+ VQI Sbjct: 3 EFEKPNIHNIE------EDARYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGV+HE S++ GV ED+T +ILN+K + L + D K + I +GP VTA D+Q DI Sbjct: 57 DGVVHEFSTVDGVVEDVTQLILNLKKVVLAIDSDEEKSLEIDVQGPAEVTAADLQGSADI 116 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKV 183 EVLNP+ + + + M +T KG GY A ++ D PIG++ +D++Y+PI++V Sbjct: 117 EVLNPELHLATVAAGKSLHMTVTAVKGRGYSSADENKQLRDEMPIGVLAVDSIYTPIERV 176 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+ R GQ DYDKL+ I T+GSI D+++L ++IL + L +F + E + Sbjct: 177 NYQVENTRVGQRDDYDKLTFDIWTNGSIKPSDALSLGAKILSEHLNLFTDISSVAAETEV 236 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 ++V+ + +E+L+LSVRS NCL+ I + +L R+EADM+++ N GRKSL Sbjct: 237 MVDVEQTVSSVQDSAPIEDLDLSVRSYNCLKRAGINTISELTDRSEADMMKVRNLGRKSL 296 Query: 304 VEIKGVLGTMGL 315 EI+ L MGL Sbjct: 297 DEIQEKLIEMGL 308 >gi|319827247|gb|ADV74823.1| RNA polymerase subunit A [Vibrio neptunius] Length = 275 Score = 234 bits (598), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 120/265 (45%), Positives = 182/265 (68%), Gaps = 8/265 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 14 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 73 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 74 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 133 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 134 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMET 193 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 194 NGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 250 Query: 268 RSTNCLRGENIVYMGDLIQRTEADM 292 RS NCL+ E I Y+GDL+QRTE ++ Sbjct: 251 RSANCLKAEAIHYIGDLVQRTEVEL 275 >gi|319827245|gb|ADV74822.1| RNA polymerase subunit A [Vibrio coralliilyticus] Length = 276 Score = 234 bits (598), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 120/265 (45%), Positives = 182/265 (68%), Gaps = 8/265 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 15 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 74 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V Sbjct: 75 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 134 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 135 RGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMET 194 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 195 NGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 251 Query: 268 RSTNCLRGENIVYMGDLIQRTEADM 292 RS NCL+ E I Y+GDL+QRTE ++ Sbjct: 252 RSANCLKAEAIHYIGDLVQRTEVEL 276 >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 = 234 bits (598), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 123/288 (42%), Positives = 191/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+GVLHE S+I V ED++ II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEGVLHEFSAIDNVVEDVSTIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I + G VTA DI +D+E+LNP+ I + +++ L Sbjct: 83 KKLALKIYSEEDKTLEIDVKDEGDVTASDITHDSDVEILNPEIKIATVSKGGHLKIRLVA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GY A+ ++T + PIG+I +D+LYSP+++V+YTVE+ R GQ D+DKL++ + T+G Sbjct: 143 NKGRGYALAEQNKTSDLPIGVIPVDSLYSPVERVNYTVENTRVGQSSDFDKLTLDVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SIT ++SV+LA++IL + L +F+ + + + I + L +EEL+LSVRS Sbjct: 203 SITPQESVSLAAKILTEHLNIFVGLTDEAQNAEIMIEKEEDQKEKVLEMSIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++EADM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVKYKLEDLGLGL 310 >gi|161511875|emb|CAP16948.1| DNA-directed RNA polymerase subunit alpha [Pediococcus siamensis] Length = 275 Score = 234 bits (598), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 118/254 (46%), Positives = 170/254 (66%), Gaps = 2/254 (0%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E EN + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+ Sbjct: 8 ENENYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDV 67 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILNIK ++LK+ D K + I +GP VTAGDIQ +D+E+LNPD IC + Sbjct: 68 TQIILNIKKVSLKIESDDEKSLEINVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVT 127 Query: 143 VRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 LT G GYV A ++ D PIG++ ID++Y+PI++V+Y VE+ R GQ DYDK Sbjct: 128 FHAVLTADTGRGYVSADENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRNDYDK 187 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L++ + TDGSI+ ++ +L+++IL + L +F+N + +E + + + L + Sbjct: 188 LTLDVWTDGSISPSEATSLSAKILTEHLALFVNLTDEAQEAEIMVEKEETHKEKMLEMSI 247 Query: 261 EELELSVRSTNCLR 274 EEL+LSVRS NCL+ Sbjct: 248 EELDLSVRSYNCLK 261 >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 = 234 bits (598), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 139/330 (42%), Positives = 200/330 (60%), Gaps = 16/330 (4%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 +L++PN E + L + N + +I EP + +A LG ALRR+++SS+ G AIT V+IDG Sbjct: 6 DLLRPNIKEVVTLSR---NVSRVILEPFEQHYAQVLGTALRRIMLSSIPGYAITEVEIDG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGIN-LKMSGDSHKRVT-IFKRGPGVVTAGDIQTVNDI 125 V+HE S+++GV ED+ I+LN+K + + H V I K G G VTA DIQ I Sbjct: 63 VVHEYSALEGVQEDILLILLNLKEVAVFSATIPQHDPVLEINKSGIGTVTAADIQCPGGI 122 Query: 126 EVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKHHR----TENDPIGLITIDALYSPI 180 E+ NP+ V+C++ D +RM L V++G GYVPA H E+ IG + +DA Y P+ Sbjct: 123 EIRNPELVLCHITDEKTNLRMRLHVTRGRGYVPAVTHPHIEGAEDRFIGRLLLDASYCPV 182 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 V+ +GQ ++L + I+T+G+I D+V A+ I DQL F++ Sbjct: 183 LNVAVHTAPLNDGQ----EQLILDIETNGTIDPSDAVCSAATIFADQLNSFVDIRNSVAP 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +D + K L +P LL VE+LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+ Sbjct: 239 A-DDASFKPL-IDPKLLCPVEDLELTVRSANCLKAEGIKYIGDLVQRTEVELLKTPNLGK 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 KSL EIK VL GL LGM L +WPP +E Sbjct: 297 KSLTEIKDVLAERGLSLGMRLENWPPADLE 326 >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 = 234 bits (597), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 123/288 (42%), Positives = 190/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+GVLHE S+I V ED++ II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEGVLHEFSAIDNVVEDVSTIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I R G VTA DI +D+E+LNP+ I + +++ L Sbjct: 83 KKLALKIYSEEDKTLEIDVRDEGEVTASDITHDSDVEILNPELKIATVSKGGHLKIRLVA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GY A+ + T + PIG+I +D+LYSP+++V+YTVE+ R GQ D+DKL++ + T+G Sbjct: 143 NKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTVENTRVGQSSDFDKLTLDVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SIT ++SV+LA++I+ + L +F+ + + + I + L +EEL+LSVRS Sbjct: 203 SITPQESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEKEEDQKEKVLEMSIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++EADM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVKYKLEDLGLGL 310 >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 = 234 bits (597), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 125/302 (41%), Positives = 190/302 (62%), Gaps = 9/302 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 IA+PL RG+ TLGN +RRVL++SL G AIT +++DGV HE SSI+GV ED+ +I+LN+ Sbjct: 25 FIAQPLERGYGVTLGNMMRRVLLASLPGTAITGIKVDGVFHEFSSIEGVREDVPEIVLNL 84 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELT 148 K + K + + T+ GP TAGDI + EVLN D I ++ + + +++ Sbjct: 85 KKVRFKSTCKRSCKTTLSIVGPKDFTAGDIVAQEGEFEVLNKDLYIATVNEGSTLNIDVY 144 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + +G GY PA+ R ++ PIG I IDA+Y+PI+ V + VE+ R GQ DY+K+ + ++TD Sbjct: 145 IGRGRGYTPAEESRPDSMPIGYIAIDAIYTPIRNVKFAVENTRVGQRTDYEKMVLDVETD 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEV------KEDINVKSLPFNPALLKKVEE 262 GSIT +DS++LA RI+ + + F NF ++E ++D +++ L K+E+ Sbjct: 205 GSITPDDSISLAGRIINEHVTFFANFSPTEEEFTEEEYKQQDDEFETM--RRLLNTKIED 262 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL E+K L L GM++ Sbjct: 263 LDLSVRSHNCLRLAEIDTIGDLVSRKEDELLNYKNFGKKSLTELKEQLEKFELKFGMDIT 322 Query: 323 DW 324 + Sbjct: 323 RY 324 >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 = 234 bits (597), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 125/303 (41%), Positives = 183/303 (60%), Gaps = 15/303 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E+E + +AEPLPRG HTLGNALRRV++S L GAA+T ++I+GV HE S+I+GV ED Sbjct: 14 EEDERHGIFVAEPLPRGLGHTLGNALRRVMLSGLPGAAVTKLRIEGVQHEFSTIEGVRED 73 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DIILN+K + ++ D + I K GPG V DI+ D+EV+NPD I +L Sbjct: 74 VVDIILNVKQLKFRLERDEPIELQISKDGPGEVRGSDIELKADVEVVNPDAYIASLSEGG 133 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + M LTV +G GYVPA+ ++++ DPIG+I +D+L+SP++KV Y V R G +D D L Sbjct: 134 HLDMTLTVERGQGYVPAEQNKSDADPIGVIAVDSLFSPVEKVQYRVSETRAGARVDLDAL 193 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFIN-------FEEPKKEVKEDINVKSLPFNP 254 ++ + TDG + +++ ASR L D G+F EEP + + P Sbjct: 194 TLEVFTDGRLGPREALREASRKLIDFFGLFAEGYQGAGAAEEPGRSGGRPVITDERP--- 250 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +E+LEL+VRS NCL+ E + +G L TE +++ + N G KS+ EI+ L G Sbjct: 251 -----IEDLELTVRSYNCLKREGVDTIGQLATMTEEELMNIRNLGMKSVDEIRSKLEEYG 305 Query: 315 LFL 317 L Sbjct: 306 YTL 308 >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 = 234 bits (597), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 132/312 (42%), Positives = 192/312 (61%), Gaps = 10/312 (3%) Query: 8 ELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E KPN NIE E+ + EPL RG+ TLGN+LRR+L+SSL GAA+ VQI Sbjct: 3 EFEKPNIHNIE------EDARYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGV+HE S++ GV ED+T IILN+K + L + D + + I +GP VTA D+Q D+ Sbjct: 57 DGVVHEFSTVDGVVEDVTQIILNLKKVVLAIESDDERSLEIDIQGPADVTAADLQGGADV 116 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKV 183 EVLNPD I + + M +T KG GY A ++ D PIG++ +D++Y+PI++V Sbjct: 117 EVLNPDLHIATVAAGKSLHMTVTAVKGRGYTSADENKKLRDEMPIGVLAVDSIYTPIERV 176 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+ R G DYDKL+ I T+GSI D+++L ++IL + LG+F++ E Sbjct: 177 NYQVENTRIGARDDYDKLTFDIWTNGSIKPSDALSLGAKILAEHLGLFMDISPVAAEASV 236 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + + + + +E+L+LSVRS NCL+ I + +L RTEADM+++ N GRKSL Sbjct: 237 MVEAEPVAASESDSAPIEDLDLSVRSYNCLKRAGINTILELTDRTEADMMKVRNLGRKSL 296 Query: 304 VEIKGVLGTMGL 315 EI+ L M L Sbjct: 297 DEIQEKLTDMNL 308 >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 = 234 bits (597), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 128/296 (43%), Positives = 194/296 (65%), Gaps = 15/296 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+++SSL G+A++ V+IDGVLHE SSI GV ED+T+II+N+ Sbjct: 36 FICEPLERGYGTTLGNSLRRIMLSSLPGSAVSQVKIDGVLHEFSSIPGVKEDVTEIIMNV 95 Query: 90 KGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K + +K S + + K I G GV+TA DIQ IE++N D VI + + MEL Sbjct: 96 KSLAIKNSAEDNEPKIAYIDFDGEGVITAEDIQCDPCIEIINKDQVIATVS-EGKFYMEL 154 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 T++ G GYV + ++ E+ PIG+I ID++Y+P+++V+ VE+ R GQV D+DKL++ + T Sbjct: 155 TITNGRGYVSSDKNKGEDTPIGVIAIDSIYTPVERVNLRVENTRVGQVTDFDKLTLDVTT 214 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKK------EVKEDINVKSLPFNPALLKKVE 261 +G++ +++V+LA+++L + L +FI+ + K E +ED K L N ++ Sbjct: 215 NGTLEPDEAVSLAAKVLSEHLNLFIDLSDNAKTIDVMVEKEEDDKEKVLEMN------ID 268 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 ELELSVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 269 ELELSVRSYNCLKRAGINTVEELCSRTSDDMMKVRNLGRKSLEEVLQKLEELGLHL 324 >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 = 234 bits (597), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 133/317 (41%), Positives = 194/317 (61%), Gaps = 24/317 (7%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 EENR EPL RGF +T GN+LRRVL+SSL GAA+T+V+I+GV HE S+I GV ED+T Sbjct: 15 EENRGSFTIEPLDRGFGYTFGNSLRRVLLSSLAGAAVTSVRIEGVAHEFSTIPGVKEDVT 74 Query: 84 DIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 DI+LN+KGI +M D+ + + GPG +TA DI + +E+LNPD I L+ Sbjct: 75 DIVLNLKGIVCRMHSDATEIEAPLVVTGPGDITAKDIDLPSGVEILNPDAHIATLEKKTK 134 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + + LT+ +G GY PA+ +++ + PIG+I ID+++SP+++V+Y VE AR GQ DYDKL+ Sbjct: 135 LEVYLTIGRGRGYRPAEENKSPDQPIGVIPIDSIFSPVRRVAYAVEQARVGQKTDYDKLT 194 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL------------ 250 + I+TDGSI ++ A+ IL QL +F + + E+++ + +L Sbjct: 195 LDIETDGSIDPHAALREAAEILISQLAIFTDADR-VIELRDTGGLGALEPGLAGGGVGGV 253 Query: 251 ----------PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 P N +EELEL VRS NCL+ I +GDLI +TE ++ + NFG+ Sbjct: 254 GGHGAGPGGRPANAMDDILIEELELGVRSYNCLKRAGIQTVGDLISKTENELNAIPNFGK 313 Query: 301 KSLVEIKGVLGTMGLFL 317 KS+ E+ L GL L Sbjct: 314 KSIDEVIETLEGRGLHL 330 >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 = 234 bits (597), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 122/288 (42%), Positives = 190/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+GVLHE S++ V ED++ II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEGVLHEFSAVDNVVEDVSTIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I + G VTA DI +D+E+LNP+ I + +++ L Sbjct: 83 KKLALKIYSEEDKTLEIDVKDEGEVTASDITHDSDVEILNPELKIATVSKGGHLKVRLVA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GY A+ + T + PIG+I +D+LYSP+++V+YTVE+ R GQ DYDKL++ + T+G Sbjct: 143 NKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTVENTRVGQSSDYDKLTLDVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SIT ++SV+LA++I+ + L +F+ + + + I + L +EEL+LSVRS Sbjct: 203 SITPQESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEKEEDQKEKVLEMSIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++EADM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVKYKLEDLGLGL 310 >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 = 234 bits (597), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 120/265 (45%), Positives = 181/265 (68%), 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 LKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 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++ + + + + F+P LL+ V++LEL+VR Sbjct: 181 GTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 237 Query: 269 STNCLRGENIVYMGDLIQRTEADML 293 S NCL+ E I Y+GDL+QRTE ++L Sbjct: 238 SANCLKAEAIHYIGDLVQRTEVELL 262 >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 = 234 bits (597), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 122/288 (42%), Positives = 190/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+GVLHE S++ V ED++ II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEGVLHEFSAVDNVVEDVSTIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I R G VTA DI +D+E+LNP+ I + +++ L Sbjct: 83 KQLALKIYSEEDKTLEIDVRDEGEVTASDITHDSDVEILNPELKIATVSKGGHLKIRLVA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GY A+ + T + PIG+I +D+LYSP+++V+YTVE+ R GQ D+DKL++ + T+G Sbjct: 143 NKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTVENTRVGQSSDFDKLTLDVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SIT ++SV+LA++I+ + L +F+ + + + I + L +EEL+LSVRS Sbjct: 203 SITPQESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEKEEDQKEKVLEMSIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++EADM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVKYKLEDLGLGL 310 >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 = 234 bits (597), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 126/284 (44%), Positives = 180/284 (63%), Gaps = 12/284 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA ++ I GV HE ++KGV ED+T+II+N+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRMLISSLPGAAARSIDIQGVQHEFQAVKGVVEDVTEIIMNV 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I K+ + K V+I +GP VVTA DI +DIEV+N D I + M + V Sbjct: 83 KNIAFKVHSEEEKVVSINVKGPAVVTAEDIAIDSDIEVINTDQHIATVSEGGQFEMLIYV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG G+VPA ++ + PIG+I ID++Y+P+ KV+YTVE R GQ D+DKL + + T+G Sbjct: 143 GKGRGFVPADGNKKRDLPIGVIPIDSIYTPVSKVNYTVEKTRVGQSTDFDKLILDVTTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEV------KEDINVKSLPFNPALLKKVEEL 263 +IT D++ALAS+IL L +F+ E K +ED V+ L +EEL Sbjct: 203 TITANDALALASKILISHLELFMEMSEEAKAADILVAKEEDNKVQMLEMT------IEEL 256 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 +LSVRS NCL+ I + +L +TE +M+++ N GRKSL E+K Sbjct: 257 DLSVRSYNCLKRAGINTVQELANKTEQEMIKVRNLGRKSLEEVK 300 >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 = 234 bits (597), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 130/298 (43%), Positives = 189/298 (63%), Gaps = 5/298 (1%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E ++ + EPL RGF T+GNALRRVL+SSL GAA+ ++++DGV HE +SI G+ ED+ Sbjct: 16 ESQHYGKFVFEPLERGFGTTIGNALRRVLLSSLPGAAVFSIKVDGVYHEFTSIPGIVEDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILNIK + + + D + I K+GPG VT DI +EV++ D IC L+ + Sbjct: 76 TAIILNIKTLVMSIQDDEIYTLRISKQGPGAVTGADIICPEGVEVISKDLHICTLEEGGM 135 Query: 143 VRMELTVSKGHGYVPA----KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + MEL G GYV A + ++T N P+G+I D++Y+PI+KVSY VE R GQ Y Sbjct: 136 LEMELQARIGRGYVSADTNKQLYQTPNQPLGIIYTDSIYTPIEKVSYNVEPTRVGQDAHY 195 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN-VKSLPFNPALL 257 DK+++ I TD S++ +SVALASRIL D L + N E +++ + + N L+ Sbjct: 196 DKVTLEIWTDSSLSPAESVALASRILIDHLELLTNVHEAVNDMESVMKEAQGEVQNKGLV 255 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 +E+L+LSVRS NCL+ I + +L QRTE +M+R+ N G+KSL E+K + +GL Sbjct: 256 MMIEDLDLSVRSYNCLKRAGIQTVEELTQRTEDEMMRVRNLGKKSLKEVKDKIYDLGL 313 >gi|267798457|gb|ACY78909.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 269 Score = 234 bits (597), Expect = 2e-59, Method: Compositional matrix adjust. Identities = 119/262 (45%), Positives = 180/262 (68%), 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: 11 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 70 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D A + M + V Sbjct: 71 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIIVE 130 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 131 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMET 190 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 191 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 247 Query: 268 RSTNCLRGENIVYMGDLIQRTE 289 RS NCL+ E I Y+GDL+QRTE Sbjct: 248 RSANCLKAEAIHYIGDLVQRTE 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 = 234 bits (597), Expect = 2e-59, Method: Compositional matrix adjust. Identities = 119/262 (45%), Positives = 180/262 (68%), 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: 11 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 70 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D A + M + V Sbjct: 71 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKVE 130 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 131 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMET 190 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 191 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 247 Query: 268 RSTNCLRGENIVYMGDLIQRTE 289 RS NCL+ E I Y+GDL+QRTE Sbjct: 248 RSANCLKAEAIHYIGDLVQRTE 269 >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 = 234 bits (596), Expect = 2e-59, Method: Compositional matrix adjust. Identities = 128/298 (42%), Positives = 188/298 (63%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL+SSL G AIT+V+I+GV HE S+I GV ED+T++ILN+K +N Sbjct: 28 PLEPGYGLTVGNALRRVLLSSLEGFAITSVRIEGVDHEFSTISGVVEDVTEMILNLKQVN 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K D ++ VTI G +TAGD Q ++ +VLN D VICNLD + MELT+ Sbjct: 88 FKRQIDEVDNETVTISISGQEQITAGDFQKFISGFQVLNTDLVICNLDPKVNINMELTIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ + PIG I D++Y+PIK V Y++E+ R Q DY+KL I TDGS Sbjct: 148 KGRGYVPAEENKKASAPIGTIFTDSIYTPIKNVKYSIENFRVEQKTDYEKLVFEIQTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A++IL +F I E + E + +SL L K+ +++LS Sbjct: 208 INPKDALTEAAKILIHHFMLFSDERITLEADEIAQTETYDEESLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ + D+++ NFG+KSL E++ ++ GL GM+L + Sbjct: 268 VRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKKSLTELEELVNVKGLNFGMDLSKY 325 >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 = 234 bits (596), Expect = 2e-59, Method: Compositional matrix adjust. Identities = 119/262 (45%), Positives = 180/262 (68%), 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: 11 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 70 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D A + M + V Sbjct: 71 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIRVE 130 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 131 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMET 190 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 191 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 247 Query: 268 RSTNCLRGENIVYMGDLIQRTE 289 RS NCL+ E I Y+GDL+QRTE Sbjct: 248 RSANCLKAEAIHYIGDLVQRTE 269 >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 = 234 bits (596), Expect = 2e-59, Method: Compositional matrix adjust. Identities = 126/294 (42%), Positives = 193/294 (65%), Gaps = 3/294 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL G A++ V+I GVLHE SSI GV ED+T+II+NI Sbjct: 23 FVIEPLERGYGITLGNSLRRIMLSSLPGTAVSHVKIKGVLHEFSSIPGVKEDVTEIIMNI 82 Query: 90 KGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVVRME 146 K + +K + D+ K+ I G VV AGDI+ DIE++NPD VI NL DA + ME Sbjct: 83 KNVVIKNNSDTFEPKQAYIDVVGERVVKAGDIKVDGDIEIVNPDLVIANLSGPDAKLEME 142 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LT++ G GYV ++ + PI +I ID++++P+++V+ TV++ R GQV DYDKL++ + Sbjct: 143 LTIANGRGYVSLDKNKEADAPIDVIAIDSIFTPVERVNLTVQNTRVGQVTDYDKLTLDVY 202 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+G++ +++V+LA+ +L + L +F++ E + V + + L ++ELELS Sbjct: 203 TNGALAPDEAVSLAANLLVEHLKLFVDLSENARLVDVMVESTTDEKEKVLEMNIDELELS 262 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 VRS NCL+ I + +LI +T DM+++ N GRKSL E+ L +GL L N Sbjct: 263 VRSYNCLKRAGINTVQELINKTPEDMMKVRNLGRKSLDEVLAKLKELGLALNQN 316 >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 = 233 bits (595), Expect = 2e-59, Method: Compositional matrix adjust. Identities = 129/313 (41%), Positives = 195/313 (62%), Gaps = 16/313 (5%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ENR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+TD Sbjct: 16 ENRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+KG+ + D + + K+GPGVVTAGDI + V NPD I L+ + Sbjct: 76 IILNLKGLVVSSEEDEPVTMYVRKQGPGVVTAGDIVPPAGVTVNNPDLHIATLNDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 136 IELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDRLILD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNPAL 256 ++T SIT D++A A + L + G+ +N E P + I LP Sbjct: 196 VETKNSITARDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFGLP----- 250 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E+L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L ++GL Sbjct: 251 ---IEDLDLTVRSYNCLKREGVHTVGELVGRTESDLLDIRNFGQKSIDEVKVKLHSLGLA 307 Query: 317 LGMNLPDWPPESI 329 L + + P ++ Sbjct: 308 LKDSPASFDPTTV 320 >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 = 233 bits (595), Expect = 2e-59, Method: Compositional matrix adjust. Identities = 121/288 (42%), Positives = 191/288 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+GVLHE S++ V ED++ II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEGVLHEFSAVDNVVEDVSTIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I + G VTA DI +D+E+LNP+ I + +++ L Sbjct: 83 KKLALKIYSEEDKTLEIDVKDEGEVTASDITHDSDVEILNPELKIATVSKGGHLKVRLVA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GY A+ + T + PIG+I +D+LYSP+++V+YTVE+ R GQ D+DKL++ + T+G Sbjct: 143 NKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTVENTRVGQSSDFDKLTLDVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SIT ++SV+LA++I+ + L +F++ + + + I + L +EEL+LSVRS Sbjct: 203 SITPQESVSLAAKIMTEHLNIFVSLTDEAQNAEIMIEKEEDQKEKVLEMSIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++EADM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVKYKLEDLGLGL 310 >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 = 233 bits (595), Expect = 2e-59, Method: Compositional matrix adjust. Identities = 130/318 (40%), Positives = 194/318 (61%), Gaps = 4/318 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPGVVTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGVVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNAKGKLEMELTVERGRGYVSAVQNKQAGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNVDAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPPES 328 MGL L + P + P S Sbjct: 302 AGMGLALKDSPPGFDPTS 319 >gi|328814017|gb|AEB52124.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 263 Score = 233 bits (594), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 120/260 (46%), Positives = 172/260 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNI Sbjct: 4 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNI 63 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM G K + I GP VTAGDI +D+E+LN D IC++ A LTV Sbjct: 64 KGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHARLTV 123 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDG Sbjct: 124 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDG 183 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI ++++L+++I+ + L +F+N + K + + + L +EEL+LSVRS Sbjct: 184 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEELDLSVRS 243 Query: 270 TNCLRGENIVYMGDLIQRTE 289 NCL+ I + +L ++E Sbjct: 244 YNCLKRAGINTVQELTNKSE 263 >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 = 233 bits (594), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 132/312 (42%), Positives = 191/312 (61%), Gaps = 10/312 (3%) Query: 8 ELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E KPN NIE E + EPL RG+ TLGN+LRR+L+SSL GAA+ VQI Sbjct: 3 EFEKPNIHNIE------EGARYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGV+HE S++ GV ED+T IILN+K + L + D + + + +GP VTA D+Q D+ Sbjct: 57 DGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDEERSLEVDIQGPADVTAADLQAGADV 116 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKV 183 EVLNPD I + + M +T KG GY A ++ D PIG++ +D++Y+PI++V Sbjct: 117 EVLNPDLHIATVAAGKSLHMTITAFKGRGYSSADENKQLRDEMPIGVLAVDSIYTPIERV 176 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+ R G DYDKL+ I T+GSI D+++L S+IL + L +F++ E Sbjct: 177 NYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDALSLGSKILAEHLNLFMDISPVAAEANV 236 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + V+ + + + +E+L+LSVRS NCL+ I + +L RTEADM+++ N GRKSL Sbjct: 237 MVEVEPVAVSASDSAPIEDLDLSVRSYNCLKRAGINTIVELTDRTEADMMKVRNLGRKSL 296 Query: 304 VEIKGVLGTMGL 315 EI+ L M L Sbjct: 297 DEIQEKLTEMSL 308 >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 = 233 bits (594), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 126/285 (44%), Positives = 192/285 (67%), Gaps = 1/285 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL GAA+T+V+++GV HE S+I GV ED+TD+ILN+K + Sbjct: 25 PLERGYGTTLGNSLRRILLSSLPGAALTSVKVEGVKHEFSAISGVVEDMTDLILNLKEVV 84 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 +K SG+ + I G G VTAGD T D++V+N DH I L D + +E TV KG Sbjct: 85 VKFSGEEQSTIRIEAEGEGEVTAGDFITSGDVQVINKDHHIATLAEDGRLLLEATVEKGR 144 Query: 154 GYVPAKHHRTENDP-IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GY A+ ++ D IGLI ID+ +SPI++ ++ +E+ R GQV DYD+L + + T+GSI Sbjct: 145 GYHTAEENKDHFDKVIGLIPIDSSFSPIERANFNIENTRVGQVTDYDRLILEVKTNGSIH 204 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 +D+++LA++I+ + L +FIN + ++V+ + V+ + L +EELELSVRS+NC Sbjct: 205 PDDAISLAAKIMVEHLELFINLTDEIEDVEIMVEVEEEEKDKILDTTIEELELSVRSSNC 264 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+ I + +L+ +TE D++++ N G+KSL EIK L + L L Sbjct: 265 LKRAGINTVEELVDKTEDDLMKVRNLGKKSLQEIKDKLDELELEL 309 >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 = 233 bits (594), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 134/302 (44%), Positives = 187/302 (61%), Gaps = 9/302 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E IA P GF HTLGN+LRRVL+SSL GAAI +V+IDG HE S+ V ED+T+ Sbjct: 22 ETYAKFIAAPFQSGFGHTLGNSLRRVLLSSLEGAAICSVRIDGAKHEFDSLDNVVEDVTE 81 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 I+LN+K + L + + K + I K G VTA DI + +EVLNPD VIC LD R Sbjct: 82 IVLNLKCVRLNLHAEGPKTLEIRKDKAGKVTAADIVCDSTVEVLNPDQVICTLDKSLPFR 141 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 E+ V KG GY+PA+ + T IG I +D L+SP+ +V+Y V +AR G+ + D L + Sbjct: 142 AEIEVIKGKGYLPAEKN-TAPRSIGTIPVDCLFSPVTRVNYQVGAARVGEETEMDSLELE 200 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV---KEDINVKSLPFNPALLKKVE 261 I TDG I+ ++++ A+RIL+D L F+ + +K+V +E+ + L L VE Sbjct: 201 IWTDGRISPQNALEEAARILRDHLQPFMGNQVVEKDVVLTEEETKMFKL-----LSHDVE 255 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 L+LSVR+ NCL NI +G+L +TE+ ML+ NFG+KSL EIK + +GL LGM+ Sbjct: 256 ILDLSVRAMNCLNSANIKLIGELCTKTESRMLKYRNFGKKSLDEIKEKIEKLGLELGMSF 315 Query: 322 PD 323 D Sbjct: 316 SD 317 >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 = 233 bits (594), Expect = 4e-59, Method: Compositional matrix adjust. Identities = 126/287 (43%), Positives = 190/287 (66%), Gaps = 4/287 (1%) Query: 24 EENRT-LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+NR + EPL RG+ TLGN+LRR+++SSL GAA+++V+I GVLHE SSI GV ED+ Sbjct: 16 EDNRFGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSSVKIKGVLHEFSSIPGVKEDV 75 Query: 83 TDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 +II+NIK + +K + S K+ I G GVVTAGDI+ +DIE+LNP+ VI L D Sbjct: 76 PEIIMNIKSLAIKNNSSSAETKQAYIEFSGKGVVTAGDIKADSDIEILNPELVIATLSDD 135 Query: 141 AV-VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + + MELT++ G GYV A E I I +DA+Y+P+++V+ VE+ R GQ+ DYD Sbjct: 136 SSKLDMELTITNGRGYVGADKADKEGKAIDEIAVDAIYTPVERVNLKVENTRVGQITDYD 195 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL++ + T+G++T ++SV+LA+++L + L +F++ E K + + + L Sbjct: 196 KLTLDVFTNGTLTPDESVSLAAKVLCEHLNLFVDLSENAKTAEVMVEKEDDEKEKVLEMS 255 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 ++ELELSVRS NCL+ I + +L +T DM+++ N GRKSL E+ Sbjct: 256 IDELELSVRSYNCLKRAGINTVEELTNKTSEDMMKVRNLGRKSLEEV 302 >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 = 233 bits (593), Expect = 4e-59, Method: Compositional matrix adjust. Identities = 122/304 (40%), Positives = 189/304 (62%), Gaps = 13/304 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 IA+PL RG+ TLGN +RRVL++SL G AIT ++IDGV HE ++I GV ED+ +I+LN+ Sbjct: 25 FIAQPLERGYGVTLGNVMRRVLLASLPGTAITGIKIDGVFHEFAAIDGVREDVPEIVLNL 84 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELT 148 K + K + + + ++ GP TAGDI + EVLN D + ++ A V+++L Sbjct: 85 KKVRFKSTCKRNCKTSLTLVGPMDFTAGDIIAQEGEFEVLNKDMHVATINAGATVKIDLY 144 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + +G GY+PA+ +R E PIG I +DA+Y+PI+ V +TVE+ R GQ DY+K+ + ++TD Sbjct: 145 IGRGRGYMPAEENRPEGMPIGYIAVDAIYTPIRNVKFTVENTRVGQRTDYEKMILDVETD 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFE--------EPKKEVKEDINVKSLPFNPALLKKV 260 GS++ +DS++LA +I+ D + F NF E K+ ++ F+ K+ Sbjct: 205 GSVSPDDSISLAGKIITDHVTFFANFSPTEEEFTEEEFKQQDDEFETMRRLFH----TKI 260 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 E+L+LSVRS NCLR I +G+L+ E ++L NFG+KSL E+K L L GM+ Sbjct: 261 EDLDLSVRSHNCLRLAEIDTIGELVSHKEDELLNYKNFGKKSLTELKEQLEKFDLKFGMD 320 Query: 321 LPDW 324 + + Sbjct: 321 ITKY 324 >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 = 233 bits (593), Expect = 4e-59, Method: Compositional matrix adjust. Identities = 130/311 (41%), Positives = 197/311 (63%), Gaps = 12/311 (3%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T+ Sbjct: 16 DNRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 +ILNIKG+ + D + + K+GPGVVTAGDI +EV NPD I L+ + Sbjct: 76 MILNIKGLVVSSEHDEPVVMYLRKQGPGVVTAGDITPPAGVEVHNPDLAIATLNDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MELTV +G GYV A+ +++ + IG I +D++YSP+ V+Y VE+ R Q D+DKL + Sbjct: 136 MELTVERGRGYVSAQQNKSGDQEIGRIPVDSIYSPVLAVTYKVEATRVEQRTDFDKLIVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----FNPALLK 258 ++T S+T D++A + + L + G+ +N E E I++ P L Sbjct: 196 VETKNSMTPRDAMASSGKTLVELFGLARELNVE------AEGIDMGPSPTDAALAADLAL 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L MGL L Sbjct: 250 PIEDLDLTVRSYNCLKREGIHTVGELVGRSEADLLDIRNFGAKSIDEVKAKLVGMGLALK 309 Query: 319 MNLPDWPPESI 329 + P + P ++ Sbjct: 310 DSPPGFDPSAL 320 >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 = 233 bits (593), Expect = 4e-59, Method: Compositional matrix adjust. Identities = 127/294 (43%), Positives = 189/294 (64%), Gaps = 8/294 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL G+ T GN+LRR+L+SSL GAA+T++QIDGVLHE S+I GV +D+T I+L + Sbjct: 23 FICEPLEPGYGTTFGNSLRRMLLSSLDGAAVTSIQIDGVLHEFSTIPGVRDDVTSIVLAL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + ++M + + I G VTA DI+ +DIE+LNPD I L +++++TV Sbjct: 83 KQLCIRMQDSEPRTIRIDAAGACEVTAADIECGSDIEILNPDLHIATLGDTGKLKIDMTV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYVPA ++ +D IG+I ID+++SP+++V+YTVE R G V DYD+L + + T+G Sbjct: 143 ERGRGYVPADRNKKPDDVIGVIPIDSIFSPVQRVNYTVEDTRVGNVTDYDRLILDVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP------FNPALLKKVEEL 263 SI E++V+ A+ IL L +F N + E +E+ V + P L +++L Sbjct: 203 SIRPEEAVSKAAAILVMHLRLFQNMDGSAAEEEEE--VPNFPPEEVDDSAKVLEMTIDDL 260 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +LSVRS NCL+ I + DL Q+TE DM+++ N GRKSL E+K L +GL L Sbjct: 261 DLSVRSFNCLKRAGINTVADLAQKTEDDMMKVRNLGRKSLDEVKKKLEELGLSL 314 >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 = 233 bits (593), Expect = 4e-59, Method: Compositional matrix adjust. Identities = 121/288 (42%), Positives = 190/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+GVLHE S++ V ED++ II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEGVLHEFSAVDNVVEDVSTIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I + G VTA DI +D+E+LNP+ I + +++ L Sbjct: 83 KKLALKIYSEEDKTLEIDVKDEGEVTASDITHDSDVEILNPELKIATVSKGGHLKVRLVA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GY A+ + T + PIG+I +D+LYSP+++V+YTVE+ R GQ D+DKL++ + T+G Sbjct: 143 NKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTVENTRVGQSSDFDKLTLDVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SIT ++SV+LA++I+ + L +F+ + + + I + L +EEL+LSVRS Sbjct: 203 SITPQESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEKEEDQKEKVLEMSIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++EADM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVKYKLEDLGLGL 310 >gi|295093661|emb|CBK82752.1| DNA-directed RNA polymerase subunit alpha [Coprococcus sp. ART55/1] Length = 318 Score = 233 bits (593), Expect = 4e-59, Method: Compositional matrix adjust. Identities = 126/294 (42%), Positives = 192/294 (65%), Gaps = 3/294 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+++SSL G A++ V+I GVLHE SSI GV ED+T+II+NI Sbjct: 23 FVIEPLERGYGITLGNSLRRIMLSSLPGTAVSHVKIKGVLHEFSSIPGVKEDVTEIIMNI 82 Query: 90 KGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVVRME 146 K + +K + D+ K+ I G VV AGDI+ DIE++NPD VI NL DA + ME Sbjct: 83 KNVVIKNNSDTFEPKQAYIDVVGERVVKAGDIKVDGDIEIVNPDLVIANLSGPDAKLEME 142 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LT+ G GYV ++ + PI +I ID++++P+++V+ TV++ R GQV DYDKL++ + Sbjct: 143 LTIVNGRGYVSLDKNKEADAPIDVIAIDSIFTPVERVNLTVQNTRVGQVTDYDKLTLDVY 202 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+G++ +++V+LA+ +L + L +F++ E + V + + L ++ELELS Sbjct: 203 TNGALAPDEAVSLAANLLVEHLKLFVDLSENARLVDVMVESTTDEKEKVLEMNIDELELS 262 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 VRS NCL+ I + +LI +T DM+++ N GRKSL E+ L +GL L N Sbjct: 263 VRSYNCLKRAGINTVQELINKTPEDMMKVRNLGRKSLDEVLAKLKELGLSLNQN 316 >gi|328814019|gb|AEB52125.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 263 Score = 233 bits (593), Expect = 4e-59, Method: Compositional matrix adjust. Identities = 119/252 (47%), Positives = 169/252 (67%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ Sbjct: 10 EEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDV 69 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILNIKG+ LKM G K + I GP VTAGDI +D+E+LN D IC++ A Sbjct: 70 TQIILNIKGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGAT 129 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+ Sbjct: 130 FHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLT 189 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 M I TDGSI ++++L+++I+ + L +F+N + K + + + L +EE Sbjct: 190 MEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 249 Query: 263 LELSVRSTNCLR 274 L+LSVRS NCL+ Sbjct: 250 LDLSVRSYNCLK 261 >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 = 233 bits (593), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 127/294 (43%), Positives = 188/294 (63%), Gaps = 8/294 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL G+ T GN+LRR+L+SSL GAA+T++QIDGVLHE S+I GV +D+T I+L + Sbjct: 23 FVCEPLEPGYGTTFGNSLRRMLLSSLDGAAVTSIQIDGVLHEFSTIPGVRDDVTSIVLAL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + ++M G + I G VTA DI+ +DIE+LNP+ I L +++E+TV Sbjct: 83 KQLCIRMQGSELHTLRIEAEGEREVTAADIECGSDIEILNPELHIATLGATGKLKIEMTV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYVPA ++ D IG+I ID+++SP+++V+YTVE R G V DYD+L + + T+G Sbjct: 143 ERGRGYVPADKNKKSEDSIGVIPIDSIFSPVQRVNYTVEDTRVGNVTDYDRLILDVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP------FNPALLKKVEEL 263 SI E++V+ A+ IL L +F N + E +E+ V + P L +++L Sbjct: 203 SIRPEEAVSKAAAILVMHLRLFQNMDGTMLEEEEE--VPNFPPEEVDDSAKVLEMTIDDL 260 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +LSVRS NCL+ I + DL Q+TE DM+++ N GRKSL E+K L +GL L Sbjct: 261 DLSVRSFNCLKRAGINTVADLAQKTEDDMMKVRNLGRKSLDEVKKKLEELGLSL 314 >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 = 232 bits (592), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 128/297 (43%), Positives = 186/297 (62%), Gaps = 7/297 (2%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 AEP G+ HT+GN+LRRVL+SS+ GAAI++++IDGV HE SI+GV ED+TDI+LN+K Sbjct: 30 AEPFEAGYGHTIGNSLRRVLLSSIEGAAISSIKIDGVQHEFQSIEGVVEDVTDIVLNLKK 89 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + L + I G +TA DIQ +I+V+NPD VIC L+ + EL V Sbjct: 90 VLLVSESRESVNLIIDVTREGAITAADIQEDANIQVVNPDQVICTLEKEQRFFAELEVRV 149 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GY ++ PIG+I ID+L+SP+K V Y+VE+ R GQ +DYDKL + I TDG I Sbjct: 150 GRGYCTGDDNKKAEQPIGVIAIDSLFSPVKLVKYSVENTRVGQEMDYDKLVLEITTDGRI 209 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK-----VEELELS 266 + +D++ ++ IL+ L +F E + +++ + K + L+K V E+ELS Sbjct: 210 SPDDALKQSAAILKHHLDVFD--EVSQDDIEFESESKEISEEQNRLRKLLNMSVNEIELS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 VR+ NCL NI +G+L ++E +ML+ NFG+KSL EIK L +GL LGM + + Sbjct: 268 VRAANCLNNANITTVGELAMKSEQEMLKYRNFGKKSLNEIKDKLEQLGLSLGMKIDE 324 >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 = 232 bits (592), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 130/316 (41%), Positives = 190/316 (60%), Gaps = 16/316 (5%) 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK------EV 241 ES R G+ D+DKL+M I T+GSI D++ A+R+L + F + + + E Sbjct: 179 ESTRVGKREDFDKLTMEIWTNGSIAPNDALNFAARVLVEHFKAFESADAAAEIGEVMVEQ 238 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + D K L +E+L+LSVRS NCL+ I + DL ++EA+M+R+ N GRK Sbjct: 239 ENDQKEKKLEMT------IEDLDLSVRSYNCLKRAGINTLQDLTVKSEAEMMRVRNLGRK 292 Query: 302 SLVEIKGVLGTMGLFL 317 SL E+K L +GL L Sbjct: 293 SLEEVKNKLADLGLSL 308 >gi|283945407|dbj|BAI66457.1| RNA polymerase alpha-subunit [Vibrio tapetis] Length = 260 Score = 232 bits (592), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 120/262 (45%), Positives = 179/262 (68%), 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 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 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++ + + + + F+P LL+ V++LEL+V Sbjct: 181 NGTLDPEEAIRRSATILAEQLDAFVDLRDIRVPEE---KEEKPEFDPILLRPVDDLELTV 237 Query: 268 RSTNCLRGENIVYMGDLIQRTE 289 RS NCL+ E I Y+GDL+QRTE Sbjct: 238 RSANCLKAEAIHYIGDLVQRTE 259 >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 = 232 bits (592), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 131/322 (40%), Positives = 201/322 (62%), Gaps = 16/322 (4%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVK 248 R Q D+DKL + ++T ++ D++A A + L + G+ +N + E I++ Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNID------AEGIDMG 235 Query: 249 SLPFNPA----LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 P + A L+ +EELEL+VRS NCL+ E + +G+L+ R+EAD+L + NFG KS+ Sbjct: 236 PSPVDAALAADLVMPIEELELTVRSYNCLKREGVHSVGELVARSEADLLDIRNFGAKSID 295 Query: 305 EIKGVLGTMGLFLGMNLPDWPP 326 E+K L MGL L + P + P Sbjct: 296 EVKAKLAGMGLGLKDSPPGFDP 317 >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 = 232 bits (592), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 129/305 (42%), Positives = 191/305 (62%), Gaps = 11/305 (3%) Query: 23 EEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 EE N T+ I EPL RGF +TLGN +RRVL+SSL GA TA+QI+GV HE ++ +GV E Sbjct: 12 EEVNDTIARFIVEPLERGFGYTLGNCMRRVLLSSLDGARATAIQIEGVQHEFTTAEGVIE 71 Query: 81 DLTDIILNIKGINLK-MSGD-SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 D+TDI LN+KG+ + +S D + T+ GP VT DIQ + ++NP+HVIC + Sbjct: 72 DVTDIALNVKGLVFQALSEDYTEATATVSVEGPCTVTGADIQVPTEFTLVNPEHVICTVA 131 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M + + G GYVPA+ ++ DPIG+I +D+L+SP+++ + V S R GQ D+ Sbjct: 132 DGGTLNMTIRIGVGRGYVPAERNKRSEDPIGIIHVDSLFSPVQRCTADVSSTRVGQRTDF 191 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL------PF 252 DKL + + TDGSIT +++V A+ I+ +G F+ + E ED + S+ Sbjct: 192 DKLVLEVATDGSITPDEAVCRAANIINQYMGSFMALADIAGE-DEDGEIPSIFAPEGQES 250 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 N L K++E+L+LSVRS NCL+ I + L++ +E D+L + NFG KS+ E+K L + Sbjct: 251 NAELDKQIEDLDLSVRSYNCLKRAGIHSVRQLVEFSENDLLNIRNFGAKSIEEVKDKLIS 310 Query: 313 MGLFL 317 MGL L Sbjct: 311 MGLNL 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 = 232 bits (592), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 120/288 (41%), Positives = 190/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+GVLHE S+I+ V ED+T II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVKNIEIEGVLHEFSAIENVVEDVTSIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I + GVVTA DI +D+E+LNPD I + ++M L Sbjct: 83 KKLALKIYSDEDKTLEIDVKDEGVVTAKDIMHDSDVEILNPDLKIATVSKGGHLKMRLIA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + G GY A+ + T + PIG+I +D++Y+P+++V+Y VE+ R GQ ++DKL++ + TDG Sbjct: 143 NAGRGYTLAEDNNTSDLPIGVIPVDSIYTPVERVNYQVENTRVGQSTNFDKLTLDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SIT +++++L ++I+ + L +F++ + + + I + L +EEL+LSVRS Sbjct: 203 SITPQEAISLGAKIMTEHLNIFVDLTDEAQNAEIMIEKEEDHKEKVLEMSIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++EADM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVKFKLEDLGLGL 310 >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 = 232 bits (592), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 126/296 (42%), Positives = 193/296 (65%), Gaps = 15/296 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+++SSL G+A++ V+IDGVLHE SSI GV ED+T+II+N+ Sbjct: 23 FICEPLERGYGTTLGNSLRRIMLSSLPGSAVSQVKIDGVLHEFSSIPGVKEDVTEIIMNV 82 Query: 90 KGINLK-MSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K + ++ S D +V G GV+TA DIQ IE++N D VI + + MEL Sbjct: 83 KSLAIRNTSNDDEPKVAYIDFDGEGVITAEDIQCDPSIEIINKDQVIATVS-EGKFYMEL 141 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 T++ G GYV + ++ E+ PIG+I ID++Y+P+++V+ VE+ R GQ+ D+DKL++ + T Sbjct: 142 TITNGRGYVSSDKNKGEDTPIGVIAIDSIYTPVERVNLLVENTRVGQMTDFDKLTLDVTT 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKK------EVKEDINVKSLPFNPALLKKVE 261 +G++ +++V+LA+++L + L +FI+ + K E +ED K L N ++ Sbjct: 202 NGTLEPDEAVSLAAKVLSEHLNLFIDLSDNAKTIDVMIEKEEDDKEKVLEMN------ID 255 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 ELELSVRS NCL+ I + +L RT DM+++ N GRKSL E+ L +GL L Sbjct: 256 ELELSVRSYNCLKRAGINTVEELCSRTSDDMMKVRNLGRKSLEEVLQKLEELGLRL 311 >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 = 232 bits (591), Expect = 7e-59, Method: Compositional matrix adjust. Identities = 121/288 (42%), Positives = 190/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+GVLHE S++ V ED++ II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEGVLHEFSAVDNVVEDVSTIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I + G VTA DI +D+E+LNP+ I + +++ L Sbjct: 83 KKLALKIYSEEDKTLEIDVKDEGEVTASDITHDSDVEILNPELKIATVSKGGHLKVRLVA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GY A+ + T + PIG+I +D+LYSP+++V+YTVE+ R GQ D+DKL++ + T+G Sbjct: 143 NKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTVENTRVGQSSDFDKLTLDVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SIT ++SV+LA++I+ + L +F+ + + + I + L +EEL+LSVRS Sbjct: 203 SITPKESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEKEEDQKEKVLEMSIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++EADM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVKYKLEDLGLGL 310 >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 = 232 bits (591), Expect = 7e-59, Method: Compositional matrix adjust. Identities = 129/318 (40%), Positives = 194/318 (61%), Gaps = 4/318 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPGVVTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGVVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + +ELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNAKGKLELELTVERGRGYVSAVQNKQAGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNVDAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPPES 328 MGL L + P + P S Sbjct: 302 AGMGLALKDSPPGFDPTS 319 >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 = 232 bits (591), Expect = 8e-59, Method: Compositional matrix adjust. Identities = 128/298 (42%), Positives = 189/298 (63%), Gaps = 5/298 (1%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E ++ + EPL RGF T+GNALRRVL+SSL GAA+ ++++DGV HE +SI G+ ED+ Sbjct: 16 ESQHYGKFVFEPLERGFGTTIGNALRRVLLSSLPGAAVFSIKVDGVYHEFTSIPGIVEDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILNIK + + + D + I K+GPG VT DI +EV++ D IC L+ + Sbjct: 76 TAIILNIKTLVMSIQDDEIYTLRISKQGPGAVTGADIICPEGVEVISKDLHICTLEEGGM 135 Query: 143 VRMELTVSKGHGYVPA----KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + MEL G GYV A + ++T N P+G+I D++Y+PI+KVSY VE R GQ Y Sbjct: 136 LEMELQARIGRGYVSADTNKQLYQTPNQPLGIIYTDSIYTPIEKVSYNVEPTRVGQDAHY 195 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN-VKSLPFNPALL 257 DK+++ I TD S++ ++VALAS+IL D L + N E +++ + + N L+ Sbjct: 196 DKVALEIWTDSSLSPAEAVALASKILIDHLELLTNVHEAVNDMESVMKEAQGEVQNKGLV 255 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 +E+L+LSVRS NCL+ I + +L QRTE +M+R+ N G+KSL E+K + +GL Sbjct: 256 MMIEDLDLSVRSYNCLKRAGIQTVEELTQRTEDEMMRVRNLGKKSLKEVKDKIYDLGL 313 >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 = 232 bits (591), Expect = 8e-59, Method: Compositional matrix adjust. Identities = 123/323 (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 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR--GPGVVTAGDI-QTVNDI 125 HE S+I GV ED+T+IILN+K + LK ++ T+ + 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|315134694|dbj|BAJ41855.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus ozensis] Length = 264 Score = 231 bits (590), Expect = 8e-59, Method: Compositional matrix adjust. Identities = 120/256 (46%), Positives = 173/256 (67%), Gaps = 4/256 (1%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E +N ++ EPL RG+ TLGN+LRR+L+SSL GAA+T++QID VLHE S++KGV ED+ Sbjct: 8 ETDNYGEVVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDDVLHEFSTVKGVVEDV 67 Query: 83 TDIILNIKGINLKM--SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 IILN+K I+LK+ + D K + I GP VTAGDIQ D+ VLNPD IC + Sbjct: 68 AQIILNVKKISLKLDIADDEEKSMEINVTGPAQVTAGDIQADGDVTVLNPDLKICTVAEG 127 Query: 141 AVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 A M +T +KG GYV A ++ ND PIG++ +D++Y+PI++V+Y VE+AR GQ D+ Sbjct: 128 ATFHMRMTANKGRGYVSADENKARNDGMPIGVLPVDSIYTPIERVNYQVENARVGQRADF 187 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL++ + TDGSIT ++V+LA++IL + L MF++ + K + + + L Sbjct: 188 DKLTLDVWTDGSITPSEAVSLAAKILSEHLSMFVDLTDEAKNAEVMVEKEETHKEKMLEM 247 Query: 259 KVEELELSVRSTNCLR 274 +EEL+LSVRS NCL+ Sbjct: 248 TIEELDLSVRSYNCLK 263 >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 = 231 bits (590), Expect = 9e-59, Method: Compositional matrix adjust. Identities = 125/291 (42%), Positives = 190/291 (65%), Gaps = 5/291 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF T+GNALRRVL+SSL GAA+ ++++DGV HE +SI G+ ED+T +ILNI Sbjct: 23 FVFEPLERGFGTTIGNALRRVLLSSLPGAAVFSIKVDGVYHEFTSIPGIVEDVTTMILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + +K+ D + I K+GPG VT DI +EVL+ D IC L+ ++ MEL Sbjct: 83 KTLVMKIQDDEIYTLRISKQGPGEVTGADIYCPEGVEVLSKDLHICTLEEGGMLEMELQA 142 Query: 150 SKGHGYVPA----KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 G GYV A + ++T N P+G+I D++Y+PI+KVSY+V+ R GQ +YDK+++ + Sbjct: 143 RVGRGYVNADTNKQLYQTPNQPLGIIYTDSIYTPIEKVSYSVDPTRVGQNANYDKVTLEV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN-VKSLPFNPALLKKVEELE 264 +D SI+ +S+AL+++IL D L + N +E +++ + + N L+ +E+L+ Sbjct: 203 WSDSSISPAESLALSAKILIDHLELLTNVDEAVNDMESVMKEAQGEVQNKGLVMMIEDLD 262 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 LSVRS NCL+ I + +L QRTE +M+R+ N G+KSL E+K L +GL Sbjct: 263 LSVRSYNCLKRAGIQTVEELTQRTEDEMMRVRNLGKKSLKEVKDKLYDLGL 313 >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 = 231 bits (590), Expect = 9e-59, Method: Compositional matrix adjust. Identities = 131/314 (41%), Positives = 199/314 (63%), Gaps = 16/314 (5%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +S+ GV ED+T Sbjct: 15 DEYRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSLRIDGVLHEFTSVPGVKEDVT 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +I+LN+K NL +S + + V ++ K+GPG VTA DI +EV NPD I L+ Sbjct: 75 EIVLNVK--NLVVSSEHDEPVVMYLRKQGPGAVTAADIAPPAGVEVHNPDLHIATLNAKG 132 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + +ELTV +G GYV A ++T IG I +D++YSP+ KV+Y VE+ R Q D+D+L Sbjct: 133 KLELELTVERGRGYVSAAQNKTGEQEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDRL 192 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----FNPA 255 + ++T +I+ D+VA A + L + G+ +N E E I++ P Sbjct: 193 VVDVETKHAISPRDAVASAGKTLTELFGLARELNVE------AEGIDMGPSPTDAALAAD 246 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 L ++E L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K L MGL Sbjct: 247 LALEIEALDLTVRSYNCLKREGIHSVGELVSRSEADLLDIRNFGQKSIDEVKAKLVGMGL 306 Query: 316 FLGMNLPDWPPESI 329 L + P + P ++ Sbjct: 307 HLKDSPPGFDPSAV 320 >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 = 231 bits (589), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 125/298 (41%), Positives = 185/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL+SSL G AIT+V+I+GV HE S+I GV ED+T+IILN+K + Sbjct: 28 PLEPGYGLTVGNALRRVLLSSLEGYAITSVRIEGVEHEFSTISGVVEDVTEIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + ++ V+I G +TAGD Q ++ +VLNPD VICNLD + MEL++ Sbjct: 88 FKRQIEDIDNESVSISLSGKDKITAGDFQKFISGFQVLNPDLVICNLDSKTTLNMELSIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ N PIG I D++Y+P+K V YT+E+ R Q DY+KL I TDGS Sbjct: 148 KGRGYVPAEENKKSNAPIGTIYTDSIYTPVKNVKYTIENFRVEQKTDYEKLVFEIITDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A++ L +F I E + E + +SL L K+ +++LS Sbjct: 208 IHPKDALTEAAKTLIHHFMLFSDERITLEADEIAQTESYDEESLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ + D+++ NFG+KSL E+ ++ L GM+L + Sbjct: 268 VRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKKSLTELDELVANKNLTFGMDLAKY 325 >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 = 231 bits (589), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 127/313 (40%), Positives = 194/313 (61%), Gaps = 16/313 (5%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+TD Sbjct: 16 DNRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+KG+ + D + + K+GPG VTAGDI + V NPD I L+ + Sbjct: 76 IILNLKGLVVSSEEDEPVTMYVRKQGPGAVTAGDIVPPAGVTVNNPDLHIATLNDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 136 IELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDRLVLD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNPAL 256 ++T SIT D++A A + L + G+ +N E P + I LP Sbjct: 196 VETKNSITARDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFGLP----- 250 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E+L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L ++GL Sbjct: 251 ---IEDLDLTVRSYNCLKREGVHTVGELVGRTESDLLDIRNFGQKSIDEVKVKLHSLGLA 307 Query: 317 LGMNLPDWPPESI 329 L + + P ++ Sbjct: 308 LKDSPASFDPTTV 320 >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 = 231 bits (589), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 127/298 (42%), Positives = 189/298 (63%), Gaps = 5/298 (1%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E +N + EPL RGF T+GNALRRVL+SSL GAA+ ++++DGV HE +SI G+ ED+ Sbjct: 16 EADNYGKFVFEPLERGFGTTIGNALRRVLLSSLPGAAVFSIKVDGVYHEFTSIPGIVEDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 + +ILNIK + +K+ D + I K+GPG VT DI +EVL+ D IC L+ + Sbjct: 76 SAMILNIKTLVMKIQDDEIYTLRISKQGPGEVTGADIICPEGVEVLSKDLHICTLEEGGM 135 Query: 143 VRMELTVSKGHGYVPA----KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + MEL G GYV A + ++T N P+G+I D++Y+PI++V+Y E R GQ Y Sbjct: 136 LEMELQARNGRGYVSADTNKQLYQTPNQPLGIIYTDSIYTPIERVAYNAEPTRVGQNAHY 195 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN-VKSLPFNPALL 257 DK+++ I TD SI+ +SVALA++IL D L + N E +++ + + N L+ Sbjct: 196 DKVTLEIWTDSSISPAESVALAAKILIDHLELLTNVHEAVNDMESLMKEAQGEVQNKGLV 255 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 +E+L+LSVRS NCL+ I + +L QRTE +M+R+ N G+KSL E+K + +GL Sbjct: 256 MMIEDLDLSVRSYNCLKRAGIQTVEELTQRTEDEMMRVRNLGKKSLKEVKDKIYDLGL 313 >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 = 231 bits (589), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 125/301 (41%), Positives = 192/301 (63%), Gaps = 7/301 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRV++SSL G AIT+V+ID V HE S+I GV ED+T+IILN+K + Sbjct: 28 PLEPGYGLTIGNALRRVMLSSLEGYAITSVKIDSVEHEFSTITGVVEDVTEIILNLKQVR 87 Query: 94 LKMS--GDSHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K+ G H++ +I G +TAGD Q + +VLNPD VICN++ D ++M++T+ Sbjct: 88 FKLQTEGTDHEKASISVTGKKQLTAGDFQKFITGFQVLNPDLVICNMEPDVAIKMDITID 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYV A+ + N P+G I DA+++PIK V Y++E+ R Q DY+KL I TDGS Sbjct: 148 KGMGYVFAEENTKPNMPMGTIPTDAIFTPIKNVKYSIENYRVEQKTDYEKLIFEIKTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMFINFE---EPKKEVK-EDINVKSLPFNPALLKKVEELELS 266 I +D++ A++ L +F + EP++ V+ E + +SL L K+ +++LS Sbjct: 208 IHPKDALMEAAKTLIHHFMLFSDERITIEPEEVVQPESYDEESLHMRQLLKTKLIDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 VR+ NCL+ + +GDL+ T+ D+++ NFG+KSL E+ ++ + GL GM+L + Sbjct: 268 VRALNCLKAAEVDTLGDLVSFTKTDLMKFRNFGKKSLTELDELVESKGLTFGMDLSRYKL 327 Query: 327 E 327 E Sbjct: 328 E 328 >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 = 231 bits (589), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 130/309 (42%), Positives = 194/309 (62%), Gaps = 7/309 (2%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + +R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV ED++ Sbjct: 15 DSSRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTINGVKEDVS 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +IILN+KG L +S DS + V ++ K GPGVVTAGDIQ +E+ NPD I +L+ A Sbjct: 75 EIILNVKG--LVLSSDSDEPVVMYLSKEGPGVVTAGDIQPPAGVEIHNPDLHIASLNDTA 132 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + MEL V +G GYVPA E IG I +D +YSP+ +VSY VE+ R Q D+DKL Sbjct: 133 KLDMELVVERGRGYVPAAPTSGE---IGRIPVDQIYSPVLQVSYKVEATRVEQRTDFDKL 189 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + ++T SI+ D++A A L + G+ + ++ + + + A +E Sbjct: 190 IIDVETKNSISARDALASAGGTLVELFGLARELNNAAEGIEIGPSPQETEYIAAYSMPIE 249 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +L SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L +GL L Sbjct: 250 DLNFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIKLANLGLALKDTP 309 Query: 322 PDWPPESIE 330 D+ P +E Sbjct: 310 EDFDPTQLE 318 >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 = 231 bits (589), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 118/252 (46%), Positives = 169/252 (67%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ Sbjct: 7 EEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDV 66 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILNIKG+ LKM G K + I GP VTAGDI +++E+LN D IC++ A Sbjct: 67 TQIILNIKGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGAT 126 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+ Sbjct: 127 FHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLT 186 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 M I TDGSI ++++L+++I+ + L +F+N + K + + + L +EE Sbjct: 187 MEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 246 Query: 263 LELSVRSTNCLR 274 L+LSVRS NCL+ Sbjct: 247 LDLSVRSYNCLK 258 >gi|317016847|gb|ADU85964.1| DNA-directed RNA polymerase alpha chain [Lactobacillus sp. 3.1.1] Length = 249 Score = 231 bits (589), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 118/247 (47%), Positives = 169/247 (68%), Gaps = 2/247 (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 SKGHGYVPAK--HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 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 RSTNCLR 274 RS NCL+ Sbjct: 241 RSYNCLK 247 >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 = 231 bits (588), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 129/316 (40%), Positives = 190/316 (60%), Gaps = 16/316 (5%) 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK------EV 241 ES R G+ D+DKL++ I T+GSI D++ A+R+L + F + + + E Sbjct: 179 ESTRVGKREDFDKLTLEIWTNGSIAPNDALNFAARVLVEHFKAFESADAAAEIGEVMVEQ 238 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + D K L +E+L+LSVRS NCL+ I + DL ++EA+M+R+ N GRK Sbjct: 239 ENDQKEKKLEMT------IEDLDLSVRSYNCLKRAGINTLQDLTVKSEAEMMRVRNLGRK 292 Query: 302 SLVEIKGVLGTMGLFL 317 SL E+K L +GL L Sbjct: 293 SLEEVKNKLADLGLSL 308 >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 = 231 bits (588), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 117/252 (46%), Positives = 168/252 (66%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+ + + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ Sbjct: 7 EDRDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDV 66 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILNIKG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + A Sbjct: 67 VQIILNIKGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGAT 126 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 LTV G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+ Sbjct: 127 FHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLT 186 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 M I TDGSI +++++LA++IL + L +F+N + K + + + L +EE Sbjct: 187 MEIWTDGSIIAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 246 Query: 263 LELSVRSTNCLR 274 L+LSVRS NCL+ Sbjct: 247 LDLSVRSYNCLK 258 >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 = 231 bits (588), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 131/325 (40%), Positives = 200/325 (61%), Gaps = 22/325 (6%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNAKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ +E+ +I+ + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGL-------AREL--NIDAEGI 232 Query: 251 PFNPA---------LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 P+ L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG K Sbjct: 233 DMGPSPTDAALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAK 292 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPP 326 S+ E+K L MGL L + P + P Sbjct: 293 SIDEVKAKLAGMGLALKDSPPGFDP 317 >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 = 231 bits (588), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 127/313 (40%), Positives = 194/313 (61%), Gaps = 16/313 (5%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+TD Sbjct: 16 DNRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+KG+ + D + + K+GPG VTAGDI + V NPD I L+ + Sbjct: 76 IILNLKGLVVNSEEDEPVTMYVRKQGPGAVTAGDIVPPAGVTVNNPDLHIATLNDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 136 IELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDRLVLD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNPAL 256 ++T SIT D++A A + L + G+ +N E P + I LP Sbjct: 196 VETKNSITARDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFGLP----- 250 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E+L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L ++GL Sbjct: 251 ---IEDLDLTVRSYNCLKREGVHTVGELVGRTESDLLDIRNFGQKSIDEVKVKLHSLGLS 307 Query: 317 LGMNLPDWPPESI 329 L + + P ++ Sbjct: 308 LKDSPASFDPTTV 320 >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 = 231 bits (588), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 117/252 (46%), Positives = 169/252 (67%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ Sbjct: 7 EDKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDV 66 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILNIKG+ LKM GD K + I GP VTAGDI +D+E+LN D IC + A Sbjct: 67 AQIILNIKGLALKMYGDEEKTLEIDISGPATVTAGDIIVDSDVEILNKDMYICTVSEGAT 126 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+ Sbjct: 127 FHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLT 186 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 M I TDGSI ++++L+++I+ + L +F+N + K + + + L +EE Sbjct: 187 MEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 246 Query: 263 LELSVRSTNCLR 274 L+LSVRS NCL+ Sbjct: 247 LDLSVRSYNCLK 258 >gi|153012268|gb|ABS50355.1| DNA-directed RNA polymerase alpha chain [Enterococcus thailandicus] Length = 250 Score = 231 bits (588), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 117/245 (47%), Positives = 165/245 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNI Sbjct: 5 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNI 64 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM G K + I GP VTAGDI +D+E+LN D IC++ A LTV Sbjct: 65 KGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHARLTV 124 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDG Sbjct: 125 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDG 184 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI ++++L+++I+ + L +F+N + K + + + L +EEL+LSVRS Sbjct: 185 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEELDLSVRS 244 Query: 270 TNCLR 274 NCL+ Sbjct: 245 YNCLK 249 >gi|161511763|emb|CAP16892.1| DNA-directed RNA polymerase subunit alpha [Pediococcus parvulus] Length = 264 Score = 231 bits (588), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 116/254 (45%), Positives = 169/254 (66%), Gaps = 2/254 (0%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+ Sbjct: 10 ENANYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDV 69 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILNIK ++LK+ D K + I +GP VTAGDIQ +D+E+LNPD IC + Sbjct: 70 TQIILNIKKVSLKIESDDEKSLEINVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVT 129 Query: 143 VRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 LT G GYV A ++ D PIG++ ID++Y+PI++V+Y VE+ R GQ DYDK Sbjct: 130 FHAVLTADTGRGYVSADENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDK 189 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L++ + TDGSI+ ++ +L+++IL + L +F+N + ++ + + + L + Sbjct: 190 LTLDVWTDGSISPSEATSLSAKILTEHLALFVNLTDEAQDAEIMVEKEETHKEKMLEMSI 249 Query: 261 EELELSVRSTNCLR 274 EEL+LSVRS NCL+ Sbjct: 250 EELDLSVRSYNCLK 263 >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 = 231 bits (588), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 123/305 (40%), Positives = 192/305 (62%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ENR+ + EPL GF +T+GN+LRR L+SS+ GAA+T+++I+GVLHE +++ GV ED+TD Sbjct: 16 ENRSRFVLEPLEPGFGYTIGNSLRRTLLSSIPGAAVTSIRIEGVLHEFTTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+KG+ + D + + K+GPG VTAGDI +EV NPD I L+ + Sbjct: 76 IILNLKGLVVSSVEDEPVTMYLKKQGPGAVTAGDIVPPAGVEVHNPDLHIATLNEKGRLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 136 IELVVERGRGYVPAGLNKDAGHEIGRIPVDSIYSPVLKVTYKVEATRVHQRTDFDRLVLD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 ++T S+T D++A A + L + G+ E + ++ + A +++L+ Sbjct: 196 VETKNSMTARDALASAGKTLVELFGLARELNEEAEGIEIGPSPAEADHIAAYGMPIDDLD 255 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 LSVRS NCL+ E + +G+L+ R+E+D+L + NFG+KS+ E+K L +GL L P + Sbjct: 256 LSVRSYNCLKREGVHTVGELVARSESDLLDIRNFGQKSIDEVKVKLVELGLSLKDAPPGF 315 Query: 325 PPESI 329 P S+ Sbjct: 316 DPASV 320 >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 = 231 bits (588), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 128/313 (40%), Positives = 192/313 (61%), Gaps = 16/313 (5%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ENR+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+TD Sbjct: 16 ENRSKFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+KG+ + D + + K+GPG VTAGDI + V NPD I L+ + Sbjct: 76 IILNLKGLVVSSEEDEPVTMYVRKQGPGTVTAGDIVPPAGVVVHNPDMHIATLNDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 136 IELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDRLILD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNPAL 256 ++T SI+ D++A A + L + G+ +N E P + I LP Sbjct: 196 VETKNSISARDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFGLP----- 250 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E+L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL Sbjct: 251 ---IEDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKVKLHALGLS 307 Query: 317 LGMNLPDWPPESI 329 L + + P S+ Sbjct: 308 LKDSPASFDPSSV 320 >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 = 231 bits (588), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 121/288 (42%), Positives = 188/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+GVLHE S+I V ED++ I++NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEGVLHEFSAIDHVVEDVSTIVMNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I + G VTA DI +D+E+LNPD I + +++ L Sbjct: 83 KKLALKIYSEEDKTLEIDIKEEGEVTAKDIMHDSDVEILNPDLKIATVSKGGHLKLRLVA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + G GY A + + + PIG+I +D+LYSP+++V+YTVE+ R GQ D+DKL++ + TDG Sbjct: 143 NTGRGYALADQNNSSDLPIGVIPVDSLYSPVERVNYTVENTRVGQSSDFDKLTLDVWTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SIT ++SV+LA++I+ + L +F+ + + + I + L +EEL+LSVRS Sbjct: 203 SITPQESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEKEEDQKEKVLEMSIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++EADM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVKYKLEDLGLGL 310 >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 = 230 bits (587), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 124/298 (41%), Positives = 188/298 (63%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRRVL+SSL G AIT++++DGV HE S++ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGLTVGNALRRVLLSSLEGFAITSLRLDGVEHEFSTVSGVVEDVTEIILNLKQVR 87 Query: 94 LKMSGDSHKR--VTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + R V+I G TAGD+Q ++ +VLNPD VICN+D + E+T+ Sbjct: 88 FKKQIEETDRETVSISVSGQEQFTAGDLQKFISGFQVLNPDLVICNMDKSVKLNAEITIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG G+VPA+ ++ + PIG I D++Y+PIK V Y VE+ R Q DY+KL IDTDGS Sbjct: 148 KGRGFVPAEENKKASAPIGTIFTDSIYTPIKNVKYAVENFRVEQKTDYEKLVFDIDTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I+ +D++ A++IL +F I E + E + +SL L ++ +++LS Sbjct: 208 ISPKDALTEAAKILIHHFMLFSDERITLEADEIAQTETYDEESLHMRQLLKTRLIDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ ++D+++ NFG+KSL E++ ++ GL GM+L + Sbjct: 268 VRALNCLKAAEVDTLGDLVSFNKSDLMKFRNFGKKSLTELEELVIVKGLSFGMDLSKY 325 >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 = 230 bits (587), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 123/297 (41%), Positives = 187/297 (62%), Gaps = 4/297 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 EN + EPL RG+ TLGN++RRVL+SSL GAA+ A+ IDGV HE S++ GV+ED+TD Sbjct: 16 ENLARVNVEPLERGYGDTLGNSMRRVLLSSLEGAAVEAISIDGVQHEFSTVDGVYEDVTD 75 Query: 85 IILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 I+LN+KG+ +G +I GP VT GD + + E++N DHVIC L + Sbjct: 76 IVLNVKGLVFHANGSGETAEASISIDGPCTVTGGDFKIPAEFELINKDHVICTLGEGGHL 135 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 M + + G GYV + + DPIG+I +D+LYSP+++ + TVE R GQ +YD+L + Sbjct: 136 AMRMRIGVGRGYVSGDDNERDEDPIGVIHVDSLYSPVRRCAKTVEPCRVGQHTNYDRLIL 195 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS---LPFNPALLKKV 260 I+T+GSI+ D+V A+ I+ + F++ E ++E +ED+++ S N L K++ Sbjct: 196 EIETNGSISPRDAVIEAADIINQHMAAFMDLAEDEEEPQEDVSIFSNEEEEENTELDKQI 255 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 E+L+LSVRS NCL+ I + L++ +E D+L + NFG KS+ E++ L GL L Sbjct: 256 EDLDLSVRSYNCLKRAGIHNVRQLVEFSENDLLNIRNFGVKSIEEVRDKLEDAGLGL 312 >gi|329314907|gb|AEB89320.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus T0131] Length = 314 Score = 230 bits (587), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 121/288 (42%), Positives = 189/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+GVLHE S++ V ED++ II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEGVLHEFSAVDNVVEDVSTIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I R G VTA DI +D+E+LNP+ I + +++ L Sbjct: 83 KQLALKIYSEEDKTLEIDVRDEGEVTASDITHDSDVEILNPELKIATVSKGGHLKIRLVA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GY A+ + T + PIG+I +D+LYSP+++V+YTVE+ GQ D+DKL++ + T+G Sbjct: 143 NKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTVENTCVGQSSDFDKLTLDVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SIT ++SV+LA++I+ + L +F+ + + + I + L +EEL+LSVRS Sbjct: 203 SITPQESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEKEEDQKEKVLEMSIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++EADM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVKYKLEDLGLGL 310 >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 = 230 bits (587), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 120/288 (41%), Positives = 190/288 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL G+A+ ++I+GVLHE S++ V ED++ II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGSAVKYIEIEGVLHEFSAVDNVVEDVSTIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I + G VTA DI +D+E+LNP+ I + +++ L Sbjct: 83 KKLALKIYSEEDKTLEIDVKDEGEVTASDITHDSDVEILNPELKIATVSKGGHLKVRLVA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GY A+ + T + PIG+I +D+LYSP+++V+YTVE+ R GQ D+DKL++ + T+G Sbjct: 143 NKGRGYALAETNNTSDLPIGVIPVDSLYSPVERVNYTVENTRVGQSSDFDKLTLDVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SIT ++SV+LA++I+ + L +F+ + + + I + L +EEL+LSVRS Sbjct: 203 SITPQESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEKEEDQKEKVLEMSIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L ++EADM+++ N GRKSL E+K L +GL L Sbjct: 263 YNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVKYKLEDLGLGL 310 >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 = 230 bits (587), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 126/314 (40%), Positives = 193/314 (61%), Gaps = 16/314 (5%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 + R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+TD Sbjct: 16 DARSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+KG+ + D + + K+GPG VTAGDI + V NPD I L+ + Sbjct: 76 IILNLKGLVVSSEDDEPVTMYVRKQGPGAVTAGDIVPPASVTVHNPDLHIATLNDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 136 IELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDRLILD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNPAL 256 ++T S+T D++A A + L + G+ +N E P + I SLP Sbjct: 196 VETKNSMTARDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIAAFSLP----- 250 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E+L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL Sbjct: 251 ---IEDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKVKLHALGLA 307 Query: 317 LGMNLPDWPPESIE 330 L + + P ++ Sbjct: 308 LKDSPASFDPSQVD 321 >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 = 230 bits (587), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 130/306 (42%), Positives = 193/306 (63%), Gaps = 5/306 (1%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 R+ I EPL GF +TLGN+LRR L+SS+ GAA+T+V+IDGVLHE ++I GV ED++DII Sbjct: 18 RSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVKIDGVLHEFTTINGVKEDVSDII 77 Query: 87 LNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 LNIKG L +S DS + V ++ K G GVV+AGDI+ +E+ NPD I L+ + Sbjct: 78 LNIKG--LVLSSDSDEPVVMYLRKEGAGVVSAGDIEPPAGVEIHNPDLHIATLNEQGRLD 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +E+ V +G GYVPA + N+ IG I +D +YSP+ KVSY VE+ R Q D+DKL + Sbjct: 136 IEMIVERGRGYVPASLYAGTNE-IGRIPVDQIYSPVLKVSYKVEATRVEQRTDFDKLIID 194 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 ++T SI D++A A + L + G+ + ++ + + + A +E+L Sbjct: 195 VETKNSIAPSDALASAGKTLVELFGLARELNTAAEGIEIGPSPQETEYIAAYSMPIEDLN 254 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L +GLFL + D+ Sbjct: 255 FSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIKLAGLGLFLKDSPEDF 314 Query: 325 PPESIE 330 P +E Sbjct: 315 DPTQLE 320 >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 = 230 bits (587), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 132/325 (40%), Positives = 200/325 (61%), Gaps = 22/325 (6%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVLH Sbjct: 6 RPSLTEEVV----DEYRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TDIILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDIILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNGKGKLEMELTVERGRGYVSAVQNKQLGQEIGRIPIDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ +E+ +I+ + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGL-------AREL--NIDAEGI 232 Query: 251 PFNPA---------LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 P+ L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG K Sbjct: 233 DMGPSPTDAALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAK 292 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPP 326 S+ E+K L MGL L + P + P Sbjct: 293 SIDEVKAKLAGMGLALKDSPPGFDP 317 >gi|167946610|ref|ZP_02533684.1| DNA-directed RNA polymerase subunit alpha [Endoriftia persephone 'Hot96_1+Hot96_2'] Length = 280 Score = 230 bits (587), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 118/267 (44%), Positives = 176/267 (65%), Gaps = 4/267 (1%) Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++I+GV ED+ +I+LN+K + L M + + K+GPGVV+AGDI +DIE+ Sbjct: 11 VLHEYTAIEGVQEDVLEILLNLKQVALVMHSRDEAVLRLQKKGPGVVSAGDITLDHDIEI 70 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVS 184 NPD I L + M LTV +G GY P+ ++ E+ PIG++ +DA +SP+++V+ Sbjct: 71 ANPDLHIATLTKSGEINMTLTVKRGRGYQPSTARQSSAGEDRPIGMLQLDASFSPVRRVA 130 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y++ESAR Q + D+L + + TDG+I E+++ ++ IL+DQL +F++ E Sbjct: 131 YSIESARVEQRTNMDRLVIELQTDGTIDPEEAIRRSAGILRDQLSVFVDLEGGGAAEATA 190 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + +P LL+ V++LEL+VRS NCL+ ENI +GDLIQRTE ++L+ N G+KSL Sbjct: 191 EPEEPM-IDPILLRPVDDLELTVRSANCLKAENIFLIGDLIQRTEVELLKTPNLGKKSLT 249 Query: 305 EIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL GL LGM L WPPESI+E Sbjct: 250 EIKDVLARRGLSLGMRLEHWPPESIDE 276 >gi|328814003|gb|AEB52117.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 261 Score = 230 bits (587), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 120/254 (47%), Positives = 171/254 (67%), Gaps = 2/254 (0%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E +N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+ Sbjct: 6 ENDNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVTEDV 65 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILN+K I LK+ D K + I +GP VTAGDI D+EVLNPD IC + A Sbjct: 66 TAIILNVKKIALKLESDETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLPICTVADGAH 125 Query: 143 VRMELTVSKGHGYVPAK--HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 M +T + G GYV A+ HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DK Sbjct: 126 FHMRMTANTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDK 185 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L++ + T+GSIT ++++L+++IL D L +F+N + K + + L + Sbjct: 186 LTLDVWTNGSITPSEAISLSAKILTDHLSIFVNLTDEAKNTDVMVEKEETHKEKMLEMTI 245 Query: 261 EELELSVRSTNCLR 274 EEL+LSVRS NCL+ Sbjct: 246 EELDLSVRSYNCLK 259 >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 = 230 bits (587), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 123/298 (41%), Positives = 187/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRRVL+SSL G AIT+++IDGV HE S++ G+ ED+T+IILN+K + Sbjct: 28 PLEPGFGLTVGNALRRVLLSSLEGFAITSLRIDGVEHEFSTVSGIVEDVTEIILNLKQVR 87 Query: 94 LKMSGDSHKR--VTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K D R V++ G TAGD+Q ++ +VLNPD VICN+D + E+T+ Sbjct: 88 FKKQIDETDRETVSVSISGQEQFTAGDLQKFISGFQVLNPDLVICNMDKSVKLNAEITIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG G+VPA+ ++ + PIG I D++Y+PIK V Y +E+ R Q DY+KL IDTDGS Sbjct: 148 KGRGFVPAEENKKASAPIGTIFTDSIYTPIKNVKYAIENFRVEQKTDYEKLVFDIDTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A++IL +F I E + E + +SL L ++ +++LS Sbjct: 208 INPKDALTEAAKILIHHFMLFSDERITLEADEIAQTETYDEESLHMRQLLKTRLIDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ ++D+++ NFG+KSL E++ ++ GL GM+L + Sbjct: 268 VRALNCLKAAEVDTLGDLVSFNKSDLMKFRNFGKKSLTELEELVIVKGLSFGMDLTKY 325 >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 = 230 bits (586), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 128/289 (44%), Positives = 187/289 (64%), Gaps = 2/289 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGNALRRVL+SS+ GAA+T V+I+GVLHE S++ GV ED+ +IILN+ Sbjct: 23 FVIEPLVRGYGITLGNALRRVLLSSIPGAAVTMVKIEGVLHEFSTLPGVREDVVEIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 +G+ ++M D + + I G V A DI D+E+LNPDH I +L + + ME+TV Sbjct: 83 RGLKIRMHTDEERILRIEAAGEREVRARDIIADADVEILNPDHYIASLAPEGRLFMEMTV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYVPA R ++ IG I +DA +SP+KKV+Y VE+A GQ DYD+L + + T+G Sbjct: 143 RRGRGYVPADRQRHDH-VIGAIPVDADFSPVKKVNYRVENAWVGQNADYDRLILEVWTNG 201 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK-KVEELELSVR 268 + E++V+LA+RIL + + +++ + K LL+ +EEL+LSVR Sbjct: 202 CVRPEEAVSLAARILCEHFQLLTGLSTSTGHLEKIMVEKEEDNKNRLLEMPIEELDLSVR 261 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 S NCL+ I + DL QRTE +M+++ N G+KSL E+K L +GL L Sbjct: 262 SYNCLKRAGINTILDLTQRTEEEMMKVRNLGKKSLEEVKQKLAELGLSL 310 >gi|110589176|gb|ABG77097.1| DNA-directed RNA polymerase alpha subunit [Endoriftia persephone 'Hot96_1+Hot96_2'] Length = 303 Score = 230 bits (586), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 118/267 (44%), Positives = 176/267 (65%), Gaps = 4/267 (1%) Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++I+GV ED+ +I+LN+K + L M + + K+GPGVV+AGDI +DIE+ Sbjct: 34 VLHEYTAIEGVQEDVLEILLNLKQVALVMHSRDEAVLRLQKKGPGVVSAGDITLDHDIEI 93 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVS 184 NPD I L + M LTV +G GY P+ ++ E+ PIG++ +DA +SP+++V+ Sbjct: 94 ANPDLHIATLTKSGEINMTLTVKRGRGYQPSTARQSSAGEDRPIGMLQLDASFSPVRRVA 153 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y++ESAR Q + D+L + + TDG+I E+++ ++ IL+DQL +F++ E Sbjct: 154 YSIESARVEQRTNMDRLVIELQTDGTIDPEEAIRRSAGILRDQLSVFVDLEGGGAAEATA 213 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + +P LL+ V++LEL+VRS NCL+ ENI +GDLIQRTE ++L+ N G+KSL Sbjct: 214 EPEEPM-IDPILLRPVDDLELTVRSANCLKAENIFLIGDLIQRTEVELLKTPNLGKKSLT 272 Query: 305 EIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL GL LGM L WPPESI+E Sbjct: 273 EIKDVLARRGLSLGMRLEHWPPESIDE 299 >gi|328813997|gb|AEB52114.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 270 Score = 230 bits (586), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 120/254 (47%), Positives = 171/254 (67%), Gaps = 2/254 (0%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E +N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+ Sbjct: 10 ENDNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVTEDV 69 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILN+K I LK+ D K + I +GP VTAGDI D+EVLNPD IC + A Sbjct: 70 TAIILNVKKIALKLESDETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLPICTVADGAH 129 Query: 143 VRMELTVSKGHGYVPAK--HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 M +T + G GYV A+ HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DK Sbjct: 130 FHMRMTANTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDK 189 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L++ + T+GSIT ++++L+++IL D L +F+N + K + + L + Sbjct: 190 LTLDVWTNGSITPSEAISLSAKILTDHLSIFVNLTDEAKNTDVMVEKEETHKEKMLEMTI 249 Query: 261 EELELSVRSTNCLR 274 EEL+LSVRS NCL+ Sbjct: 250 EELDLSVRSYNCLK 263 >gi|328814021|gb|AEB52126.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 262 Score = 230 bits (586), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 117/259 (45%), Positives = 173/259 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+I GV ED+T IILNI Sbjct: 4 FVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIPGVREDVTQIILNI 63 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ + K + I GP VTAGDI +D+E+LN D VIC++ A LTV Sbjct: 64 KGLALKLYAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDLVICSVAEGATFHARLTV 123 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDG Sbjct: 124 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDG 183 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI +++++LA++I+ + L +F+N + K + + + L +EEL+LSVRS Sbjct: 184 SIIPQEALSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEELDLSVRS 243 Query: 270 TNCLRGENIVYMGDLIQRT 288 NCL+ I + +L ++ Sbjct: 244 YNCLKRAGINTVQELTNKS 262 >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 = 230 bits (586), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 121/302 (40%), Positives = 189/302 (62%), Gaps = 4/302 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ENR+ + EPL GF +TLGN+LRR L+SS+ GA++T+++IDGVLHE +++ GV ED+T+ Sbjct: 16 ENRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRIDGVLHEFTTVAGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 ++LNIK +++ D + K+GPG+VTA DI +E NPD I L+ + Sbjct: 76 LVLNIKNLSVSSEHDEPVVAYLRKQGPGIVTAADITPPAGVEFHNPDLHIATLNANGKFD 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ R Q D+D+L + Sbjct: 136 MELTIERGRGYVSAAQNKSADGEIGRIPVDSIYSPVLKVTFRVEATRVEQRTDFDRLIVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 ++T SIT D+VA A L + G+F + ++ + + +E+LE Sbjct: 196 VETKESITPRDAVASAGTTLVELFGLFRELNTQAEGIEIGPSPTDAAMAADMALPIEDLE 255 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L + LG+ L D Sbjct: 256 LTVRSYNCLKREGIHSVGELVTRSEADLMDIRNFGAKSIDEVKAKL----VELGLALKDS 311 Query: 325 PP 326 PP Sbjct: 312 PP 313 >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 = 230 bits (586), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 134/320 (41%), Positives = 193/320 (60%), Gaps = 15/320 (4%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V+ E+ R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+IDGV H Sbjct: 6 RPTLTEEVVV---EDRRSRFVLEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRIDGVPH 62 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +I GV ED+ IILNIK I L D + + K GP VTAGDI +E+ NP Sbjct: 63 EFRTIPGVKEDVAQIILNIKEIVLSSENDEPVVMYLRKSGPSEVTAGDITPPAGVEIHNP 122 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D VI L+ + +ELTV +G GYV A ++ N I I +D++YSP+KKVSY+VE+ Sbjct: 123 DLVIATLNEKGKLEIELTVERGRGYVSANQNKDPNAEISRIPVDSIYSPVKKVSYSVEAT 182 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVK 248 R Q D+D+L + ++T SIT D++A A + L + G+ +N E E I V Sbjct: 183 RVEQRTDFDRLIVDVETKSSITPRDALASAGKTLVELFGLARELNVE------AEGIEVG 236 Query: 249 SLPFNPALLKK----VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 P + A + ++EL+L RS+N L+ E I +G+L+ R+EAD+L + NFG KS+ Sbjct: 237 PSPIDEAFQQDLALMIDELDLQARSSNALKREGIHTVGELVSRSEADLLDIRNFGAKSIS 296 Query: 305 EIKGVLGTMGLFLGMNLPDW 324 EIK L +GL L + D+ Sbjct: 297 EIKDKLAELGLSLKGSPVDY 316 >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 = 230 bits (586), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 125/298 (41%), Positives = 188/298 (63%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI V+IDGV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGVTIGNALRRILLSSLEGYAINTVRIDGVEHEFSSVPGVREDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNPD VIC+LD A ++++LTV+ Sbjct: 88 FKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGFEVLNPDLVICHLDSKASMQIDLTVN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + ++ ID++Y+PI+ V Y+VE R Q DYDKL + I TDGS Sbjct: 148 KGRGYVPADENRQFCTDVNVLPIDSIYTPIRNVKYSVEPTRVEQKTDYDKLCIEITTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A++IL +F I E+P K+ ++ + + L L K+ +L LS Sbjct: 208 IHPKDALNEAAKILIYHFMLFSDEKITLEDPNKDGNQEFDEEVLRMRQLLKTKLLDLNLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKKSLSELDDLLESLNLSFGTDISKY 325 >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 = 230 bits (586), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 131/325 (40%), Positives = 200/325 (61%), Gaps = 22/325 (6%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVLH Sbjct: 6 RPSLTEEVV----DEYRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TDIILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDIILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNGKGKLEMELTVERGRGYVSAVQNKQLGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ +E+ +I+ + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGL-------AREL--NIDAEGI 232 Query: 251 PFNPA---------LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 P+ L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG K Sbjct: 233 DMGPSPTDAALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAK 292 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPP 326 S+ E+K L MGL L + P + P Sbjct: 293 SIDEVKAKLAGMGLALKDSPPGFDP 317 >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 = 230 bits (586), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 122/302 (40%), Positives = 191/302 (63%), Gaps = 9/302 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +A+PL RG+ TLGN +RRVL++SL G AIT +++DGV HE S+I+GV ED+ +I+LN+ Sbjct: 25 FVAQPLERGYGVTLGNMMRRVLLASLPGTAITGIKVDGVFHEFSAIEGVREDVPEIVLNL 84 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV-NDIEVLNPDHVICNLDVDAVVRMELT 148 K + + + + T+ GP TAGDI + + +VLN D I ++ + + +++ Sbjct: 85 KKVRFRSTCKRSCKTTLTITGPKDFTAGDIVAMEGEFDVLNKDLHIATVNEGSTLNIDVF 144 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V +G GY PA+ +R E+ PIG I IDA+Y+PI+ V VE+ R GQ DY+K+ + ++TD Sbjct: 145 VGRGRGYTPAEDNRPESMPIGYIAIDAIYTPIRNVKVAVENTRVGQRTDYEKMVLDVETD 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEV------KEDINVKSLPFNPALLKKVEE 262 GSIT +DS++LA RI+ + + F +F ++E ++D +++ L K+E+ Sbjct: 205 GSITPDDSISLAGRIINEHVAFFADFSPTEEEFTEEEFKQQDDEFEAM--RKLLNTKIED 262 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL E+K L L GM++ Sbjct: 263 LDLSVRSHNCLRLAEIDSIGDLVSRKEDELLNYKNFGKKSLTELKEQLEKFELKFGMDIT 322 Query: 323 DW 324 + Sbjct: 323 KY 324 >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 = 229 bits (585), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 126/313 (40%), Positives = 192/313 (61%), Gaps = 16/313 (5%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ENR+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T+ Sbjct: 16 ENRSKFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTN 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+KG+ + D + + K+GPG VT DI + V NPD I L+ + Sbjct: 76 IILNLKGLVVSSEEDEPVTMYVRKQGPGAVTGADIVPPAGVTVHNPDLHIATLNDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 136 IELVVERGRGYVPAVQNKATGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDRLVLD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNPAL 256 ++T S+T D++A A + L + G+ +N E P + + I SLP Sbjct: 196 VETKNSMTARDALASAGKTLVELFGLARELNVEAEGIEIGPSPQEADHIAAFSLP----- 250 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E+LEL+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L ++GL Sbjct: 251 ---IEDLELTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKVKLHSLGLA 307 Query: 317 LGMNLPDWPPESI 329 L + + P + Sbjct: 308 LKDSPASFDPSQV 320 >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 = 229 bits (585), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 120/314 (38%), Positives = 199/314 (63%), Gaps = 7/314 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 +++ Q +E + PL G+ T+GNALRR+L+SSL G AI++V+I+GV HE +++KG Sbjct: 12 VIMIQSDERKGQFEFRPLEPGYGITVGNALRRILLSSLEGYAISSVRIEGVDHEFATLKG 71 Query: 78 VHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVI 134 V ED+T+I+LN+K + K + G ++ V + G +TAGD+ + + +VLNPD VI Sbjct: 72 VVEDVTEIVLNLKQVRFKQQIEGTDNETVVVSISGQDKLTAGDLGKFTSGFQVLNPDLVI 131 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 CN++ + +ELT+ KG GY+PA+ +++ N P G I ID++++PI V YT+E+ R Q Sbjct: 132 CNMESSVKLELELTIIKGRGYLPAEENKSGNAPFGTIAIDSIFTPIVNVKYTIENYRVEQ 191 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSL 250 DY+KL + + TDGSI +D++ A++IL +F I + K E+ + SL Sbjct: 192 KTDYEKLVLELTTDGSIHPKDALKEAAKILIHHFMLFSDERITLDSEVKSETEEFDETSL 251 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L K+ +++LSVR+ NCL+ ++ +GDL+ + D+L+ NFG+KSL E++ ++ Sbjct: 252 HMRQLLKTKLVDMDLSVRALNCLKAADVETLGDLVSYNKNDLLKFRNFGKKSLTELEDLV 311 Query: 311 GTMGLFLGMNLPDW 324 + GL GMN+ + Sbjct: 312 DSKGLNFGMNVAKY 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 = 229 bits (585), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 124/301 (41%), Positives = 192/301 (63%), Gaps = 7/301 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRV++SSL G AIT+V+ID V HE S+I GV ED+T+IILN+K + Sbjct: 28 PLEPGYGLTIGNALRRVMLSSLEGYAITSVKIDTVEHEFSTIAGVVEDVTEIILNLKQVR 87 Query: 94 LKMS--GDSHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K+ G H++ +I G +TAGD Q + +VLNPD VICN++ + ++M++T+ Sbjct: 88 FKLQTEGTDHEKASISVTGKKQLTAGDFQKFITGFQVLNPDLVICNMEPEVEIKMDITID 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYV A+ + N P+G I DA+++PIK V Y++E+ R Q DY+KL I TDGS Sbjct: 148 KGMGYVSAEENAKPNMPVGTIPTDAIFTPIKNVKYSIENYRVEQKTDYEKLIFEIKTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMFINFE---EPKKEVK-EDINVKSLPFNPALLKKVEELELS 266 I +D++ A++ L +F + EP++ V+ E + +SL L K+ +++LS Sbjct: 208 IHPKDALMEAAKTLIHHFMLFSDERITIEPEEVVQPESYDEESLHMRQLLKTKLIDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 VR+ NCL+ + +GDL+ T+ D+++ NFG+KSL E+ ++ + GL GM+L + Sbjct: 268 VRALNCLKAAEVDTLGDLVSFTKTDLMKFRNFGKKSLTELDELVESKGLTFGMDLSKYKL 327 Query: 327 E 327 E Sbjct: 328 E 328 >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 = 229 bits (585), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 132/308 (42%), Positives = 197/308 (63%), Gaps = 8/308 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ENRT EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T+ Sbjct: 16 ENRTRFAIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILNIK NL +S ++ + V ++ K+G G VTA DI +EV NPD I L+ Sbjct: 76 IILNIK--NLVVSSENDEPVVMYLRKQGAGAVTAADIVPPAGVEVHNPDLHIATLNDKGK 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +ELTV +G GYV A +++ + IG I +D++YSP+ KV+Y VE+ R Q D+DKL Sbjct: 134 LEIELTVERGRGYVSAAQNKSLDAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDKLI 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKV 260 + ++T +IT D++A A + L + G+ +N E E+ +L + AL + Sbjct: 194 VDVETKPAITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPTDSALAADLAL--PI 251 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 EEL L++RS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L +GL L + Sbjct: 252 EELNLTIRSYNCLKREGIHQVGELVARSEADLLDIRNFGAKSINEVKEKLAELGLALKDS 311 Query: 321 LPDWPPES 328 D+ P + Sbjct: 312 PLDFDPSA 319 >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 = 229 bits (585), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 128/316 (40%), Positives = 190/316 (60%), Gaps = 16/316 (5%) 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK------EV 241 ES R G+ D+DKL++ I T+GSI D++ A+R+L + F + + + E Sbjct: 179 ESTRVGKREDFDKLTLEIWTNGSIAPNDALNFAARVLVEHFKAFESADAAAEIGEVMVEQ 238 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + D K L +E+L+LSVRS NCL+ I + DL ++EA+M+R+ N GRK Sbjct: 239 ENDQKEKKLEMT------IEDLDLSVRSYNCLKRAGINTLQDLTVKSEAEMMRVRNLGRK 292 Query: 302 SLVEIKGVLGTMGLFL 317 SL E+K L +GL L Sbjct: 293 SLEEVKNKLADLGLSL 308 >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 = 229 bits (585), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 125/287 (43%), Positives = 194/287 (67%), Gaps = 1/287 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE S+I GV ED T+IILNI Sbjct: 23 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFSTIPGVLEDTTEIILNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L +G K + + ++GP V A DI ++E+LNPD + +LD D V +E+TV Sbjct: 83 KKLVLSYTGSERKIIRLEQQGPKEVKASDITPDAEVEILNPDLHLASLDEDGKVEIEMTV 142 Query: 150 SKGHGYVPAKHHRTENDPI-GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 +G GYV + +ND I GLI ID++++P+ +V+YTVE+AR G+ DYD+L++ + T+ Sbjct: 143 ERGRGYVSSDQQPQKNDDIVGLIPIDSIFTPVSRVNYTVENARVGKRTDYDRLNLEVWTN 202 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 GSI+ E++++L+++IL + L +F ++ EV+ + + + L +EELELSVR Sbjct: 203 GSISPEEAISLSAQILIEYLKLFTEIDDTYAEVEILVEKEEEKKDKILEMSIEELELSVR 262 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 ++N L+ +I +GDLI + +M ++ N G+KSL EI+ L + L Sbjct: 263 ASNGLKRASINTVGDLIAKNREEMSKIRNLGQKSLEEIERKLKELNL 309 >gi|91200694|emb|CAJ73745.1| strongly similar to DNA-directed RNA polymerase, alpha chain [Candidatus Kuenenia stuttgartiensis] Length = 338 Score = 229 bits (585), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 127/312 (40%), Positives = 190/312 (60%), Gaps = 15/312 (4%) Query: 25 ENRTL------MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 EN TL IA P RGF HT+GN+LRR+L+SSL G+A+ +V+I+GV HE +++ GV Sbjct: 17 ENETLTDRYGKFIAAPFERGFGHTIGNSLRRILLSSLEGSAVVSVKIEGVAHEFTNVPGV 76 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ DIILNIK + +KM D K + I G VT DI T ++EV+N D I L Sbjct: 77 IEDVADIILNIKNLIVKMHSDQPKIIKIEANKKGKVTGKDIITDENVEVVNDDLHIATLS 136 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D +E+ V KG GYV A + E+ IGLI++D+ +SP++ V Y E R G+ +Y Sbjct: 137 EDMAFNVEMEVRKGRGYVTADENEAEDQEIGLISVDSFFSPVRNVRYVTEETRVGRRTNY 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE---------DINVKS 249 D+L + I T+G++T E ++ A+ I + L FI + E +E+++ ++ S Sbjct: 197 DRLILEIWTNGTVTPEMALVEAAMITRKHLNPFIQYFEIGRELQQIEKNMSAECISDMSS 256 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 FN L + EL+LSVR++NCL NIV +GDL+ +TE D+L++ NFG+ ++ E+K Sbjct: 257 EEFNRTLSMPIAELDLSVRASNCLETVNIVTVGDLVVKTEDDLLQIKNFGKTTMKELKKK 316 Query: 310 LGTMGLFLGMNL 321 L + L +GM L Sbjct: 317 LSQLNLAIGMPL 328 >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 = 229 bits (585), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 127/313 (40%), Positives = 191/313 (61%), Gaps = 16/313 (5%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR+ + EPL GF +TLGN+LRR L+SS+ GAAIT+++IDGVLHE +++ GV ED+TD Sbjct: 16 DNRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAITSIRIDGVLHEFTTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+KG+ + D + + K+GPG VT DI + V NPD I L+ + Sbjct: 76 IILNLKGLVVSSEEDEPVTMYVRKQGPGTVTGADIVPPAGVTVHNPDLHIATLNDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 136 IELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDRLVLD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNPAL 256 ++T SI+ D++A A + L + G+ +N E P + I SLP Sbjct: 196 VETKNSISARDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFSLP----- 250 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E+LEL+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL Sbjct: 251 ---IEDLELTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKVKLHALGLS 307 Query: 317 LGMNLPDWPPESI 329 L + + P + Sbjct: 308 LKDSPASFDPSQV 320 >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 = 229 bits (585), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 123/305 (40%), Positives = 192/305 (62%), Gaps = 15/305 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +A+PL RG+ TLGN +RR L++SL G AIT ++IDGV HE S+I GV ED+ +I+LN+ Sbjct: 25 FVAQPLERGYGVTLGNVMRRALLASLPGTAITGLKIDGVFHEFSTINGVREDVPEIVLNL 84 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELT 148 K + + + + + ++ G TAGDI + EVLN D I ++ A +++++ Sbjct: 85 KKVRFRSNCKRNCKTSLVLNGQKEFTAGDIIAQEGEFEVLNKDLHIATVNEGATLKIDIF 144 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V +G GY+P++ +R + PIG I IDA+++PI+ V +TVE+ R GQ DY+K+ + ++TD Sbjct: 145 VGRGRGYLPSEENRPDGMPIGFIAIDAIFTPIRNVKFTVENTRVGQRTDYEKMILDVETD 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFE---------EPKKEVKEDINVKSLPFNPALLKK 259 GSIT +DS++LA +I+ + + F +F E K++ E N++ L FN K Sbjct: 205 GSITPDDSISLAGKIINEHVTFFADFSPTEEEFTEEEFKQQDDEFENMRKL-FNT----K 259 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +E+L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL E+K L L GM Sbjct: 260 IEDLDLSVRSHNCLRLAEIDTIGDLVSRKEDELLNYKNFGKKSLTELKEQLEKFDLKFGM 319 Query: 320 NLPDW 324 ++ + Sbjct: 320 DITKY 324 >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 = 229 bits (585), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 131/325 (40%), Positives = 200/325 (61%), Gaps = 22/325 (6%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPSLTEEVV----DEYRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ +E+ +I+ + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGL-------AREL--NIDAEGI 232 Query: 251 PFNPA---------LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 P+ L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG K Sbjct: 233 DMGPSPTDAALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAK 292 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPP 326 S+ E+K L MGL L + P + P Sbjct: 293 SIDEVKAKLAGMGLALKDSPPGFDP 317 >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 = 229 bits (585), Expect = 4e-58, Method: Compositional matrix adjust. Identities = 128/317 (40%), Positives = 189/317 (59%), Gaps = 18/317 (5%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + +R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV ED++ Sbjct: 15 DSSRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTIPGVKEDVS 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 DIILNIKG+ L D V + + G G VTA DI+ +E+ NPDH I L+ + Sbjct: 75 DIILNIKGLVLSSEFDEPATVYLRREGAGAVTAADIECPAGVEIHNPDHHIATLNESGRL 134 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +E+ V +G GYVPA + IG I +D +YSP+ KVSY VE+ R Q D+DKL + Sbjct: 135 EIEMIVERGRGYVPATPN--SGGEIGRIPMDQIYSPVLKVSYKVEATRVEQRTDFDKLII 192 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEE--------PKKEVKEDINVKSLPFNPA 255 ++T SIT D++A A + L + G+ E P ED+ P Sbjct: 193 DVETKNSITARDAMASAGKTLVELFGLARELNEAAEGIEIGPSPREAEDVAAYQTP---- 248 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 +E+L+ S+RS NCL+ E I +G+L RTE+D+L + NFG KS+ E+K L +GL Sbjct: 249 ----IEDLDFSMRSYNCLKREEIHTVGELAARTESDLLDIRNFGDKSINEVKEKLAELGL 304 Query: 316 FLGMNLPDWPPESIEEL 332 L + ++ P ++ +L Sbjct: 305 ALKDSPNNFDPAAVADL 321 >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 = 229 bits (584), Expect = 4e-58, Method: Compositional matrix adjust. Identities = 129/299 (43%), Positives = 191/299 (63%), Gaps = 5/299 (1%) Query: 24 EENRT-LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+NR + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE S+I GV +D+ Sbjct: 16 EDNRYGKFVCEPLERGYGTTLGNSLRRILLSSLPGAAITSIRIDGVLHEFSTIPGVRDDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T+I+LN+K + KM + + + + +G +TA DI T D+E+LNPD I L+ D Sbjct: 76 TNIVLNLKSLCFKMYSEEPRVLRLDVKGEKEITAADIITDPDVEILNPDLHIATLNEDGE 135 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + ME+ V +G GYV A+ ++ + IG+I ID+++SPI++V+YTV+ R G V DYDKL Sbjct: 136 LHMEMIVERGKGYVAAEKNKKPDHVIGVIPIDSIFSPIQRVNYTVQDTRVGNVTDYDKLI 195 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINF----EEPKKEVKEDINVKSLPFNPALLK 258 + + TDGSI E+ V+ A+ IL +F N E ++E + + L Sbjct: 196 LDVWTDGSIRPEEGVSRAASILISHFKLFQNMAGIPEIEEEEEIAPPEPEEPDASKVLET 255 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +++L+LSVRS NCL+ NI + DL+ +TE DM+++ N GRKSL E+K L L L Sbjct: 256 TIDDLDLSVRSFNCLKRANINTVADLVSKTEEDMMKVRNLGRKSLEEVKKKLEEYDLTL 314 >gi|309389906|gb|ADO77786.1| DNA-directed RNA polymerase subunit alpha [Halanaerobium praevalens DSM 2228] Length = 315 Score = 229 bits (584), Expect = 4e-58, Method: Compositional matrix adjust. Identities = 123/289 (42%), Positives = 194/289 (67%), Gaps = 2/289 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL GAA+T+V+++GV HE S+I GV ED+TD+ILN+K + Sbjct: 25 PLERGYGTTLGNSLRRILLSSLPGAALTSVKVEGVKHEFSAIPGVVEDMTDLILNLKEVV 84 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 +K SG+ + + G G +TAGD + D+EV+N +H + L + +E TV KG Sbjct: 85 VKYSGEEQTTIRLEAEGEGEITAGDFISAGDVEVVNKEHHVATLAEGGRLVLEATVDKGR 144 Query: 154 GYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A+ + EN+ IGLI ID+ YSPI++ ++ +E+ R GQV D+D+L + ++T+GSI Sbjct: 145 GYHTAEENEKLFENNVIGLIPIDSAYSPIERANFNIENTRVGQVTDFDRLVLEVNTNGSI 204 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTN 271 +D+++LA++I+ + L +FIN + ++V+ + V+ + L +EELELSVRS+N Sbjct: 205 HPDDAISLAAKIMVEHLELFINLTDEIEDVEIMVEVEEEEKDEILDTTIEELELSVRSSN 264 Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 CL+ I + +L+ RTE D++++ N G+KSL EI+ L + L L N Sbjct: 265 CLKRAGINTVEELVSRTEDDLMKVRNLGKKSLKEIEKKLDELELDLKEN 313 >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 = 229 bits (584), Expect = 4e-58, Method: Compositional matrix adjust. Identities = 122/302 (40%), Positives = 190/302 (62%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T+ Sbjct: 16 DNRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILNIK I + D + + K+GPGVVTA DI +EV NPD I ++ + Sbjct: 76 IILNIKNIVVSSENDEPVVMYLRKQGPGVVTAADITPPAGVEVHNPDLHIATVNGKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELTV +G GYV A+ ++ + IG I +D++YSP+ KV+Y VE+ R Q D+DKL + Sbjct: 136 VELTVERGRGYVSAQQNKAYDTEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDKLIVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 +++ +I+ D+VA A + L + G+ + ++ + L +E+L+ Sbjct: 196 VESKPAISPRDAVASAGKTLVELFGLARELNTAAEGIEIGPSPTDAALAADLALPIEDLD 255 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L++RS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L +GL L + D+ Sbjct: 256 LTIRSYNCLKREGIHQVGELVARSEADLLDIRNFGAKSITEVKEKLAALGLSLKDSPADF 315 Query: 325 PP 326 P Sbjct: 316 DP 317 >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 = 229 bits (584), Expect = 4e-58, Method: Compositional matrix adjust. Identities = 131/325 (40%), Positives = 200/325 (61%), Gaps = 22/325 (6%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ +E+ +I+ + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGL-------AREL--NIDAEGI 232 Query: 251 PFNPA---------LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 P+ L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG K Sbjct: 233 DMGPSPTDAALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAK 292 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPP 326 S+ E+K L MGL L + P + P Sbjct: 293 SIDEVKAKLAGMGLALKDSPPGFDP 317 >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 = 229 bits (584), Expect = 4e-58, Method: Compositional matrix adjust. Identities = 126/313 (40%), Positives = 193/313 (61%), Gaps = 16/313 (5%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T Sbjct: 16 DNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVAGVKEDVTA 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+KG+ + D + + K+GPG VTAGDI + V NP+ I L+ + Sbjct: 76 IILNLKGLVVSSEEDEPVTMYLRKQGPGAVTAGDIVPPAGVTVHNPEMHIATLNDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ R Q D+DKL + Sbjct: 136 VELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDATRVEQRTDFDKLILD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNPAL 256 ++T SIT D++A A + L + G+ +N E P + I +LP Sbjct: 196 VETKSSITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALP----- 250 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL Sbjct: 251 ---IDDLDLTVRSYNCLKREGVHTVGELVSRTESDLLDIRNFGQKSIDEVKVKLHQLGLS 307 Query: 317 LGMNLPDWPPESI 329 L + P + P + Sbjct: 308 LKDSPPSFDPSQV 320 >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 = 229 bits (584), Expect = 5e-58, Method: Compositional matrix adjust. Identities = 127/307 (41%), Positives = 192/307 (62%), Gaps = 4/307 (1%) 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 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 ++T SIT D++A A + L + G+ +N E E+ + AL +++ Sbjct: 196 VETKNSITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADQAAHFAL--PIDD 253 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL L + Sbjct: 254 LDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGLSLKDSPA 313 Query: 323 DWPPESI 329 + P + Sbjct: 314 SFDPSEV 320 >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 = 229 bits (584), Expect = 5e-58, Method: Compositional matrix adjust. Identities = 126/307 (41%), Positives = 193/307 (62%), Gaps = 4/307 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ENR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+TD Sbjct: 16 ENRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+KG L +S D + VT++ K+GPGVVTAGDI + V NPD I L+ Sbjct: 76 IILNLKG--LVVSSDDDEPVTMYLRKQGPGVVTAGDIVPPAGVTVHNPDMHIATLNDKGK 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+DKL Sbjct: 134 LEVELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDKLI 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + ++T SI+ D++A A L + G+ + ++ + + +++ Sbjct: 194 IDVETKNSISPRDALASAGGTLVELFGLARELNADSEHIEIGPSPAEADHIASFALPIDD 253 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL L + Sbjct: 254 LDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGLSLKDSPA 313 Query: 323 DWPPESI 329 + P + Sbjct: 314 TFDPSEV 320 >gi|311896536|dbj|BAJ28944.1| putative DNA-directed RNA polymerase subunit alpha [Kitasatospora setae KM-6054] Length = 340 Score = 229 bits (584), Expect = 5e-58, Method: Compositional matrix adjust. Identities = 127/316 (40%), Positives = 193/316 (61%), Gaps = 4/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPGVVTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGVVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 + V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 ELVLATLNGKGKLEMELTVERGRGYVSAVQNKASGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKPAMRPRDAMASAGKTLVELFGLARELNVDAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEELELTVRSYNCLKREGIHTVGELVARSEADLLDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPP 326 MGL L + P + P Sbjct: 302 AGMGLALKDSPPGFDP 317 >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 = 229 bits (584), Expect = 5e-58, Method: Compositional matrix adjust. Identities = 130/315 (41%), Positives = 197/315 (62%), Gaps = 20/315 (6%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ENR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+TD Sbjct: 16 ENRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+K +L +S + + VT++ K+GPG VTAGDI + V NPD I L+ Sbjct: 76 IILNLK--SLVVSSEEDEPVTMYLRKQGPGAVTAGDIVPPAGVTVHNPDMHIATLNDKGK 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+DKL Sbjct: 134 LEIELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYNVEATRVEQRTDFDKLV 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNP 254 + ++T SI+ D++A A + L + G+ +N E P + I +LP Sbjct: 194 LDVETKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALP--- 250 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +E+L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +G Sbjct: 251 -----IEDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLG 305 Query: 315 LFLGMNLPDWPPESI 329 L L + + P + Sbjct: 306 LSLKDSPTSFDPSEV 320 >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 = 229 bits (584), Expect = 5e-58, Method: Compositional matrix adjust. Identities = 123/302 (40%), Positives = 187/302 (61%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +TLGN+LRR L+SS+ GA++T+++IDGVLHE S++ GV ED+TD Sbjct: 16 EFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRIDGVLHEFSTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 +ILN+K + + D + + K+GPG VTA DI +EV NP+ + ++ + Sbjct: 76 VILNLKELVVSSDNDEPTVMYLRKQGPGEVTAADIAPPAGVEVHNPELHLATINDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ R Q D+DKL + Sbjct: 136 IELTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSPVLKVTYKVEATRVEQRTDFDKLIVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 ++T SI+ D++A A + L G+ + V + + L +EE++ Sbjct: 196 VETKPSISPRDAMASAGKTLVGLFGLAQELNAEAEGVDIGPSAQDAQLAADLALPIEEMD 255 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K LG MGL L + P + Sbjct: 256 LTVRSYNCLKREGIHTIGELVSRSEADLLDIRNFGQKSIDEVKTKLGAMGLQLKDSPPGF 315 Query: 325 PP 326 P Sbjct: 316 DP 317 >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 = 229 bits (583), Expect = 6e-58, Method: Compositional matrix adjust. Identities = 123/298 (41%), Positives = 186/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL+SSL G AIT+V+ID V HE S+I GV ED+T+IILN+K + Sbjct: 28 PLEPGYGLTIGNALRRVLLSSLEGFAITSVRIDKVDHEFSTISGVVEDVTEIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K D ++ V+I G +TAGD Q ++ +VLNPD VICN+D + ME+T+ Sbjct: 88 FKRQIDDIDNESVSISVSGKEQLTAGDFQKFISGFQVLNPDLVICNMDASVNINMEITIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ N P+G I D++Y+P+K V Y++E+ R Q DY+KL I TDGS Sbjct: 148 KGRGYVPAEENKKSNAPLGTIFTDSIYTPVKNVKYSIENYRVEQKTDYEKLVFEIITDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++ L +F I E + E + +SL L K+ +++LS Sbjct: 208 IHPKEALTEAAKTLIHHFMLFSDERITLEADEIAQTETYDEESLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ + D+++ NFG+KSL E++ ++ GL GM+L + Sbjct: 268 VRALNCLKAAEVDTLGDLVSYNKNDLMKFRNFGKKSLTELEELVNVKGLSFGMDLSKY 325 >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 = 229 bits (583), Expect = 6e-58, Method: Compositional matrix adjust. Identities = 128/316 (40%), Positives = 193/316 (61%), Gaps = 4/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNVDAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPP 326 MGL L + P + P Sbjct: 302 AGMGLALKDSPPGFDP 317 >gi|328813993|gb|AEB52112.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 253 Score = 228 bits (582), Expect = 7e-58, Method: Compositional matrix adjust. Identities = 119/252 (47%), Positives = 170/252 (67%), Gaps = 2/252 (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 MELTVSKGHGYVPAK--HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 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 LELSVRSTNCLR 274 L+LSVRS NCL+ Sbjct: 241 LDLSVRSYNCLK 252 >gi|328813995|gb|AEB52113.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 254 Score = 228 bits (582), Expect = 7e-58, Method: Compositional matrix adjust. Identities = 118/247 (47%), Positives = 168/247 (68%), Gaps = 2/247 (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 SKGHGYVPAK--HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 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 RSTNCLR 274 RS NCL+ Sbjct: 241 RSYNCLK 247 >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 = 228 bits (582), Expect = 7e-58, Method: Compositional matrix adjust. Identities = 137/324 (42%), Positives = 200/324 (61%), Gaps = 20/324 (6%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E I+ +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLTEEII----DEYRSRFLIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVL 128 E ++I GV ED+TD+ILNIK L +S + + VT++ K+GPG VTA DI +EV Sbjct: 62 EFTTIPGVKEDVTDLILNIK--QLVVSSEIDEPVTMYLRKQGPGTVTAADIAPPAGVEVH 119 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ +I L+ + MELTV +G GYV A ++ IG I ID++YSP+ KV Y VE Sbjct: 120 NPELIIATLNGKGKLEMELTVERGRGYVSAVQNKQAGQEIGRIPIDSIYSPVLKVKYDVE 179 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDIN 246 + R Q D+D+L + ++T S+ D+VA A + L + G+ +N E E I+ Sbjct: 180 ATRVEQRTDFDRLVLDVETKQSMRPRDAVASAGKTLVELFGLARELNIE------AEGID 233 Query: 247 VKSLP----FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + P L +E+LEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS Sbjct: 234 MGPSPTDAALAADLALPIEDLELTVRSYNCLKREGIHTVGELVARSEADLLDIRNFGAKS 293 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPP 326 + E+K L +MGL L + P + P Sbjct: 294 IDEVKVKLMSMGLALKDSPPGFDP 317 >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 = 228 bits (582), Expect = 7e-58, Method: Compositional matrix adjust. Identities = 128/316 (40%), Positives = 190/316 (60%), Gaps = 16/316 (5%) 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK------EV 241 ES R G+ D+DKL++ I T+GSI D++ A+R+L + F + + + E Sbjct: 179 ESTRVGKREDFDKLTLEIWTNGSIAPNDALNFAARVLVEHFKAFESADAAAEIGEVMVEQ 238 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + D K L +E+L+LSVRS NCL+ I + DL ++EA+M+R+ N GRK Sbjct: 239 ENDQKEKKLEMT------IEDLDLSVRSYNCLKRAGINTLQDLTVKSEAEMMRVRNLGRK 292 Query: 302 SLVEIKGVLGTMGLFL 317 SL E+K L +GL L Sbjct: 293 SLEEVKNKLADLGLSL 308 >gi|328813987|gb|AEB52109.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 262 Score = 228 bits (582), Expect = 7e-58, Method: Compositional matrix adjust. Identities = 119/252 (47%), Positives = 170/252 (67%), Gaps = 2/252 (0%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T Sbjct: 5 DNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVTEDVTA 64 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+K I LK+ D K + I +GP VTAGDI D+EVLNPD IC + A Sbjct: 65 IILNVKKIALKLESDETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLPICTVADGAHFH 124 Query: 145 MELTVSKGHGYVPAK--HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 M +T + G GYV A+ HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL+ Sbjct: 125 MRMTANTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDKLT 184 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + + T+GSIT ++++L+++IL D L +F+N + K + + L +EE Sbjct: 185 LDVWTNGSITPSEAISLSAKILTDHLSIFVNLTDEAKNTDVMVEKEETHKEKMLEMTIEE 244 Query: 263 LELSVRSTNCLR 274 L+LSVRS NCL+ Sbjct: 245 LDLSVRSYNCLK 256 >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 = 228 bits (582), Expect = 8e-58, Method: Compositional matrix adjust. Identities = 131/314 (41%), Positives = 196/314 (62%), Gaps = 20/314 (6%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+TD Sbjct: 16 ETRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+K L +S + + VT++ K+GPG VTAGDI + V NPD I L+ Sbjct: 76 IILNLK--ELVVSSEEDEPVTMYLRKQGPGPVTAGDIVPPAGVTVHNPDLHIATLNDKGR 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+DKL Sbjct: 134 LEVELVVERGRGYVPAMQNKATGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDKLV 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNP 254 + ++T SIT D++A A + L + G+ +N + P + + I ++P Sbjct: 194 LDVETKPSITPRDALASAGKTLVELFGLARELNVDAEGIEIGPSPQEADTIAAFAMP--- 250 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +EEL+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L +G Sbjct: 251 -----IEELDLTVRSYNCLKREGIHTVGELVGRSEADLLDIRNFGAKSIDEVKMKLVGLG 305 Query: 315 LFLGMNLPDWPPES 328 L L + P + P + Sbjct: 306 LALKDSPPGFDPSA 319 >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 = 228 bits (581), Expect = 9e-58, Method: Compositional matrix adjust. Identities = 127/316 (40%), Positives = 193/316 (61%), Gaps = 4/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNVDAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPP 326 MGL L + P + P Sbjct: 302 AGMGLALKDSPPGFDP 317 >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 = 228 bits (581), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 130/308 (42%), Positives = 194/308 (62%), Gaps = 5/308 (1%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL G+A T+GNALRRVL+SS+ G A+ V+I+GV HE S+I+GV ED+ +IILN+K + Sbjct: 29 EPLNEGYATTIGNALRRVLLSSIVGIAVVGVEIEGVEHEFSTIEGVKEDVLNIILNLKQV 88 Query: 93 NLKMSGDSHKR--VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K DS K V I K GPG V +GDI+ + +IE++N D I L A + ++ + Sbjct: 89 RFKALNDSFKEGEVYIHKEGPGSVVSGDIEALGNIEIVNKDIYIAELMDGAKLDAKIYLQ 148 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 +G GY A + N IG I +DAL+SPI +V+Y + + D++KL + I+TDG+ Sbjct: 149 RGIGYKQANYDAV-NREIGFIPVDALFSPIVRVAYHTKKSTMKDYYDFEKLVLEIETDGT 207 Query: 211 ITGEDSVALASRILQDQLGMF-INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 I +D++ AS IL + + +F +F+E ++ E+ N + N LLK VEELEL+VR+ Sbjct: 208 IMPQDALKQASYILGNYISIFSADFKETTQKEPEE-NKIDIQINENLLKPVEELELNVRA 266 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +NCL NI Y+ +L Q+T+ ++L NFG++SL EIK L +GL LGM E I Sbjct: 267 SNCLAAHNIKYIYELTQKTDTELLNTKNFGKQSLKEIKDSLKQLGLELGMKFSQEQLERI 326 Query: 330 EELAKKYE 337 ++L ++ E Sbjct: 327 QQLIEEKE 334 >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 = 228 bits (581), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 126/316 (39%), Positives = 192/316 (60%), Gaps = 4/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG + +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNAKGKLEMELTVERGRGYVSAVQNKQAGQEIGRVPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNVDAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPP 326 M L L + P + P Sbjct: 302 AGMSLALKDSPPGFDP 317 >gi|261876120|gb|ACY04590.1| DNA-directed RNA polymerase [Lactobacillus sp. DCY 50T] Length = 251 Score = 228 bits (581), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 118/249 (47%), Positives = 169/249 (67%), Gaps = 4/249 (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 TVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 T KG GYV A ++T N 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 SVRSTNCLR 274 SVRS NCL+ Sbjct: 241 SVRSYNCLK 249 >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 = 228 bits (581), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 126/307 (41%), Positives = 192/307 (62%), Gaps = 4/307 (1%) 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 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 ++T SI+ D++A A + L + G+ +N E E+ + AL +++ Sbjct: 196 VETKNSISPRDALASAGKTLVELFGLARELNIEAEGIEIGPSPAEADQAAHFAL--PIDD 253 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL L + Sbjct: 254 LDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGLSLKDSPA 313 Query: 323 DWPPESI 329 + P + Sbjct: 314 SFDPSEV 320 >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 = 228 bits (581), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 121/306 (39%), Positives = 191/306 (62%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV ED+T+ Sbjct: 16 EYRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTIAGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 I+LN+KG+ + D + + K+GPG VTA DI + + + PD I L+ + Sbjct: 76 IVLNVKGLEVSSVEDEPATLYLRKQGPGPVTAADIVAPSGVTITKPDTHIATLNDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MEL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 136 MELVVERGRGYVPAVQNKDSGAEIGRIPVDSIYSPVLKVTYQVEATRVEQRTDFDRLILD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 +++ SIT D+VA A + L + G+ + ++ S +L +E+L Sbjct: 196 VESKSSITPRDAVASAGKTLVELFGLARELNLAAEGIEIGAVAASTNNIASLALPIEDLH 255 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ E + +G+L+ R+E+D+L + NFG+KS+ E+K L T+GL L + ++ Sbjct: 256 LTVRSYNCLKREGVHTIGELVARSESDLLDIRNFGQKSIDEVKLKLYTLGLALKDSPANF 315 Query: 325 PPESIE 330 P +I+ Sbjct: 316 DPSNID 321 >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 = 228 bits (581), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 124/302 (41%), Positives = 186/302 (61%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVLHE S++ GV ED+TD Sbjct: 42 EFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVLHEFSTVPGVKEDVTD 101 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 +ILN+K + + D + + K+GPG VTA DI +EV NPD + L+ + Sbjct: 102 LILNLKELVVSSDNDEPTVMYLRKQGPGEVTAADIAPPAGVEVHNPDLHLATLNDKGKLE 161 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 162 IELTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSPVLKVTYKVEATRVEQRTDFDRLIVD 221 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 ++T SI+ D++A A + L G+ + V + L +EE++ Sbjct: 222 VETKQSISPRDAMASAGKTLVGLFGLAQELNAEAEGVDIGPSAADAALAADLALPIEEMD 281 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K LG MGL L + P + Sbjct: 282 LTVRSYNCLKREGIHTIGELVSRSEADLLDIRNFGQKSIDEVKTKLGAMGLQLKDSPPGF 341 Query: 325 PP 326 P Sbjct: 342 DP 343 >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 = 228 bits (581), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 134/317 (42%), Positives = 192/317 (60%), Gaps = 15/317 (4%) Query: 22 QEE---ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 QEE E R+ I EPL GF +T+GN+LRR L+SS+ GAA+T+++I+GVLHE S++ GV Sbjct: 10 QEEPLSEYRSRFILEPLEPGFGYTIGNSLRRTLLSSIPGAAVTSIRIEGVLHEFSTVPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+TDIILN+K + + D + + K+GPG VTA DI +EV NP+ I L+ Sbjct: 70 KEDVTDIILNLKQLVVSSEHDEPVVMYLRKQGPGEVTAADIAPPAGVEVHNPELHIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 A + MELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ R Q D+ Sbjct: 130 GKAKLEMELTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSPVLKVTYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----F 252 D+L + ++T SI D+VA A + L + G+ +N E E I + P Sbjct: 190 DRLILDVETKPSIKPRDAVASAGKTLVELFGLARELNVE------AEGIEIGPSPTDAAL 243 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 L +EEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L Sbjct: 244 AADLALPIEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLDIRNFGAKSIEEVKQKLAE 303 Query: 313 MGLFLGMNLPDWPPESI 329 MGL L + P + P ++ Sbjct: 304 MGLTLKDSPPGFDPATV 320 >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 = 228 bits (581), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 129/309 (41%), Positives = 192/309 (62%), Gaps = 7/309 (2%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + +R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV ED++ Sbjct: 15 DSSRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTINGVKEDVS 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +IILN+KG L +S DS + V ++ K GPG VTAGDIQ +E+ N D I +L+ A Sbjct: 75 EIILNVKG--LVLSSDSDEPVVMYLSKEGPGEVTAGDIQPPAGVEIHNSDLHIASLNESA 132 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + MEL V +G GYVPA E IG I +D +YSP+ KVSY VE+ R Q D+DKL Sbjct: 133 KLEMELVVERGRGYVPAAATSGE---IGRIPVDQIYSPVLKVSYKVEATRVEQRTDFDKL 189 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + ++T SI+ D++A A L + G+ + ++ + + + A +E Sbjct: 190 IIDVETKNSISARDALASAGGTLVELFGLARELNTAAEGIEIGPSPQETEYIAAYSMPIE 249 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +L SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L +GL L Sbjct: 250 DLNFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIKLANLGLALKDTP 309 Query: 322 PDWPPESIE 330 D+ P +E Sbjct: 310 EDFDPTQLE 318 >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 = 228 bits (581), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 133/320 (41%), Positives = 193/320 (60%), Gaps = 15/320 (4%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V+ E+ R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+IDGV H Sbjct: 26 RPTLTEEVVV---EDRRSRFVLEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRIDGVPH 82 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +I GV ED+ IILNIK I L D + + K GP VTAGDI +E+ NP Sbjct: 83 EFRTIPGVKEDVAQIILNIKEIVLSSENDEPVVMYLRKSGPSEVTAGDITPPAGVEIHNP 142 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 + VI L+ + +ELTV +G GYV A ++ N I I +D++YSP+KKVSY+VE+ Sbjct: 143 ELVIATLNEKGKLEIELTVERGRGYVSANQNKDPNAEISRIPVDSIYSPVKKVSYSVEAT 202 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVK 248 R Q D+D+L + ++T SIT D++A A + L + G+ +N E E I V Sbjct: 203 RVEQRTDFDRLIVDVETKSSITPRDALASAGKTLVELFGLARELNVE------AEGIEVG 256 Query: 249 SLPFNPALLKK----VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 P + A + ++EL+L RS+N L+ E I +G+L+ R+EAD+L + NFG KS+ Sbjct: 257 PSPIDEAFQQDLALMIDELDLQARSSNALKREGIHTVGELVSRSEADLLDIRNFGAKSIS 316 Query: 305 EIKGVLGTMGLFLGMNLPDW 324 EIK L +GL L + D+ Sbjct: 317 EIKDKLAELGLSLKGSPVDY 336 >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 = 228 bits (581), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 123/298 (41%), Positives = 187/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL+SSL G AIT+V+I+GV HE S+I GV ED+T+IILN+K + Sbjct: 28 PLEPGYGLTVGNALRRVLLSSLEGFAITSVRIEGVDHEFSTIAGVVEDVTEIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K D ++ VTI G +TAG Q ++ +VLNPD VIC++D + ME+T+ Sbjct: 88 FKRQIDEIDNESVTISVSGEEQLTAGHFQKFISGFQVLNPDQVICHMDKKVSLNMEITIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ N P+G I +D++Y+PIK V Y++E+ R Q DY+KL I +DGS Sbjct: 148 KGRGYVPAEENKKANAPLGTIFVDSIYTPIKNVKYSIENFRVEQKTDYEKLVFEIISDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A++ L +F I E + E + +SL L K+ +++LS Sbjct: 208 IHPKDALTEAAKTLIHHFMLFSDERITLEADEIAQTETYDEESLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ + D+++ NFG+KSL E++ ++ GL GM+L + Sbjct: 268 VRALNCLKAAEVDTLGDLVSYNKNDLMKFRNFGKKSLTELEELVSNKGLNFGMDLSKY 325 >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 = 228 bits (580), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 128/290 (44%), Positives = 185/290 (63%), Gaps = 4/290 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL G+ T+GN+LRRVL+SSL GAA++ + I GV HE +I GV ED+ +IILN+ Sbjct: 23 FIVEPLESGYGITIGNSLRRVLLSSLPGAAVSFINIRGVEHEFDTIPGVLEDVPEIILNV 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I KM D ++ I K G G +TAGDI + V+NP+H I L+ DA V +E+TV Sbjct: 83 KSIVFKMENDEPVKLIIEKSGKGEITAGDIILEPSVSVVNPNHHIATLNEDADVYIEMTV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GY P++ + E IG+I +D+ YSP++KV++ VE+ R GQ DYD+L + + TDG Sbjct: 143 EKGRGYEPSELKKDEVTQIGIIPVDSNYSPVRKVNWKVENTRVGQRTDYDRLILEVTTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK--VEELELSV 267 S+ +++ +LA++IL + L +FI EV +I V+ +K+ VEEL+LSV Sbjct: 203 SMKADEATSLAAKILTEHLDLFIGLINHVDEV--NIMVEKEEDQSEKVKEMTVEELDLSV 260 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ I +G+L +TE DM+++ N G+KSL E+ L M L L Sbjct: 261 RSFNCLKRAGINTVGELTNKTEEDMMKVRNLGKKSLEEVVSKLQEMNLSL 310 >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 = 228 bits (580), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 124/302 (41%), Positives = 190/302 (62%), Gaps = 9/302 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 IA+PL RG+ T+GN +RRVL++SL G AIT V+I+GV HE S+I+GV ED+ +I+LN+ Sbjct: 25 FIAQPLERGYGVTIGNVMRRVLLASLPGTAITGVKIEGVYHEFSAIEGVREDVPEIVLNL 84 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELT 148 K + K + + ++ G TAGDI + EVLN D I ++ +V+ +E+ Sbjct: 85 KRVRFKSNCKRSCKTSLSIAGTKDFTAGDIIAKEGEFEVLNKDLHIATVNDGSVLNIEIY 144 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + +G GY+PA+ + E PIG I IDA+++PI+ V +TVE+ R GQ DY+K+ + ++TD Sbjct: 145 IGRGRGYLPAEENHPEGMPIGFIAIDAIFTPIRNVKFTVENTRVGQRTDYEKMILDVETD 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEV------KEDINVKSLPFNPALLKKVEE 262 GSI +DS++LA +I+ D + F NF ++E ++D +S+ L K+E+ Sbjct: 205 GSIAPDDSISLAGKIINDHIMYFANFSPTEEEFTEEEFKQQDDEFESM--RKLLHTKIED 262 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL E+K L L GM++ Sbjct: 263 LDLSVRSHNCLRLAEIDTIGDLVSRKEDELLNYKNFGKKSLTELKEQLEKFDLKFGMDIT 322 Query: 323 DW 324 + Sbjct: 323 RY 324 >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 = 228 bits (580), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 130/312 (41%), Positives = 194/312 (62%), Gaps = 16/312 (5%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +TLGN++RR L+SS+ GAA+T+++IDGVLHE +++ GV ED+TD Sbjct: 16 ETRSRFVIEPLEPGFGYTLGNSIRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+K L +S + + VT++ K+GPG VTAGDI + V NPD I L+ Sbjct: 76 IILNLK--ELVVSSEEDEPVTMYLRKQGPGAVTAGDIVPPAGVTVHNPDLHIATLNGKGK 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+DKL Sbjct: 134 LEIELVVERGRGYVPAVQNKQAGAEIGRIPVDSIYSPVMKVTYKVEATRVEQRTDFDKLI 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFN----PAL 256 + +++ SIT D+VA A + L + G+ +N + E I + P A Sbjct: 194 LDVESKPSITPRDAVASAGKTLVELFGLARELNVD------AEGIEIGPSPAEADTIAAF 247 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L +GL Sbjct: 248 AMPIEDLDLTVRSYNCLKREGIHTVGELVSRSEADLLDIRNFGAKSIDEVKMKLVGLGLA 307 Query: 317 LGMNLPDWPPES 328 L + P + P + Sbjct: 308 LKDSPPGFDPSA 319 >gi|269784296|emb|CBH50793.1| alpha subunit of RNA polymerase [Vibrio sp. Cmj 13.4] Length = 270 Score = 228 bits (580), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 119/270 (44%), Positives = 180/270 (66%), Gaps = 8/270 (2%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVT 115 G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V Sbjct: 2 GCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVV 61 Query: 116 AGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLI 171 AGDI D+E+ NP+HVIC+L D +A + M + V +G GYVPA H + PIG + Sbjct: 62 AGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRL 121 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F Sbjct: 122 LVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAF 181 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 ++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE + Sbjct: 182 VDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVE 238 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +L+ N G+KSL EIK VL + GL LGM L Sbjct: 239 LLKTPNLGKKSLTEIKDVLASRGLSLGMRL 268 >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 = 228 bits (580), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 120/300 (40%), Positives = 189/300 (63%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ENR+ + EPL GF +TLGN+LRR L+SS+ GA++T+++IDGVLHE S+++GV ED+T+ Sbjct: 16 ENRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRIDGVLHEFSTVEGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 +ILNIK ++L D + K+GPG VTA DI +EV NP+ I L+ + Sbjct: 76 LILNIKKLSLSSEEDEPVTAWLRKQGPGEVTAADISAPAGVEVHNPELHIATLNSKGQLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELT+ +G GYV A +++ + +G I +D++YSP+ KV++ VE+ R Q D+DKL + Sbjct: 136 IELTIERGRGYVSASQNKSGDAEVGRIPVDSIYSPVLKVTFRVEATRVEQRTDFDKLILD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 ++T +I+ D+VA A L + G+ + ++ + + +E+LE Sbjct: 196 VETKEAISPRDAVASAGTTLVELFGLARELNSSAEGIEIGPSPTDAAAAADMALPIEDLE 255 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 LSVRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K LG +GL L + P + Sbjct: 256 LSVRSYNCLKREGIHSVGELVGRSEADLMDIRNFGAKSIDEVKDKLGELGLALKDSPPGY 315 >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 = 228 bits (580), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 131/312 (41%), Positives = 195/312 (62%), Gaps = 20/312 (6%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S++ GV ED+T+ Sbjct: 16 ETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFSTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+K L +S + + VT++ K+GPG VTA DI + + V NPD I +L+ Sbjct: 76 IILNLK--ELVVSSEEDEPVTMYLRKQGPGEVTAADIVPPSGVTVHNPDLHIASLNGKGK 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +EL V +G GYVPA ++ IG I ID++YSP+ KV+Y VE+ R Q D+DKL Sbjct: 134 LEIELVVERGRGYVPALQNKQAGAEIGRIPIDSIYSPVLKVTYKVEATRVEQRTDFDKLV 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNP 254 + ++T SIT D+VA A + L + G+ +N + P + + I ++P Sbjct: 194 LDVETKPSITPRDAVASAGKTLVELFGLARELNVDAEGIEIGPSPQEADTIAAYAMP--- 250 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L +G Sbjct: 251 -----IEDLDLTVRSYNCLKREGIHTVGELVSRSEADLLDIRNFGAKSIDEVKMKLAGLG 305 Query: 315 LFLGMNLPDWPP 326 L L + P + P Sbjct: 306 LTLKDSPPGFDP 317 >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 = 228 bits (580), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 116/252 (46%), Positives = 167/252 (66%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+ + + E L RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ Sbjct: 7 EDRDYGKFVVESLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDV 66 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILNIKG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + A Sbjct: 67 VQIILNIKGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGAT 126 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 LTV G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+ Sbjct: 127 FHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLT 186 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 M I TDGSI +++++LA++IL + L +F+N + K + + + L +EE Sbjct: 187 MEIWTDGSIIAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 246 Query: 263 LELSVRSTNCLR 274 L+LSVRS NCL+ Sbjct: 247 LDLSVRSYNCLK 258 >gi|328813937|gb|AEB52084.1| DNA-directed RNA polymerase alpha chain [Lactobacillus brevis] Length = 263 Score = 227 bits (579), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 118/263 (44%), Positives = 175/263 (66%), 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 TVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 T KG GYV A ++T N 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|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 = 227 bits (579), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 129/309 (41%), Positives = 194/309 (62%), Gaps = 7/309 (2%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + +R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV ED++ Sbjct: 15 DSSRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTINGVKEDVS 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +IILNIK ++ +S DS + V ++ K GPG VTAGDIQ +E+ NPD I +L+ A Sbjct: 75 EIILNIK--SMVLSSDSDEPVVMYLSKEGPGDVTAGDIQPPAGVEIHNPDLHIASLNDTA 132 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + +EL V +G GYVPA E IG I ID +YSP+ KVSY VE+ R Q D+DKL Sbjct: 133 KLDIELVVERGRGYVPAAATSGE---IGRIPIDQIYSPVLKVSYKVEATRVEQRTDFDKL 189 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 ++ ++T SI+ D++A A L + G+ + ++ + + + A +E Sbjct: 190 TIDVETKNSISARDALASAGGTLVELFGLARELNNAAEGIEIGPSPQETEYIAAYGMPIE 249 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +L SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L +GL L Sbjct: 250 DLNFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIKLANLGLALKDTP 309 Query: 322 PDWPPESIE 330 D+ P +E Sbjct: 310 EDFDPTQLE 318 >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 = 227 bits (579), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 122/304 (40%), Positives = 186/304 (61%), Gaps = 8/304 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S++ GV ED+T+ Sbjct: 16 EFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFSTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILNIKG+ + D + K+G G VTA DI +E+ NP+ VI L+ A Sbjct: 76 IILNIKGLVVSSEHDEPITAYLRKQGAGQVTAADISAPAGVEIHNPELVIATLNEKAKFE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELT+ +G GYV A +R+E G I +D++YSP+ KV+Y VE+ R G+ D+D+L + Sbjct: 136 LELTIERGRGYVSATQNRSEFSEAGQIPVDSIYSPVLKVTYRVEATRAGERTDFDRLVVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK----V 260 ++T +IT D++A A R L + G+ E I + P + L + + Sbjct: 196 VETKSAITPRDAIASAGRTLTELFGLAREL----NSAAEGIEIGPAPVDAVLSSELSMPI 251 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 E+L+LSVRS NCL+ E I + +L+ +E ++ + NFG+KS+ E+K L +GL L Sbjct: 252 EDLDLSVRSYNCLKREGINNVSELVALSETQLMNIRNFGQKSVDEVKDKLVELGLSLKDA 311 Query: 321 LPDW 324 +P + Sbjct: 312 VPGF 315 >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 = 227 bits (579), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 122/302 (40%), Positives = 187/302 (61%), Gaps = 4/302 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ENR+ I EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T+ Sbjct: 16 ENRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILNIK +++ D + K+GPGVVTA DI +E NPD I L+ Sbjct: 76 IILNIKNLSVSSEHDEPVVAYLRKQGPGVVTAADIAPPAGVEFHNPDLHIATLNSKGKFE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ R Q D+DKL + Sbjct: 136 LELTIERGRGYVSAAQNKSGDSEIGRIPVDSIYSPVMKVTFRVEATRVEQRTDFDKLIVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 ++T +I D+VA A L + G+ + ++ + + +E+L+ Sbjct: 196 VETKQAIAPRDAVASAGTTLVELFGLARELNTAAEGIEIGPSPTDAALAADMALPIEDLD 255 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L + LG++L D Sbjct: 256 LTVRSYNCLKREGIHTVGELVARSEADLMDIRNFGAKSIDEVKAKL----VELGLSLKDS 311 Query: 325 PP 326 PP Sbjct: 312 PP 313 >gi|328813939|gb|AEB52085.1| DNA-directed RNA polymerase alpha chain [Lactobacillus brevis] Length = 265 Score = 227 bits (579), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 118/263 (44%), Positives = 175/263 (66%), Gaps = 4/263 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+++GV ED+T IILN+ Sbjct: 3 FIVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTVEGVVEDVTQIILNV 62 Query: 90 KGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K I LK++G D + + I +GP +TAGDI D+++LNPD I + A M + Sbjct: 63 KKIALKLNGSDDQEETMEINVKGPAQITAGDIVAGADVDILNPDLYIATVADGATFHMRM 122 Query: 148 TVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 T KG GYV A ++T N PIG++ +D++Y+PI++V+Y VE+AR GQ DYDKL++ + Sbjct: 123 TADKGRGYVSADENKTRNTDMPIGVLAVDSIYTPIERVNYQVENARVGQRADYDKLTLDV 182 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+GSI +++ALA++IL + L MF++ + K + + + L +EEL+L Sbjct: 183 WTNGSINPSEAIALAAKILTEHLAMFVDLTDEAKNAEIMVEKEETHKEKMLEMTIEELDL 242 Query: 266 SVRSTNCLRGENIVYMGDLIQRT 288 SVRS NCL+ I + +L +T Sbjct: 243 SVRSYNCLKRAGINTVQELNNKT 265 >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 = 227 bits (579), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 122/304 (40%), Positives = 186/304 (61%), Gaps = 8/304 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S++ GV ED+T+ Sbjct: 16 EFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFSTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILNIKG+ + D + K+G G VTA DI +E+ NP+ VI L+ A Sbjct: 76 IILNIKGLVVSSEHDEPITAYLRKQGAGQVTAADISAPAGVEIHNPELVIATLNEKAKFE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELT+ +G GYV A +R+E G I +D++YSP+ KV+Y VE+ R G+ D+D+L + Sbjct: 136 LELTIERGRGYVSATQNRSEFSEAGQIPVDSIYSPVLKVTYRVEATRAGERTDFDRLVVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK----V 260 ++T +IT D++A A R L + G+ E I + P + L + + Sbjct: 196 VETKSAITPRDAIASAGRTLTELFGLAREL----NSAAEGIEIGPAPVDAVLSSELSMPI 251 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 E+L+LSVRS NCL+ E I + +L+ +E ++ + NFG+KS+ E+K L +GL L Sbjct: 252 EDLDLSVRSYNCLKREGIHNVSELVALSETQLMNIRNFGQKSVDEVKDKLVELGLSLKDA 311 Query: 321 LPDW 324 +P + Sbjct: 312 VPGF 315 >gi|240167783|ref|ZP_04746442.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium kansasii ATCC 12478] Length = 347 Score = 227 bits (579), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 130/315 (41%), Positives = 196/315 (62%), Gaps = 20/315 (6%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+TD Sbjct: 16 DNRSQFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+K +L +S + + VT++ K+GPG VTAGDI + V NP I L+ Sbjct: 76 IILNLK--SLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPGMHIATLNDKGK 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +EL V +G GYVPA +R IG I +D++YSP+ KV+Y VE+ R Q D+DKL Sbjct: 134 LEVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDKLI 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNP 254 + ++T SIT D++A A + L + G+ +N E P + I +LP Sbjct: 194 LDVETKSSITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALP--- 250 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +G Sbjct: 251 -----IDDLDLTVRSYNCLKREGVHTVGELVSRTESDLLDIRNFGQKSIDEVKVKLHQLG 305 Query: 315 LFLGMNLPDWPPESI 329 L L + P + P + Sbjct: 306 LSLKDSPPTFDPSEV 320 >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 = 227 bits (579), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 122/298 (40%), Positives = 187/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL+SSL G AI++V+++GV HE S+I GV ED+T+IILN+K + Sbjct: 15 PLEPGYGLTVGNALRRVLLSSLEGFAISSVRVEGVDHEFSTISGVVEDVTEIILNLKQVR 74 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K D ++ VT+ G +TAGD Q ++ +VLNPD VICN+D + +E+T+ Sbjct: 75 FKRQIDEVDNETVTMNISGQEQLTAGDFQKFISGFQVLNPDMVICNMDKKVNLNIEITIE 134 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ N PIG I D++++PIK V Y++E+ R Q DY+KL I TDGS Sbjct: 135 KGRGYVPAEENKKSNAPIGTIFTDSIFTPIKNVKYSIENYRVEQKTDYEKLVFEIQTDGS 194 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A++ L +F I E + E + +SL L K+ +++LS Sbjct: 195 IHPKDALTEAAKTLIHHFMLFSDERITLEADEIAQTETYDEESLHMRQLLKTKLVDMDLS 254 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ + D+++ NFG+KSL E++ ++ GL GM+L + Sbjct: 255 VRALNCLKAAEVDSLGDLVSYNKNDLMKFRNFGKKSLTELEELVNNKGLNFGMDLSKY 312 >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 = 227 bits (579), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 133/306 (43%), Positives = 192/306 (62%), Gaps = 23/306 (7%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EPL RGF TLGN+LRRVL+SSL G AIT+++IDGVLHE ++I+GV ED+TD+ILN+K Sbjct: 25 CEPLERGFGITLGNSLRRVLLSSLDGVAITSIKIDGVLHEFTTIEGVREDVTDMILNLKK 84 Query: 92 INLKMSGDS----HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 I ++ R+ I K G+ AGD+Q ++I+VLN D IC LD DA + MEL Sbjct: 85 IRFIAHDEAVFPIQVRIDIDKE--GIFHAGDMQLPSEIDVLNTDLEICTLDADAHLGMEL 142 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 T+ +GHGYVP ++ +ND IG+I ID++++P+ K +Y V R G +DYDKL++ ++T Sbjct: 143 TIDRGHGYVPFNKNK-KNDEIGIIPIDSIFTPVVKCNYKVSDTRVGNEMDYDKLTLELET 201 Query: 208 DGSITGEDSVALASRILQDQLGMF----------INFEEPKKEVKEDINVKSLPFNPALL 257 DGS+ ED+VA A+ IL F I+ +E + E++E + L P Sbjct: 202 DGSVKVEDAVAQAATILIKYFENFRRLATKQIPEIDVDEIEPEIEEKDDSPDLSVIP--- 258 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EELELSVR+ NCL+ I + L +TE ++ R+ N G+KS+ EIK L + Sbjct: 259 --IEELELSVRAFNCLKRAEINMLDQLTDKTEDELTRVRNLGKKSVDEIKEKLAAYKGW- 315 Query: 318 GMNLPD 323 G++L D Sbjct: 316 GLHLKD 321 >gi|213584847|ref|ZP_03366673.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] Length = 253 Score = 227 bits (578), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 116/257 (45%), Positives = 178/257 (69%), Gaps = 9/257 (3%) 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 LASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGEN 277 A+ IL +QL F++ + ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E Sbjct: 181 RAATILAEQLEAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEA 236 Query: 278 IVYMGDLIQRTEADMLR 294 I Y+GDL+QRTE ++L+ Sbjct: 237 IHYIGDLVQRTEVELLK 253 >gi|297163220|gb|ADI12932.1| DNA-directed RNA polymerase subunit alpha [Streptomyces bingchenggensis BCW-1] Length = 337 Score = 227 bits (578), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 123/306 (40%), Positives = 189/306 (61%), Gaps = 12/306 (3%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 R+ + EPL GF +TLGN+LRR L+SS+ AA+T+++IDGVLHE +++ GV ED+TD+I Sbjct: 18 RSRFVIEPLEPGFGYTLGNSLRRTLLSSIPAAAVTSIRIDGVLHEFTTVPGVREDITDLI 77 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+K + + D + + K+GPG+ TA DI +EV NPD V+ L+ + +E Sbjct: 78 LNLKQLVVSSEHDEPVVMYLRKQGPGLATAADIAPPAGVEVHNPDLVLATLNAKGKLEIE 137 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LTV +G GYV A + + IG I +D++YSP+ KV+Y VE+ R Q D+DKL + ++ Sbjct: 138 LTVERGRGYVSAVQNTQQGQEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDKLIVDVE 197 Query: 207 TDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLK----KV 260 T ++ D++A A + L + G+ +N + E I++ P + AL + Sbjct: 198 TKPAMHPRDAIASAGKTLVELFGLARGLNID------AEGIDIGPSPTDTALASDLALPI 251 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 EELEL+VRS NCL+ E + +G+L+ R+EAD+L + NFG KS+ E+K L MGL + Sbjct: 252 EELELTVRSYNCLKREGVHSVGELVARSEADLLDIRNFGAKSIDEVKAKLAGMGLAFKDS 311 Query: 321 LPDWPP 326 P + P Sbjct: 312 PPGFDP 317 >gi|324999252|ref|ZP_08120364.1| DNA-directed RNA polymerase subunit alpha [Pseudonocardia sp. P1] Length = 350 Score = 227 bits (578), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 126/306 (41%), Positives = 193/306 (63%), Gaps = 4/306 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+TD Sbjct: 16 ETRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+K L +S + + VT++ K+GPG VTAGDI + V NPD I +L+ Sbjct: 76 IILNLK--ELVVSSEEDEPVTMYLRKQGPGAVTAGDIVPPAGVTVHNPDLHIASLNDKGR 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+DKL Sbjct: 134 LEVELVVERGRGYVPAMQNKATGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDKLV 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + +++ SIT D++A + + L + G+ + ++ + + A +EE Sbjct: 194 LDVESKPSITPRDALASSGKTLVELFGLARELNVDAEGIEIGPSPQEADTIAAFAMPIEE 253 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L +GL L + P Sbjct: 254 LDLTVRSYNCLKREGIHTVGELVGRSEADLLDIRNFGAKSIDEVKMKLVGLGLALKDSPP 313 Query: 323 DWPPES 328 + P + Sbjct: 314 GFDPSA 319 >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 = 227 bits (578), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 132/311 (42%), Positives = 190/311 (61%), Gaps = 12/311 (3%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 Q +E R+ I EPL GF +T+GN+LRR L+SS+ GAA+T+++I+GVLHE S+I GV ED Sbjct: 13 QIDEYRSRFIIEPLEPGFGYTIGNSLRRTLLSSIPGAAVTSIRIEGVLHEFSTIPGVKED 72 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +TDIILN+K + + D + + K+GPG VTA DI +EV NPD I L+ A Sbjct: 73 VTDIILNLKELVVSSEHDEPVVMYLRKQGPGQVTAADIAPPAGVEVHNPDLHIATLNSKA 132 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + MELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ R Q D+D+L Sbjct: 133 KLEMELTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSPVLKVTYKVEATRVEQRTDFDRL 192 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----FNPA 255 + ++T ++ D+VA A + L + G+ +N E E I++ P Sbjct: 193 ILDVETKPAMLPRDAVASAGKTLVELFGLARELNVE------AEGIDMGPSPTDAALAAD 246 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 L +EEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L MGL Sbjct: 247 LALPIEELNLTVRSYNCLKREGIHTVGELVARSEQDLLDIRNFGAKSIEEVKQKLADMGL 306 Query: 316 FLGMNLPDWPP 326 L + P + P Sbjct: 307 SLKDSPPGFDP 317 >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 = 227 bits (578), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 129/325 (39%), Positives = 199/325 (61%), Gaps = 22/325 (6%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 5 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 60 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 61 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 120 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 DLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEAT 180 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ +E+ +I + + Sbjct: 181 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGL-------AREL--NIGAEGI 231 Query: 251 PFNPA---------LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 P+ L +EELEL+VRS NCL+ E + +G+L+ R+EAD+L + NFG K Sbjct: 232 DMGPSPTDAALAADLALPIEELELTVRSYNCLKREGVHSVGELLARSEADLLDIRNFGAK 291 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPP 326 S+ E+K L +GL L + P + P Sbjct: 292 SIDEVKAKLAGLGLALKDSPPGFAP 316 >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 = 227 bits (578), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 133/322 (41%), Positives = 199/322 (61%), Gaps = 22/322 (6%) Query: 19 VLGQE--EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 LG+E E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ Sbjct: 8 ALGEETVNETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVP 67 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVI 134 GV ED+TDIILN+K L +S + + VT++ K+GPG VTA DI + V NPD I Sbjct: 68 GVKEDVTDIILNLK--ELVVSSEEDEPVTMYLRKQGPGEVTAADIVPPAGVTVHNPDLHI 125 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 +L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q Sbjct: 126 ASLNGKGKLEIELVVERGRGYVPALQNKQAGAEIGRIPVDSIYSPVLKVTYKVEATRVEQ 185 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDIN 246 D+DKL + ++T SIT D+VA A + L + G+ +N + P + + I Sbjct: 186 RTDFDKLILDVETKPSITARDAVASAGKTLVELFGLARELNVDAEGIEIGPSPQEADTIA 245 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 ++P +E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+ Sbjct: 246 AYAMP--------IEDLDLTVRSYNCLKREGIHTVGELVSRSEADLLDIRNFGAKSIDEV 297 Query: 307 KGVLGTMGLFLGMNLPDWPPES 328 K L +GL L + P + P + Sbjct: 298 KLKLVGLGLALKDSPPGFDPSA 319 >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 = 227 bits (578), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 128/309 (41%), Positives = 194/309 (62%), Gaps = 7/309 (2%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + +R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV ED++ Sbjct: 15 DSSRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTINGVKEDVS 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +IILNIK ++ +S DS + V ++ K GPG VTAGDIQ +E+ NPD I +L+ A Sbjct: 75 EIILNIK--SMVLSSDSDEPVVMYLSKEGPGDVTAGDIQPPAGVEIHNPDLHIASLNDTA 132 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + +EL V +G GYVPA E IG I +D +YSP+ KVSY VE+ R Q D+DKL Sbjct: 133 KLDIELVVERGRGYVPAAPTSGE---IGRIPVDQIYSPVLKVSYKVEATRVEQRTDFDKL 189 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 ++ ++T SI+ D++A A L + G+ + ++ + + + A +E Sbjct: 190 TIDVETKNSISARDALASAGGTLVELFGLARELNNAAEGIEIGPSPQETEYIAAYGMPIE 249 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +L SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L +GL L Sbjct: 250 DLNFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIKLANLGLALKDTP 309 Query: 322 PDWPPESIE 330 D+ P +E Sbjct: 310 EDFDPTQLE 318 >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 = 227 bits (578), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 123/304 (40%), Positives = 186/304 (61%), Gaps = 8/304 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S++ GV ED+T+ Sbjct: 16 EFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFSTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILNIKG+ + D + K G G VTA DI +E+ NP+ VI L+ A Sbjct: 76 IILNIKGLVVSSEHDEPITAYLRKTGAGQVTAADISAPAGVEIHNPELVIATLNDKAKFE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELT+ +G GYV A+ +R E G I ID++YSP+ KV+Y VE+ R G+ D+D+L + Sbjct: 136 VELTIERGRGYVSAQQNRNEYSEAGQIPIDSIYSPVLKVTYRVEATRAGERTDFDRLVVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK----V 260 ++T +I+ D++A A R L + G+ E I + P + L + + Sbjct: 196 VETKPAISPRDAIASAGRTLVELFGLAREL----NSAAEGIEIGPAPVDQVLSSELSMPI 251 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 E+L+LSVRS NCL+ E I + +L+ +E ++ + NFG+KS+ E+K L MGL L + Sbjct: 252 EDLDLSVRSYNCLKREGINTVSELVSLSETQLMNIRNFGQKSVDEVKDKLTEMGLSLKDS 311 Query: 321 LPDW 324 +P + Sbjct: 312 VPGF 315 >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 = 227 bits (578), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 134/310 (43%), Positives = 194/310 (62%), Gaps = 20/310 (6%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV ED+TD Sbjct: 16 ETRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSLRIDGVLHEFTTIPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 +ILN+K L +S + + VT++ K+GPG VTA DI + V NPD I L+ Sbjct: 76 VILNLK--ELVVSSEEDEPVTMYLRKQGPGEVTAADIVPPAGVTVHNPDLHIATLNGKGK 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+DKL Sbjct: 134 LEIELVVERGRGYVPAVQNKQTGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDKLI 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFN----PAL 256 + ++T SIT D+VA A R L + G+ +N + E I + P A Sbjct: 194 LDVETKPSITPRDAVASAGRTLVELFGLARELNVD------AEGIEIGPSPAEADTIAAY 247 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L +G Sbjct: 248 AMPIEDLDLTVRSYNCLKREGIHTVGELVSRSEADLLDIRNFGAKSIDEVK--LKLVG-- 303 Query: 317 LGMNLPDWPP 326 LG++L D PP Sbjct: 304 LGLSLKDSPP 313 >gi|190411117|gb|ACE78313.1| RpoA [Vibrio parahaemolyticus] gi|190411119|gb|ACE78314.1| RpoA [Vibrio parahaemolyticus] Length = 263 Score = 227 bits (578), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 117/266 (43%), Positives = 181/266 (68%), Gaps = 8/266 (3%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRV 104 ALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G + Sbjct: 1 ALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFI 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y Sbjct: 181 ATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHY 237 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEI 306 +GDL+QRTE ++L+ N G+KSL EI Sbjct: 238 IGDLVQRTEVELLKTPNLGKKSLTEI 263 >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 = 226 bits (577), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 123/302 (40%), Positives = 186/302 (61%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +TLGN+LRR L+SS+ GA++T++++DGVLHE S++ GV ED+TD Sbjct: 16 EFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRVDGVLHEFSTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 +ILN+K + + D + + K+GPG VTA DI +EV NPD + L+ + Sbjct: 76 LILNLKELVVSSDNDEPTVMYLRKQGPGDVTAADIAPPAGVEVHNPDLHLATLNDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 136 IELTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSPVLKVTYKVEATRVEQRTDFDRLIVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 ++T SI+ D++A A + L G+ + V + L +EE++ Sbjct: 196 VETKQSISPRDAMASAGKTLVGLFGLAQELNAEAEGVDIGPSAADAALAADLALPIEEMD 255 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K LG MGL L + P + Sbjct: 256 LTVRSYNCLKREGIHTIGELVSRSEADLLDIRNFGQKSIDEVKTKLGAMGLQLKDSPPGF 315 Query: 325 PP 326 P Sbjct: 316 DP 317 >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 = 226 bits (577), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 125/313 (39%), Positives = 193/313 (61%), Gaps = 16/313 (5%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ++R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+TD Sbjct: 16 DSRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+K + + D + + K+GPG VTAGDI + V NP+ I L+ + Sbjct: 76 IILNLKALVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPNMRIATLNDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ R Q D+DKL + Sbjct: 136 VELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDATRVEQRTDFDKLILD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNPAL 256 ++T SIT D++A A + L + G+ +N E P + I +LP Sbjct: 196 VETKNSITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALP----- 250 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL Sbjct: 251 ---IDDLDLTVRSYNCLKREGVHTVGELVSRTESDLLDIRNFGQKSIDEVKVKLHQLGLS 307 Query: 317 LGMNLPDWPPESI 329 L + P + P + Sbjct: 308 LKDSPPSFDPSEV 320 >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 = 226 bits (577), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 122/302 (40%), Positives = 187/302 (61%), Gaps = 4/302 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ENR+ I EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T+ Sbjct: 16 ENRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILNIK +++ D + K+GPGVVTA DI +E NPD I L+ Sbjct: 76 IILNIKNLSVSSEHDEPVVAYLRKQGPGVVTAADIAPPAGVEFHNPDLHIATLNSKGKFE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ R Q D+DKL + Sbjct: 136 LELTIERGRGYVSAAQNKSGDSEIGRIPVDSIYSPVLKVTFRVEATRVEQRTDFDKLIVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 ++T +I D+VA A L + G+ + ++ + + +E+L+ Sbjct: 196 VETKQAIAPRDAVASAGTTLVELFGLARELNTAAEGIEIGPSPTDAALAADMALPIEDLD 255 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L + LG++L D Sbjct: 256 LTVRSYNCLKREGIHTVGELVARSEADLMDIRNFGAKSIDEVKAKL----VELGLSLKDS 311 Query: 325 PP 326 PP Sbjct: 312 PP 313 >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 = 226 bits (577), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 120/291 (41%), Positives = 191/291 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF T+GNALRR+L+SSL G A+ AV+IDGVLHE S++ GV ED+T++IL++ Sbjct: 23 FVVEPLERGFGITIGNALRRILLSSLPGVAVYAVRIDGVLHEFSTVPGVKEDVTEMILSL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K ++ + G+ K + I GP VT DI ++E+++ D I LD +A + ME+ V Sbjct: 83 KELSATIDGEESKVLKIQAVGPCEVTGADIICPPEVEIVSKDLHIATLDENAKLNMEIHV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GYV A+ ++ ++ PIG + +D++Y+PI+KVSY VE+ R GQ D+DKL++ + T+G Sbjct: 143 NKGRGYVSAEENKNDSMPIGTLPVDSIYTPIEKVSYHVENTRVGQKTDFDKLTLEVLTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI ++ ++LA+++L++ L +FI+ E V+ + + L +EEL+LSVRS Sbjct: 203 SINPQEGMSLAAKVLEEHLKLFIDLSEHIGNVEIMVEKEEDKKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 NCL+ I + +L ++E DM+++ N G+KSL E+ L + L L N Sbjct: 263 YNCLKRAGINTVEELSNKSEEDMMKVRNLGKKSLEEVIQKLNELDLKLKPN 313 >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 = 226 bits (577), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 123/304 (40%), Positives = 186/304 (61%), Gaps = 8/304 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S++ GV ED+T+ Sbjct: 43 EFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFSTVPGVKEDVTE 102 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILNIKG+ + D + K G G VTA DI +E+ NP+ VI L+ A Sbjct: 103 IILNIKGLVVSSEHDEPITAYLRKTGAGQVTAADISAPAGVEIHNPELVIATLNDKAKFE 162 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELT+ +G GYV A+ +R E G I ID++YSP+ KV+Y VE+ R G+ D+D+L + Sbjct: 163 VELTIERGRGYVSAQQNRNEYSEAGQIPIDSIYSPVLKVTYRVEATRAGERTDFDRLVVD 222 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK----V 260 ++T +I+ D++A A R L + G+ E I + P + L + + Sbjct: 223 VETKPAISPRDAIASAGRTLVELFGLAREL----NSAAEGIEIGPAPVDQVLSSELSMPI 278 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 E+L+LSVRS NCL+ E I + +L+ +E ++ + NFG+KS+ E+K L MGL L + Sbjct: 279 EDLDLSVRSYNCLKREGINTVSELVSLSETQLMNIRNFGQKSVDEVKDKLTEMGLSLKDS 338 Query: 321 LPDW 324 +P + Sbjct: 339 VPGF 342 >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 = 226 bits (577), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 125/323 (38%), Positives = 204/323 (63%), 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 LHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDI-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|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 = 226 bits (577), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 119/288 (41%), Positives = 185/288 (64%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL GF T+GN+LRRVL+SSL GAA++ + I GV HE +I GV ED+ +I+LNI Sbjct: 23 FVVEPLEAGFGITIGNSLRRVLLSSLPGAAVSFINIRGVEHEFDTIPGVLEDVPEIVLNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LKM+ D ++ I K+G G + A DI+ V + ++NPD I L+ DA +E+ V Sbjct: 83 KSIVLKMTEDEPVKLVIEKKGKGEIKASDIELVPHVSIINPDQHIATLNDDADFYLEMMV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GY P++ + E IG+I +D+ ++P++KV++ VE+ R GQ D+D+L + + TDG Sbjct: 143 EKGRGYEPSELKKDEISEIGIIPMDSNFTPVEKVNWKVENTRVGQRTDFDRLILEVTTDG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 S+ +++ +LA++IL + L +FI +E E+ + + L VEEL+LSVRS Sbjct: 203 SMKADEATSLAAKILTEHLELFIGLKEHVSEINLMVEKEEDQKEKVLEMTVEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + +L +TE++M+++ N GRKSL+E+ L +GL L Sbjct: 263 FNCLKRAGINSVEELTNKTESEMMKVRNLGRKSLLEVTEKLDELGLSL 310 >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 = 226 bits (577), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 120/302 (39%), Positives = 189/302 (62%), Gaps = 9/302 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 IA+PL RG+ TLGN +RRVL++SL G AIT ++I+ V HE S+I+GV ED+ +I+LN+ Sbjct: 25 FIAQPLERGYGVTLGNLMRRVLLASLPGTAITGIKIENVYHEFSTIQGVREDVPEIVLNL 84 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDHVICNLDVDAVVRMELT 148 K + + + T+ GP TAG IQ + EVLN D I ++ V +++ Sbjct: 85 KKVRFRSQCKRSCKTTVTLVGPMEFTAGVIQPQEGEFEVLNKDLHIATINAGTTVTLDIF 144 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + +G GYVPA+ +R E P+G I ID++++PI+ V +TVE+ R GQ DY+K+ + ++TD Sbjct: 145 IGRGRGYVPAEENRAEGMPLGFIPIDSIFTPIRNVKFTVENTRVGQRTDYEKMILEVETD 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEV------KEDINVKSLPFNPALLKKVEE 262 GSIT +DS++LA R++ D + +F +F ++E ++D +++ L K+E+ Sbjct: 205 GSITPDDSISLAGRVISDHVLLFADFSPAEEEYTEEEFKQQDDEFETM--RRLLATKIED 262 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 L+LSVRS NCLR I +G+L+ E ++L NFG+KSL E+K L L GM++ Sbjct: 263 LDLSVRSHNCLRLAEIDTLGELVSHKEDELLNYKNFGKKSLTELKEQLDKFDLKFGMDIT 322 Query: 323 DW 324 + Sbjct: 323 RY 324 >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 = 226 bits (577), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 130/322 (40%), Positives = 200/322 (62%), Gaps = 20/322 (6%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVK 248 R Q D+DKL + ++T ++ D++A A + L + G+ +N + E I++ Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNID------AEGIDMG 235 Query: 249 SLPFNPA----LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 P + A L+ +E+L+L+VRS NCL+ E + +G+L+ R+EAD+L + NFG KS+ Sbjct: 236 PSPTDAALAADLVMPIEDLDLTVRSYNCLKREGVHSVGELVARSEADLLDIRNFGAKSID 295 Query: 305 EIKGVLGTMGLFLGMNLPDWPP 326 E+K L LG+ L D PP Sbjct: 296 EVKEKLAG----LGLGLKDSPP 313 >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 = 226 bits (577), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 122/302 (40%), Positives = 187/302 (61%), Gaps = 4/302 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ENR+ I EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T+ Sbjct: 16 ENRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILNIK +++ D + K+GPGVVTA DI +E NPD I L+ Sbjct: 76 IILNIKSLSVSSEHDEPVVAYLRKQGPGVVTAADIAPPAGVEFHNPDLHIATLNSKGKFE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ R Q D+DKL + Sbjct: 136 LELTIERGRGYVSAAQNKSGDAEIGRIPVDSIYSPVLKVTFRVEATRVEQRTDFDKLIVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 ++T +I D+VA A L + G+ + ++ + + +E+L+ Sbjct: 196 VETKQAIAPRDAVASAGTTLVELFGLARELNTAAEGIEIGPSPTDAALAADMALPIEDLD 255 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L + LG++L D Sbjct: 256 LTVRSYNCLKREGIHTVGELVARSEADLMDIRNFGAKSIDEVKAKL----VELGLSLKDS 311 Query: 325 PP 326 PP Sbjct: 312 PP 313 >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 = 226 bits (577), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 123/302 (40%), Positives = 186/302 (61%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +TLGN+LRR L+SS+ GA++T+++IDGVLHE S++ GV ED+TD Sbjct: 16 EFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRIDGVLHEFSTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 +ILN+K + + D + + K+GPG VTA DI +EV NP+ + L+ + Sbjct: 76 LILNLKELVVSSDNDEPTVMYLRKQGPGEVTAADIAPPAGVEVHNPELRLATLNDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 136 IELTVERGRGYVSAAQNKQAGQEIGRIPIDSIYSPVLKVTYKVEATRVEQRTDFDRLIVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 ++T SI+ D++A A + L G+ + V + L +EE++ Sbjct: 196 VETKPSISPRDAMASAGKTLVGLFGLAQELNAEAEGVDIGPSAADAALAADLALPIEEMD 255 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K LG MGL L + P + Sbjct: 256 LTVRSYNCLKREGIHTIGELVSRSEADLLDIRNFGQKSIDEVKTKLGAMGLQLKDSPPGF 315 Query: 325 PP 326 P Sbjct: 316 DP 317 >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 = 226 bits (576), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 126/309 (40%), Positives = 189/309 (61%), Gaps = 8/309 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV ED+ + Sbjct: 16 ETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTIPGVKEDVVE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 +++NIK + + D + + K+GPG VTAGDIQ + V NPD + L+ + Sbjct: 76 LVMNIKELCVSSEHDEPVSMYLRKQGPGDVTAGDIQPPAGVSVHNPDLKLATLNGKGRLD 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 136 MELTVERGRGYVTAAQNKQAGAEIGRIPVDSIYSPVLKVTYRVEATRVEQRTDFDRLIID 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK----KV 260 ++T S+ ++A A L + G+ + E E I++ P + L + Sbjct: 196 VETKPSMGPRTALASAGSTLVELFGLARELD----ETAEGIDIGPSPQDAQLAADLALPI 251 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 EEL+L+VRS NCL+ E I +G+LI RTEAD+L + NFG+KS+ E+K L MGL L + Sbjct: 252 EELDLTVRSYNCLKREGINSVGELIGRTEADLLDIRNFGQKSIDEVKMKLAGMGLGLKDS 311 Query: 321 LPDWPPESI 329 P++ P + Sbjct: 312 APNFDPAHV 320 >gi|239933876|ref|ZP_04690829.1| DNA-directed RNA polymerase subunit alpha [Streptomyces ghanaensis ATCC 14672] Length = 329 Score = 226 bits (576), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 126/312 (40%), Positives = 193/312 (61%), Gaps = 18/312 (5%) 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 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA-------- 255 ++T ++ D++A A + L + G+ +E+ +I + + P+ Sbjct: 187 DVETKQAMRPRDAMASAGKTLVELFGL-------AREL--NIGAEGIDMGPSPTDAALAA 237 Query: 256 -LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 L +EELEL+VRS NCL+ E + +G+L+ R+EAD+L + NFG KS+ E+K L +G Sbjct: 238 DLALPIEELELTVRSYNCLKREGVHSVGELLARSEADLLDIRNFGAKSIDEVKAKLAGLG 297 Query: 315 LFLGMNLPDWPP 326 L L + P + P Sbjct: 298 LALKDSPPGFAP 309 >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 = 226 bits (576), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 130/308 (42%), Positives = 190/308 (61%), Gaps = 16/308 (5%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E+R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGV HE S+I GV ED+T+ Sbjct: 16 ESRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVQHEFSTIPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 +ILNIKG+ + D + + K+G GVVTA DI +EV NPD I L+ + Sbjct: 76 VILNIKGLVVSSEHDEPVVMYLRKQGAGVVTAADIAPPAGVEVHNPDLEIATLNDKGSIE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MELTV +G GYV A +++ IG I +D++YSP+ V+Y VE+ R Q D+DKL + Sbjct: 136 MELTVERGRGYVSAALNKSAEQEIGRIPVDSIYSPVLAVTYKVEATRVEQRTDFDKLIVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKK--- 259 ++T S+ D++A A L + G+ +N E E I++ P + AL + Sbjct: 196 VETKNSMAPRDAMASAGSTLVELFGLARELNVE------AEGIDMGPSPTDAALAEDLAL 249 Query: 260 -VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+ L MGL Sbjct: 250 PIEDLDLTVRSYNCLKREGIHTVGELVSRSEADLLDIRNFGSKSIHEVADKLRDMGL--- 306 Query: 319 MNLPDWPP 326 L D PP Sbjct: 307 -QLKDSPP 313 >gi|328813955|gb|AEB52093.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 261 Score = 226 bits (576), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 116/260 (44%), Positives = 173/260 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+T IILNI Sbjct: 2 FVVEPLERGYGTTLGNSLRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDVTQIILNI 61 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LKM+ D K + I GP VTA DI D+EVLNP+ IC + + +TV Sbjct: 62 KKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTV 121 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+G Sbjct: 122 KKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNG 181 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI+ ++++LA++IL + L +F+N + K + + + L +EEL+LSVRS Sbjct: 182 SISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEELDLSVRS 241 Query: 270 TNCLRGENIVYMGDLIQRTE 289 NCL+ I + +L +TE Sbjct: 242 YNCLKRAGINTVQELTNKTE 261 >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 = 226 bits (576), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 130/309 (42%), Positives = 189/309 (61%), Gaps = 12/309 (3%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 EE R+ + EPL GF +TLGN+LRR L+SS+ GA++T+++IDGVLHE S+I+GV ED+T Sbjct: 15 EEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIKIDGVLHEFSTIEGVKEDVT 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 +IILN+KG+ + D + + K G G VTA DI +EV NPD I L + Sbjct: 75 EIILNLKGLVVSSEHDEPVTMYLRKSGAGDVTAADIAPPAGVEVHNPDLKIATLSDKGKI 134 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +EL V +G GYV A ++ + IG I +D++YSP+ KVSY VE+ R Q D+DKL + Sbjct: 135 ELELVVERGRGYVSAVQNKGAENEIGRIPVDSIYSPVLKVSYKVEATRVEQRTDFDKLVI 194 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLK--- 258 ++T SI D++A A + L + G+ +N + E I++ P + L Sbjct: 195 DVETKPSIAPRDAIASAGKTLVELFGLARELNVD------AEGIDIGPSPVDEQLAADLA 248 Query: 259 -KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 VE+L+L+VRS NCL+ E I +G+LI R+E D+L + NFG KS+ E+K L MGL L Sbjct: 249 LPVEDLQLTVRSYNCLKREGIHTVGELISRSEQDLLDIRNFGAKSIDEVKLKLHEMGLSL 308 Query: 318 GMNLPDWPP 326 + P + P Sbjct: 309 KDSAPGFDP 317 >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 = 226 bits (576), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 122/284 (42%), Positives = 179/284 (63%), Gaps = 12/284 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA ++ I+GV HE +IKGV ED+T+II+N+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRMLISSLPGAAARSIDIEGVQHEFQAIKGVVEDVTEIIMNV 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I + + K ++I +GP VVTA DI +D+EV+N D I + M + V Sbjct: 83 KNIAFIIHSEEEKVLSINVKGPAVVTAADIAIDSDVEVVNVDQHIATVAEGGHFEMLIYV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G G+VPA ++ + PIG+I ID++Y+P+ KV+YTVE R GQ D+DKL + + T+G Sbjct: 143 GTGRGFVPADGNKRRDLPIGVIPIDSIYTPVSKVNYTVEKTRVGQSTDFDKLILDVTTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEV------KEDINVKSLPFNPALLKKVEEL 263 +I+ D++ALAS+IL L +F+ E K +ED V+ L +EEL Sbjct: 203 TISANDALALASKILISHLELFMEMSEQAKAADILVAKEEDNKVQMLEMT------IEEL 256 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 +LSVRS NCL+ I + +L +TE +M+++ N GRKSL E+K Sbjct: 257 DLSVRSYNCLKRAGINTVQELASKTEQEMIKVRNLGRKSLEEVK 300 >gi|328813969|gb|AEB52100.1| DNA-directed RNA polymerase alpha chain [Lactobacillus fermentum] Length = 275 Score = 226 bits (576), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 119/270 (44%), Positives = 180/270 (66%), 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 VVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + +++T KG GY A ++T 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|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 = 226 bits (576), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 126/309 (40%), Positives = 189/309 (61%), Gaps = 8/309 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV ED+ + Sbjct: 16 ETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTIPGVKEDVVE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 +++NIK + + D + + K+GPG VTAGDIQ + V NPD + L+ + Sbjct: 76 LVMNIKELCVSSEHDEPVSMYLRKQGPGDVTAGDIQPPAGVSVHNPDLKLATLNGKGRLD 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 136 MELTVERGRGYVTAAQNKQAGAEIGRIPVDSIYSPVLKVTYRVEATRVEQRTDFDRLIID 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK----KV 260 ++T S+ ++A A L + G+ + E E I++ P + L + Sbjct: 196 VETKPSMGPRTALASAGSTLVELFGLARELD----ETAEGIDIGPSPQDAQLAADLALPI 251 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 EEL+L+VRS NCL+ E I +G+LI RTEAD+L + NFG+KS+ E+K L MGL L + Sbjct: 252 EELDLTVRSYNCLKREGINSVGELIGRTEADLLDIRNFGQKSIDEVKMKLAGMGLGLKDS 311 Query: 321 LPDWPPESI 329 P++ P + Sbjct: 312 APNFDPAHV 320 >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 = 226 bits (576), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 125/303 (41%), Positives = 195/303 (64%), Gaps = 10/303 (3%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E++ + EPL RG+ TLGN+LRR+++SSL GAA+T V+I+G+ HE+SSI GV ED Sbjct: 15 SEDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVTTVKIEGIKHELSSIPGVKED 74 Query: 82 LTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 +T+II+NIK + ++ D K I G GVVTA +IQ +DI + NPD VI L+ Sbjct: 75 VTEIIMNIKSLAIRNDSETDEPKTAYIEFEGEGVVTAANIQADSDITITNPDQVIATLNG 134 Query: 140 DAVVR--MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 R MEL + +GHGYV A +++++ I +I ID++Y+P+++V+ +E+ R G + D Sbjct: 135 GNNCRLYMELNIGRGHGYVSADKNKSDDLAIDVIPIDSIYTPVERVNINIENTRVGHMTD 194 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP--- 254 YDKL++ + T+G++ +++V+LA+R++ + L FI+ E K V D+ V P N Sbjct: 195 YDKLTLEVYTNGTMGPDEAVSLAARVMSEHLNSFIDLSENAKVV--DVMVAK-PDNERGR 251 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 L ++ELELSVR+ NCL+ I + +L+ +T DM+++ N G KSL EIK + +G Sbjct: 252 VLEMSIDELELSVRAFNCLKRSGINTVQELVGKTHEDMMKVRNLGNKSLEEIKAKIKALG 311 Query: 315 LFL 317 L L Sbjct: 312 LSL 314 >gi|190411121|gb|ACE78315.1| RpoA [Vibrio parahaemolyticus] Length = 263 Score = 226 bits (576), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 117/266 (43%), Positives = 180/266 (67%), Gaps = 8/266 (3%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRV 104 ALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G + Sbjct: 1 ALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFI 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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++ + + + + F+P LL+ V +LEL+VRS NCL+ E I Y Sbjct: 181 ATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVNDLELTVRSANCLKAEAIHY 237 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEI 306 +GDL+QRTE ++L+ N G+KSL EI Sbjct: 238 IGDLVQRTEVELLKTPNLGKKSLTEI 263 >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 = 226 bits (575), Expect = 5e-57, Method: Compositional matrix adjust. Identities = 134/312 (42%), Positives = 187/312 (59%), Gaps = 28/312 (8%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 EYI + +R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+I+GVLHE +++ Sbjct: 12 EYI-----DSSRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRIEGVLHEFTTV 66 Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHV 133 GV ED++DIILNIKG L +S DS VT++ K GPG VTAGDI +E+ NPD Sbjct: 67 PGVTEDVSDIILNIKG--LVLSSDSDDPVTMYIRKEGPGEVTAGDIMPPAGVEIHNPDMH 124 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 I L+ + +EL V +G GYVPA E IG I +D +YSP+ KVSY VE+ R Sbjct: 125 IATLNEQGKLDIELVVERGRGYVPAAQATGE---IGRIPVDQIYSPVLKVSYKVEATRVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE--------PKKEVKEDI 245 Q D+D+L + ++T SIT D++A A L + G+ P + E I Sbjct: 182 QRTDFDRLVIDVETKNSITARDAMASAGGTLVELFGLARELNTAAEGIEIGPSPQESEHI 241 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +P +E+L SVRS NCL+ E I +G+L RTE+D+L + NFG+KS+ E Sbjct: 242 QAYGMP--------IEDLNFSVRSYNCLKREEIHTVGELASRTESDLLDIRNFGQKSINE 293 Query: 306 IKGVLGTMGLFL 317 +K L +GL L Sbjct: 294 VKVKLAGLGLAL 305 >gi|325684745|gb|EGD26899.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus delbrueckii subsp. lactis DSM 20072] Length = 312 Score = 226 bits (575), Expect = 5e-57, Method: Compositional matrix adjust. Identities = 128/316 (40%), Positives = 189/316 (59%), Gaps = 16/316 (5%) 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK------EV 241 ES R G+ D+DKL++ I T+GSI D++ A+R+L + F + + + E Sbjct: 179 ESTRVGKREDFDKLTLEIWTNGSIAPNDALNFAARVLVEHFKAFESADAAAEIGEVMVEQ 238 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + D K L +E+L+LSVRS NCL+ I + DL ++EA+M+R+ N GRK Sbjct: 239 ENDQKEKKLEMT------IEDLDLSVRSYNCLKRAGINTLQDLTVKSEAEMMRVRNLGRK 292 Query: 302 SLVEIKGVLGTMGLFL 317 SL E+K L +GL L Sbjct: 293 SLEEVKNKLADLGLSL 308 >gi|289524818|emb|CBJ94465.1| alpha subunit of RNA polymerase [Vibrio sp. Rd 16.2] Length = 267 Score = 226 bits (575), Expect = 5e-57, Method: Compositional matrix adjust. Identities = 118/268 (44%), Positives = 179/268 (66%), Gaps = 8/268 (2%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVT 115 G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V Sbjct: 3 GCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVV 62 Query: 116 AGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLI 171 AGDI D+E+ NP+HVIC+L D +A + M + V +G GYVPA H + PIG + Sbjct: 63 AGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRL 122 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F Sbjct: 123 LVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAF 182 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 ++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE + Sbjct: 183 VDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVE 239 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +L+ N G+KSL EIK VL + GL LGM Sbjct: 240 LLKTPNLGKKSLTEIKDVLASRGLSLGM 267 >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 = 226 bits (575), Expect = 5e-57, Method: Compositional matrix adjust. Identities = 125/309 (40%), Positives = 194/309 (62%), Gaps = 6/309 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV ED+T+ Sbjct: 16 EYRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTIAGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 I+LN+KG+ + D + + K+GPG VTA DI + + P+ I L+ + Sbjct: 76 IVLNVKGLEVSSVEDEPATLYLRKQGPGPVTAADIVAPAGVTITKPETHIATLNDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MEL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 136 MELVVERGRGYVPAVQNKDSGAEIGRIPVDSIYSPVLKVTYQVEATRVEQRTDFDRLILD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLK-KVE 261 ++T SIT D+VA A + L + G+ +N E+ +V + N A L +E Sbjct: 196 VETKSSITPRDAVASAGKTLVELFGLARELNLAAEGIEIG---SVAAATNNIASLGLPIE 252 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +L L+VRS NCL+ E + +G+L+ R+E+D+L + NFG+KS+ E+K L T+GL L + Sbjct: 253 DLHLTVRSYNCLKREGVHTIGELVARSESDLLDIRNFGQKSIDEVKLKLYTLGLALKDSP 312 Query: 322 PDWPPESIE 330 ++ P +I+ Sbjct: 313 ANFDPSNID 321 >gi|254776830|ref|ZP_05218346.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium avium subsp. avium ATCC 25291] Length = 347 Score = 226 bits (575), Expect = 5e-57, Method: Compositional matrix adjust. Identities = 128/315 (40%), Positives = 197/315 (62%), Gaps = 20/315 (6%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T Sbjct: 16 DNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTA 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+K +L +S + + VT++ K+GPG VTAGDI + V NP+ I L+ Sbjct: 76 IILNLK--SLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPELHIATLNDKGK 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ R Q D+DKL Sbjct: 134 LEVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDATRVEQRTDFDKLI 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNP 254 + ++T SIT D++A A + L + G+ +N E P + I +LP Sbjct: 194 LDVETKSSITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPPEADHIASFALP--- 250 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +G Sbjct: 251 -----IDDLDLTVRSYNCLKREGVHTVGELVSRTESDLLDIRNFGQKSIDEVKVKLHQLG 305 Query: 315 LFLGMNLPDWPPESI 329 L L + P + P + Sbjct: 306 LSLKDSPPSFDPSQV 320 >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 = 226 bits (575), Expect = 5e-57, Method: Compositional matrix adjust. Identities = 128/315 (40%), Positives = 197/315 (62%), Gaps = 20/315 (6%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T Sbjct: 16 DNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTA 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+K +L +S + + VT++ K+GPG VTAGDI + V NP+ I L+ Sbjct: 76 IILNLK--SLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPELHIATLNDKGK 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ R Q D+DKL Sbjct: 134 LEVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDATRVEQRTDFDKLI 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNP 254 + ++T SIT D++A A + L + G+ +N E P + I +LP Sbjct: 194 LDVETKSSITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALP--- 250 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +G Sbjct: 251 -----IDDLDLTVRSYNCLKREGVHTVGELVSRTESDLLDIRNFGQKSIDEVKVKLHQLG 305 Query: 315 LFLGMNLPDWPPESI 329 L L + P + P + Sbjct: 306 LSLKDSPPSFDPSQV 320 >gi|332042695|gb|EGI78895.1| DNA-directed RNA polymerase, alpha subunit [Lacinutrix algicola 5H-3-7-4] Length = 330 Score = 226 bits (575), Expect = 6e-57, Method: Compositional matrix adjust. Identities = 121/298 (40%), Positives = 187/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL+SSL G AIT+++I+GV HE S++ GV ED+T+IILN+K + Sbjct: 28 PLEPGYGLTVGNALRRVLLSSLEGFAITSIRIEGVDHEFSTVAGVVEDVTEIILNLKQMR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + ++ V+I G +TAGD Q ++ +VLN D VICNLD + ME+T+ Sbjct: 88 FKRQIEDVDNESVSISISGQDKITAGDFQKFISGFQVLNSDLVICNLDPKVSITMEITIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ + PIG I D++Y+PIK V Y++E+ R Q DY+KL I +DGS Sbjct: 148 KGRGYVPAEENKKASAPIGTIFTDSIYTPIKNVKYSIENYRVEQKTDYEKLVFEIQSDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I+ +D++ A++ L +F I E + E + +SL L K+ +++LS Sbjct: 208 ISPQDALTEAAKTLIHHFMLFSDERITLEADEIAQTETYDEESLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ + D+++ NFG+KSL E++ ++ GL GM+L + Sbjct: 268 VRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKKSLTELEELVNVKGLNFGMDLSKY 325 >gi|158148901|dbj|BAF81985.1| RNA polymerase alpha subunit [Lactobacillus parabrevis] Length = 246 Score = 226 bits (575), Expect = 6e-57, Method: Compositional matrix adjust. Identities = 114/245 (46%), Positives = 167/245 (68%), Gaps = 4/245 (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 GHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 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 TNCLR 274 NCL+ Sbjct: 241 YNCLK 245 >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 = 225 bits (574), Expect = 6e-57, Method: Compositional matrix adjust. Identities = 131/304 (43%), Positives = 191/304 (62%), Gaps = 23/304 (7%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +++R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++I+GVLHE ++I GV ED++ Sbjct: 15 DDSRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSLRIEGVLHEFTTIPGVKEDVS 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 DIILNIK +L +S DS + V++F K GPG VT D++ +EV N D I L+ Sbjct: 75 DIILNIK--SLVLSSDSDEPVSMFIRKEGPGEVTGADVEVPAGVEVHNQDLHIATLNEQG 132 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + +E+TV +G GYVPA +E IG I +D +YSP+ KVSY VE+ R Q D+DKL Sbjct: 133 KLEIEMTVERGRGYVPAATASSE---IGRIPVDQIYSPVLKVSYKVEATRVEQRTDFDKL 189 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFN 253 + ++T SIT D++A A + L + G+ +N E P + E I S+P Sbjct: 190 ILDVETKNSITARDAMASAGKTLVELFGLAQELNHEAEGIEIGPSPQESEHIAAYSMP-- 247 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +E+L SVRS NCL+ E I +G+L RTE+D+L + NFG+KS+ E+K L + Sbjct: 248 ------IEDLNFSVRSYNCLKREEIHTVGELAARTESDLLDIRNFGQKSINEVKVKLAGL 301 Query: 314 GLFL 317 GL L Sbjct: 302 GLGL 305 >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 = 225 bits (574), Expect = 6e-57, Method: Compositional matrix adjust. Identities = 125/316 (39%), Positives = 191/316 (60%), Gaps = 8/316 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E I+P +V+ EN + EPL RG+ TLGN++RRVL+SSL GAA+ A+ I Sbjct: 1 MSEFIRPQ----VVVEDISENLARVNVEPLERGYGDTLGNSMRRVLLSSLEGAAVEAISI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVND 124 DGV HE S+I GV+ED+TDI+LN+KG+ + +G S +I GP V AGD + Sbjct: 57 DGVQHEFSTIPGVYEDVTDIVLNVKGLVFRSNGTGSEAEASISVDGPCTVVAGDFLIPAE 116 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +++N DH IC L A + M + + G YV + E+DPIG+I +D+L+SP+ + + Sbjct: 117 FDLINKDHHICTLCEGAHLSMRMRIGMGRSYVSGDDNEREDDPIGVIHVDSLFSPVTRCA 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 VE R GQ +YD+L + ++T+GSI+ D+V A+ I+ + F++ E ++E ED Sbjct: 177 KVVEPCRVGQHTNYDRLILEVETNGSISPRDAVIQAADIINQHMCAFMDLAEDEQEPLED 236 Query: 245 INVKSL---PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ S N L K++E+L+LSVRS NCL+ I + L++ +E D+L + NFG K Sbjct: 237 ASIFSTVEEEDNTELDKQIEDLDLSVRSYNCLKRAGIHNVRQLVEFSENDLLNIRNFGVK 296 Query: 302 SLVEIKGVLGTMGLFL 317 S+ E++ L GL L Sbjct: 297 SIEEVREKLEAAGLGL 312 >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 = 225 bits (574), Expect = 6e-57, Method: Compositional matrix adjust. Identities = 128/315 (40%), Positives = 192/315 (60%), Gaps = 22/315 (6%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I G+ E++++I Sbjct: 17 NRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTINGIKENVSEI 76 Query: 86 ILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 ILN+K N+ +S DS + V ++ K GPG VTAGDI+ D+ + NPD I +L+ A + Sbjct: 77 ILNVK--NIVLSSDSDEPVVLYLSKEGPGDVTAGDIELTADVAIHNPDLHIASLNDSARL 134 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 MEL V +G GYVPA + G I +D +YSP+ +V+Y VE+ R Q D+DKL + Sbjct: 135 EMELVVERGRGYVPAMPYA--GGEAGRIPVDQIYSPVTRVAYKVEATRVEQRTDFDKLII 192 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEE--------PKKEVKEDINVKSLPFNPA 255 ++T S+T D++A A L + G+ P + E I +LP Sbjct: 193 DVETKNSMTARDALASAGSTLVELFGLARELNTAAEGLEIGPSPQETEYIAAYNLP---- 248 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 +E+L SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L ++GL Sbjct: 249 ----IEDLNFSVRSYNCLKRQEIHSVGELAEYTESDLLDIRNFGQKSINEVKIKLASLGL 304 Query: 316 FLGMNLPDWPPESIE 330 L D+ P IE Sbjct: 305 TLKDAPEDFDPTQIE 319 >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 = 225 bits (574), Expect = 7e-57, Method: Compositional matrix adjust. Identities = 128/306 (41%), Positives = 186/306 (60%), Gaps = 12/306 (3%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +T+GNALRR L+SS+ GAA+T+++IDGVLHE S+I GV ED+T+ Sbjct: 16 EFRSRFVIEPLEPGFGYTIGNALRRSLLSSIPGAAVTSIRIDGVLHEFSTIPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILNIK + + D + K G G VTA DI +EV NPD VI L+ A Sbjct: 76 IILNIKQLVVSSERDEPITAYLRKTGSGEVTAADISAPAGVEVHNPDLVIATLNDTAKFE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELT+ +G GYV A +R E G I ID++YSP+ KVSY VE+ R G+ D+DKL + Sbjct: 136 LELTIERGRGYVSATQNRNEYAEAGQIPIDSIYSPVLKVSYRVEATRAGERTDFDKLVLD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKK--- 259 +++ SI D+VA A R L + G+ +N E E I + P L + Sbjct: 196 VESKPSIAPRDAVASAGRTLTELFGLARELNVE------AEGIEIGPAPVETVLSNELSM 249 Query: 260 -VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L+LSVRS NCL+ E I + +L+ +E ++ + NFG+KS+ E++ L ++GL L Sbjct: 250 PIEDLDLSVRSYNCLKREGINTVSELVALSETQLMNIRNFGQKSVDEVRDKLVSLGLSLK 309 Query: 319 MNLPDW 324 ++P + Sbjct: 310 DSVPGF 315 >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 = 225 bits (574), Expect = 7e-57, Method: Compositional matrix adjust. 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 PAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A ++ D 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|300932966|ref|ZP_07148222.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium resistens DSM 45100] Length = 337 Score = 225 bits (574), Expect = 7e-57, Method: Compositional matrix adjust. Identities = 133/310 (42%), Positives = 186/310 (60%), Gaps = 24/310 (7%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 EYI + +R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+I+GVLHE ++I Sbjct: 12 EYI-----DASRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRIEGVLHEFTTI 66 Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 GV ED++DIILNIK + L D + + K GPG VT DI +EV NPD I Sbjct: 67 PGVKEDVSDIILNIKSLVLSSDSDEPVVMNLHKEGPGAVTGADIMPPAGVEVHNPDLHIA 126 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 L+ + +EL V +G GYVPA +E IG I +D +YSP+ KVSY VE+ R Q Sbjct: 127 TLNEQGKLDIELVVERGRGYVPAATASSE---IGRIPVDQIYSPVLKVSYKVEATRVEQR 183 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINV 247 D+DKL + ++T SIT D++A A + L + G+ +N E P + E I Sbjct: 184 TDFDKLILDVETKNSITARDAMASAGKTLVELFGLAQELNNEAEGIEIGPSPQESEHIAA 243 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 S+P +E+L SVRS NCL+ E I +G+L RTE+D+L + NFG+KS+ E+K Sbjct: 244 YSMP--------IEDLNFSVRSYNCLKREEIHTVGELAARTESDLLDIRNFGQKSINEVK 295 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 296 VKLAGLGLGL 305 >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 = 225 bits (573), Expect = 8e-57, Method: Compositional matrix adjust. Identities = 135/320 (42%), Positives = 199/320 (62%), Gaps = 26/320 (8%) Query: 19 VLGQE--EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 LG+E E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ Sbjct: 8 ALGEETVNETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVP 67 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVI 134 GV ED+TDIILN+K L +S + + VT++ K+GPG VTA DI + V NPD I Sbjct: 68 GVKEDVTDIILNLK--ELVVSSEEDEPVTMYLRKQGPGEVTAADIVPPAGVTVHNPDLHI 125 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 +L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q Sbjct: 126 ASLNGKGKLEIELVVERGRGYVPALQNKQAGAEIGRIPVDSIYSPVLKVTYKVEATRVEQ 185 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDIN 246 D+DKL + ++T SIT D+VA A + L + G+ +N + P + + I Sbjct: 186 RTDFDKLILDVETKPSITPRDAVASAGKTLVELFGLARELNVDAEGIEIGPSPQEADTIA 245 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 ++P +E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+ Sbjct: 246 AYAMP--------IEDLDLTVRSYNCLKREGIHTVGELVSRSEADLLDIRNFGAKSIDEV 297 Query: 307 KGVLGTMGLFLGMNLPDWPP 326 K L +G LG+ L D PP Sbjct: 298 K--LKLVG--LGLALKDSPP 313 >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 = 225 bits (573), Expect = 8e-57, Method: Compositional matrix adjust. Identities = 118/298 (39%), Positives = 189/298 (63%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI ++I GV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGVTIGNALRRILLSSLEGFAINTIKIGGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K D +++V+I AGD+ + + EVLNPD VIC+LD A +++++T++ Sbjct: 88 FKQVVDEFENEKVSITVENTTEFKAGDMGKYLTGFEVLNPDLVICHLDAKASMQIDITIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + + ++ ID++Y+PI+ V Y+VE R Q DYDKL + + TDGS Sbjct: 148 KGRGYVPADENRQYSTDVNVLPIDSIYTPIRNVKYSVEPYRVEQKTDYDKLVLEVTTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I+ +D++ A++IL +F I E P+++ ++ + + L L K+ ++ LS Sbjct: 208 ISPKDALKEAAKILIYHFMLFSDEKITLENPEQDSNDEFDEEVLHMRQLLKTKLVDMNLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKKSLSELDDLLESLNLSFGTDISKY 325 >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 = 225 bits (573), Expect = 8e-57, Method: Compositional matrix adjust. Identities = 124/309 (40%), Positives = 190/309 (61%), Gaps = 8/309 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV ED+ + Sbjct: 30 ETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTIPGVKEDVVE 89 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 +++NIK + + D + + K+GPG VTAGDIQ + V NPD + L+ + Sbjct: 90 LVMNIKELCVSSEHDEPVSMYLRKQGPGDVTAGDIQPPAGVSVHNPDLKLATLNGKGRLD 149 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MELTV +G GYV A ++ IG I +D++YSP+ +V+Y VE+ R Q D+D+L + Sbjct: 150 MELTVERGRGYVTAAQNKQAGAEIGRIPVDSIYSPVLRVTYRVEATRVEQRTDFDRLIID 209 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK----KV 260 +++ S+ ++A A L + G+ + E E I++ P + L + Sbjct: 210 VESKPSMGPRTALASAGSTLVELFGLARELD----ETAEGIDIGPSPQDAQLAADLALPI 265 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 EEL+L+VRS NCL+ E I +G+LI RTEAD+L + NFG+KS+ E+K L MGL L + Sbjct: 266 EELDLTVRSYNCLKREGINTVGELIGRTEADLLDIRNFGQKSIDEVKMKLAGMGLGLKDS 325 Query: 321 LPDWPPESI 329 P++ P ++ Sbjct: 326 APNFDPANV 334 >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 = 225 bits (573), Expect = 9e-57, Method: Compositional matrix adjust. Identities = 122/306 (39%), Positives = 191/306 (62%), Gaps = 12/306 (3%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +TLGN++RR L+SS+ GAA+T+++IDGVLHE S++ GV ED+T+ Sbjct: 16 EFRSRFVIEPLEPGFGYTLGNSIRRTLLSSIPGAAVTSIRIDGVLHEFSTVAGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 +ILNIK NL +S + + +T + K+G G VTA DI +E+ NP+ VI L+ A Sbjct: 76 VILNIK--NLVVSSEHDEPITAYLRKQGAGEVTAADISAPAGVEIHNPELVIATLNDKAK 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 +ELT+ +G GYV A +R+E G I +D++YSP+ KV+Y VE+ R G+ D+D+L Sbjct: 134 FELELTIERGRGYVTATQNRSEFSEAGQIPVDSIYSPVLKVTYRVEATRAGERTDFDRLV 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK--- 259 + ++T +IT D++A A R L + G+ E I + P + L + Sbjct: 194 VDVETKSAITPRDAIASAGRTLTELFGLAREL----NTAAEGIEIGPAPVDAVLSTELSM 249 Query: 260 -VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L+LSVRS NCL+ E I + +L+ +E ++ + NFG+KS+ E++ L MGL L Sbjct: 250 PIEDLDLSVRSYNCLKREGINTVSELVALSETQLMNIRNFGQKSVDEVRDKLVEMGLSLK 309 Query: 319 MNLPDW 324 ++P + Sbjct: 310 DSVPGF 315 >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 = 225 bits (573), Expect = 9e-57, Method: Compositional matrix adjust. Identities = 122/298 (40%), Positives = 185/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL+SSL G AIT+V+++GV HE S+I GV ED T+IILN+K + Sbjct: 15 PLEPGYGLTVGNALRRVLLSSLEGFAITSVRVEGVDHEFSTIAGVVEDFTEIILNLKQVR 74 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K D ++ VTI +TAGD Q ++ ++LNPD VI N++ + ME+TV Sbjct: 75 FKRQIDEIDNETVTISVSDKEQLTAGDFQKFISGFQILNPDLVIANMEKSVNINMEITVE 134 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ +N P+G I D++Y+PIK V Y++E+ R Q DY+KL I TDGS Sbjct: 135 KGRGYVPAEENKKQNAPVGTIFTDSIYTPIKNVKYSIENYRVEQKTDYEKLVFEIITDGS 194 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A++ L +F I E + E + +SL L K+ +++LS Sbjct: 195 IHPKDALTEAAKTLIHHFMLFSDERITLEADEIAQTETYDEESLHMRQLLKTKLVDMDLS 254 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ + D+++ NFG+KSL E++ ++ GL GM+L + Sbjct: 255 VRALNCLKAAEVETLGDLVSYNKNDLMKFRNFGKKSLTELEELVNVKGLNFGMDLSKY 312 >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 = 225 bits (573), Expect = 9e-57, Method: Compositional matrix adjust. Identities = 123/316 (38%), Positives = 193/316 (61%), Gaps = 9/316 (2%) Query: 6 WQELIKPN-NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 E I+P+ ++E I N + AEPL RG+ TLGN+LRRVL+SSL G+A+ A+Q Sbjct: 1 MSEFIRPSVSVEEI-----GANAARVSAEPLERGYGDTLGNSLRRVLLSSLEGSAVEAIQ 55 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVN 123 IDGV HE +++ GV+ED+TDI+LN+K + + D +I GP VVT DI Sbjct: 56 IDGVQHEFTTVDGVYEDVTDIVLNVKCLVFRSLEDIDEAEASITVDGPKVVTGADIDVPT 115 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NP+ IC L A + M L + KG GYV + + ++DPIG I++D+++SP+++ Sbjct: 116 GFELVNPEQHICTLSDGAHLAMRLRIGKGRGYVSGEDNERDDDPIGFISVDSIFSPVRRC 175 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + VE R G+ DYD+L + ++T+G+I+ ++V A+ I+ +G F+ E + ++E Sbjct: 176 AKAVEPCRVGRHTDYDRLVLEVETNGAISPREAVVEAANIINQHMGAFMGLSEVDESLEE 235 Query: 244 D--INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + + L K+VE+L+LSVRS NCL+ I + L+ +E D+L + NFG K Sbjct: 236 TSIFASEDVQDDSELDKQVEDLDLSVRSYNCLKRAGIHSVRQLVDFSENDLLNIRNFGVK 295 Query: 302 SLVEIKGVLGTMGLFL 317 S+ E+K L MGL L Sbjct: 296 SIEEVKEKLEAMGLSL 311 >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 = 225 bits (573), Expect = 9e-57, Method: Compositional matrix adjust. Identities = 124/309 (40%), Positives = 190/309 (61%), Gaps = 8/309 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV ED+ + Sbjct: 16 ETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTIPGVKEDVVE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 +++NIK + + D + + K+GPG VTAGDIQ + V NPD + L+ + Sbjct: 76 LVMNIKELCVSSEHDEPVSMYLRKQGPGDVTAGDIQPPAGVSVHNPDLKLATLNGKGRLD 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MELTV +G GYV A ++ IG I +D++YSP+ +V+Y VE+ R Q D+D+L + Sbjct: 136 MELTVERGRGYVTAAQNKQAGAEIGRIPVDSIYSPVLRVTYRVEATRVEQRTDFDRLIID 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK----KV 260 +++ S+ ++A A L + G+ + E E I++ P + L + Sbjct: 196 VESKPSMGPRTALASAGSTLVELFGLARELD----ETAEGIDIGPSPQDAQLAADLALPI 251 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 EEL+L+VRS NCL+ E I +G+LI RTEAD+L + NFG+KS+ E+K L MGL L + Sbjct: 252 EELDLTVRSYNCLKREGINSVGELIGRTEADLLDIRNFGQKSIDEVKMKLAGMGLGLKDS 311 Query: 321 LPDWPPESI 329 P++ P ++ Sbjct: 312 APNFDPANV 320 >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 = 225 bits (573), Expect = 9e-57, Method: Compositional matrix adjust. Identities = 130/321 (40%), Positives = 197/321 (61%), Gaps = 16/321 (4%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E+R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S+I GV ED+T+ Sbjct: 16 EHRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFSTIPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILNIKG+ + D + + K+G G VTA DI +EV+NPD I L+ + Sbjct: 76 IILNIKGLVVSSEHDEPVVMYLRKQGSGAVTAADIAPPAGVEVINPDLHIATLNDKGSIE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MELTV +G GYV A+ +++ + IG I +D++YSP+ V+Y VE R Q D++ L + Sbjct: 136 MELTVERGRGYVSAQQNKSGDQEIGRIPVDSIYSPVLNVTYKVELTRVEQRTDFNSLVLD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----FNPALLK 258 ++T ++T D++A A + L + G+ +N E E I++ P L Sbjct: 196 VETKQAVTPRDALASAGKTLVELFGLARELNVE------AEGIDMGPSPTDAALAADLAL 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K L MGL L Sbjct: 250 PIEDLDLTVRSYNCLKREGIHTVGELVGRSEADLLDIRNFGQKSIDEVKAKLHGMGLALK 309 Query: 319 MNLPDWPPESIEELAKKYEDK 339 + + P I Y+D+ Sbjct: 310 DSPAGFDPSQI----ASYDDE 326 >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 = 225 bits (573), Expect = 9e-57, Method: Compositional matrix adjust. Identities = 122/313 (38%), Positives = 190/313 (60%), Gaps = 6/313 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 +V+ + ++ +PL RG+ T+GNALRR+L+SSL G AIT+V+ GVLHE S+I+G Sbjct: 12 VVMEKADDFHGFFEFKPLERGYGVTIGNALRRILLSSLEGYAITSVRFPGVLHEFSAIEG 71 Query: 78 VHEDLTDIILNIKGINLKMSGDS-HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVIC 135 V +D+T+I+LN+K + K D ++T+ + +TAGDI + + E+LNPD VI Sbjct: 72 VVDDVTEIVLNLKQVRFKKIADYVDNKITVKVKNQTEITAGDIGKYTSSFEILNPDLVIA 131 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 LD + E+ V KG GYVP++ +T + PIG I ID++Y+PIK V Y++E+ R Q Sbjct: 132 RLDSKKELEFEIIVDKGRGYVPSEEQKTADLPIGFIAIDSIYTPIKNVKYSIENTRVEQR 191 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKSLP 251 DY+KL + I TDGSI E ++ AS IL F + F+ E ++ + L Sbjct: 192 TDYEKLLLEIKTDGSIHPEKALQEASHILIQHFLKFTDENMVFDSKSDEEDNMVDEEFLH 251 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L +++L+LSVR+ NCL+ +I +GDL + ADM++ NFG+KSL E++ ++ Sbjct: 252 MRKLLKTPLQDLDLSVRAYNCLKSADIRTLGDLARLEVADMMKFRNFGKKSLTELEQLIA 311 Query: 312 TMGLFLGMNLPDW 324 L GM++ + Sbjct: 312 DKQLHFGMDVSKY 324 >gi|328814015|gb|AEB52123.1| DNA-directed RNA polymerase alpha chain [Lactobacillus rhamnosus] Length = 273 Score = 225 bits (573), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 116/266 (43%), Positives = 174/266 (65%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E N + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDGVLHE S+I GV ED+ Sbjct: 8 ESTNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDGVLHEFSTIDGVLEDV 67 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILNIK + LKM+ D K + I GP VTA DI D+EVLNP+ IC + Sbjct: 68 TQIILNIKKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGH 127 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +TV KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL+ Sbjct: 128 FHVRMTVKKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLT 187 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + + T+GSI+ ++++LA++IL + L +F+N + K + + + L +EE Sbjct: 188 LDVWTNGSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEE 247 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRT 288 L+LSVRS NCL+ I + +L +T Sbjct: 248 LDLSVRSYNCLKRAGINTVQELTNKT 273 >gi|268609564|ref|ZP_06143291.1| DNA-directed RNA polymerase, alpha subunit [Ruminococcus flavefaciens FD-1] Length = 321 Score = 224 bits (572), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 121/293 (41%), Positives = 191/293 (65%), Gaps = 5/293 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG----VLHEISSIKGVHEDLTDI 85 + PL RG+ TLGN+LRRVL+SSL G A+T+V++ G V HE+S+I GV ED+T+I Sbjct: 24 FVLAPLERGYGITLGNSLRRVLLSSLPGVAVTSVKLSGKDGTVHHELSTIPGVKEDVTEI 83 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 IL+IKG+ K+ G+ K V I G +TAGDI+T +++ +L+P I L DA + M Sbjct: 84 ILSIKGLTAKLYGEGPKTVYIEAEGECEITAGDIKTDSEVNILDPGMHIATLGKDAKLYM 143 Query: 146 ELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 E+T+ +G GYV A+ ++ + N P+ +I +D++Y+P+ KV+YTVE R GQV DYDKL+M Sbjct: 144 EITIDRGRGYVSAERNKKQINLPVDVIAVDSIYTPVLKVNYTVEDTRLGQVTDYDKLTME 203 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 + TDG+I+ +++++ A+ +L + L +FI+ E + + L +E+L+ Sbjct: 204 VWTDGTISAKEALSQAANLLGEHLKLFIDLSEEAGLAEVLVEKDEKGKEKILEMTIEDLD 263 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LSVRS NCL+ I + DLI ++E +M+++ N G+KS E+K L ++G L Sbjct: 264 LSVRSFNCLKRAGINTVDDLINKSEEEMMKVRNLGKKSFDEVKEKLQSLGFDL 316 >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 = 224 bits (572), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 121/289 (41%), Positives = 183/289 (63%), Gaps = 6/289 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 EN EPL G+ HTLGNALRRVL+SS+ GAAIT ++IDGV HE S+I G+ ED+T+ Sbjct: 16 ENYGRFKIEPLDPGYGHTLGNALRRVLLSSIPGAAITKIKIDGVFHEFSTISGIKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV-DAVV 143 I+LNIKG+ L+ + ++++ KRG G+V A DI +++E++NP H IC +D DA++ Sbjct: 76 IVLNIKGVRLRSYAERPVKISLSKRGSGIVRAADIDAPSNVEIVNPFHYICTIDRDDAML 135 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 ME+TV +G GY+PA + PIG I IDA+++P+ KV+Y VE+ R GQ D+D L + Sbjct: 136 EMEMTVERGRGYLPADQR--DALPIGEIPIDAIFTPVPKVNYVVENIRVGQATDFDSLLI 193 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL--KKVE 261 I TDG+I D+++ A+++L +F E + L PA + +E Sbjct: 194 EIWTDGTIKPGDALSHAAQVLVQYSQTIADFNRLSTETESTAAPNGLAI-PADIYDTPIE 252 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 EL+LS R+ NCL+ +I +G +++ E +L + N G+KS+ EI+ L Sbjct: 253 ELDLSTRTYNCLKRADITKVGQVLEMDEKALLSVRNLGQKSMEEIRDKL 301 >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 = 224 bits (572), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 118/295 (40%), Positives = 190/295 (64%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+ + + + EPL G+ T+GN+LRRVL+SSL GA+++ V I G HE ++I GV ED+ Sbjct: 16 EDGKKGIFVVEPLESGYGITIGNSLRRVLLSSLPGASVSFVNIRGAEHEFATIPGVLEDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 +IILNIK + ++M+ VTI K+GPG +TA DI + ++NP+ I L+ DA Sbjct: 76 PEIILNIKSVVIQMTEIDEALVTIEKKGPGEITAEDINCPLGVTIVNPEEHIATLNEDAD 135 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 V +E+ + +G GYVP++ + E IG+I ID+ ++P++ V++ VE+ R GQ DYD+L Sbjct: 136 VYIEMKIERGRGYVPSELKKDEVSTIGVIPIDSNFTPVRHVNWKVENTRVGQRTDYDRLV 195 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + + TDGS+ +++ +LA++IL + L +FI E +V + + L VEE Sbjct: 196 LDVTTDGSMKADEATSLAAKILTEHLKLFIGLTEHVSDVNIMVEKEEDRKEKVLEMTVEE 255 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+LSVRS NCL+ NI + +L+ ++EA+M+++ N G+KSL E++ L +GL L Sbjct: 256 LDLSVRSFNCLKRANINTVEELVDKSEAEMMKVRNLGKKSLEEVQNKLAELGLGL 310 >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 = 224 bits (572), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 126/298 (42%), Positives = 182/298 (61%), Gaps = 12/298 (4%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ GV ED+T+I Sbjct: 17 QRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTTLPGVVEDVTEI 76 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 +LNIKGI L D + + K G G VTAGDI + + NPD I L D + + Sbjct: 77 LLNIKGIVLTSEYDEPVVMYLRKSGNGEVTAGDITPPAGVTIANPDQHIATLADDGELEI 136 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 E TV +G GYVPA+ ++ + D IG I +D++YSP+ KVSY VE+ R Q D+DKL + + Sbjct: 137 EFTVERGRGYVPAQMNKQDTDEIGRIPVDSIYSPVLKVSYKVEATRVEQRTDFDKLILDV 196 Query: 206 DTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPF----NPALLKK 259 +T +I+ D+VA A L + G+ +N + E + V P NP + Sbjct: 197 ETKPAISPRDAVASAGSTLVELFGLCRELNVQ------AEGVEVGPAPVAEETNPEMAVP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L +MGL L Sbjct: 251 IEDLNLTQRSYNCLKREGIHTIGELVAHTEQDLLDIRNFGMKSIDEVKDKLQSMGLSL 308 >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 = 224 bits (572), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 122/302 (40%), Positives = 186/302 (61%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +TLGN+LRR L+SS+ GA++T+++IDGVLHE S++ GV ED+TD Sbjct: 16 EFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRIDGVLHEFSTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 +ILN+K + + D + + K+GPG VTA DI +EV +P+ + L+ + Sbjct: 76 LILNLKELVVSSDNDEPTVMYLRKQGPGEVTAADIAPPAGVEVHSPELRLATLNDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 136 IELTVERGRGYVSAAQNKQAGQEIGRIPIDSIYSPVLKVTYKVEATRVEQRTDFDRLIVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 ++T SI+ D++A A + L G+ + V + L +EE++ Sbjct: 196 VETKPSISPRDAMASAGKTLVGLFGLAQELNAEAEGVDIGPSAADAALAADLALPIEEMD 255 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K LG MGL L + P + Sbjct: 256 LTVRSYNCLKREGIHTIGELVSRSEADLLDIRNFGQKSIDEVKTKLGAMGLQLKDSPPGF 315 Query: 325 PP 326 P Sbjct: 316 DP 317 >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 = 224 bits (571), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 121/298 (40%), Positives = 184/298 (61%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL+S+L G AIT+V+I+GV HE S+I GV ED+T+IILN+K + Sbjct: 28 PLEPGYGLTVGNALRRVLLSALEGYAITSVRIEGVDHEFSTISGVVEDVTEIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + ++ VTI G +TAGD Q ++ +VLNPD VICNLD + +LT+ Sbjct: 88 FKRQIEDIDNESVTISVSGKDQLTAGDFQKFISGFQVLNPDLVICNLDSKIKLNFDLTIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ +N IG I D++++P+K V Y +E+ R Q DY+KL I TDGS Sbjct: 148 KGRGYVPAEENKKQNAAIGTIFTDSIFTPVKNVKYAIENFRVEQKTDYEKLVFEIKTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A+++L +F I E + E + +SL L K+ +++LS Sbjct: 208 INPKDALTEAAKVLIHHFMLFSDERITLEADEIAQTESYDEESLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ + D+++ NFG+KSL E+ ++ L GM+L + Sbjct: 268 VRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKKSLTELDELVAVKNLTFGMDLAKY 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 = 224 bits (571), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 122/320 (38%), Positives = 196/320 (61%), Gaps = 16/320 (5%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 E +V+ + ++ L +PL +G+ T+GNALRR+L+SSL G AIT+++I GVLHE S+I Sbjct: 10 EKVVMEKADDFHGLFTFKPLEKGYGVTIGNALRRILLSSLEGYAITSIKIPGVLHEFSTI 69 Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHV 133 +GV ED+TDIILN+K + K ++ ++T+ + V TAGDI + + E+LNPD V Sbjct: 70 EGVVEDVTDIILNLKQVRFKKVHEAFDGKITVEIKNQSVFTAGDIAKFTSSFEILNPDLV 129 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 IC++D +E+TV KG GY+PA+ + + G I IDA+++PIK V Y+VE+ R Sbjct: 130 ICHIDESKNFEIEITVEKGRGYLPAEESKPKEQVFGQIAIDAIFTPIKNVKYSVENTRVE 189 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN---------FEEPKKEVKED 244 Q D++KL + + TDGSI E ++ +++IL +F + EP E Sbjct: 190 QKTDFEKLILEVSTDGSIHPEKALQESAKILIQHFMLFSDQTMVLDSTGIAEP-----EP 244 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 I+ + L L + +L+LSVR+ NCL+ ++ +GDL + +DM++ NFG+KSL Sbjct: 245 IDEEFLHMRKLLKTSLSDLDLSVRAFNCLKAADVKTLGDLAKLEISDMMKFRNFGKKSLA 304 Query: 305 EIKGVLGTMGLFLGMNLPDW 324 E++ ++ GL GM++ + Sbjct: 305 ELEQLIQEKGLTFGMDISKY 324 >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 = 224 bits (571), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 127/315 (40%), Positives = 193/315 (61%), Gaps = 8/315 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 Q EN EPL G+ HTLGNALRRVL+SS+ G+AIT ++IDGV HE S+I+GV ED Sbjct: 13 QAAENYGRFKIEPLDPGYGHTLGNALRRVLVSSIPGSAITKIKIDGVFHEFSTIEGVKED 72 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD- 140 +T+I+LNIKG+ L+ + +V + KRGPG+VTA DI ++IE++NP+H IC LD + Sbjct: 73 VTEIVLNIKGVRLRSYAERPVKVLLTKRGPGIVTAKDIDVPSNIELVNPNHYICTLDSEV 132 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 A + +E+TV +G GYV A + PIG I +DA+++P+ +V+Y VE+ R GQ D+D+ Sbjct: 133 ARLEIEMTVERGRGYVSADQR--DILPIGEIPVDAIFTPVPRVNYVVENTRIGQATDFDR 190 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL-KK 259 L + I TDG++ D+++ A+++L +F E +E L + Sbjct: 191 LLLEIWTDGTVKPGDALSHAAQVLVQYSQTIADFNRLAVEEEESPTPSGLTIPSDIYDTP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +E+L+LS R+ NCL+ +I +G ++Q E +L + N G+KS+ EI+ L G Sbjct: 251 IEDLDLSTRTYNCLKRADITKVGQVLQMDEKALLSVRNLGQKSMEEIRDRLVERGYISRQ 310 Query: 320 ----NLPDWPPESIE 330 +L D P +IE Sbjct: 311 AGNGSLSDSEPVTIE 325 >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 = 224 bits (571), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 126/298 (42%), Positives = 188/298 (63%), Gaps = 16/298 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL G+ T GN+LRR+L+SSL GAA+T++QIDGVLHE S+I GV +D+T I+L + Sbjct: 23 FICEPLEPGYGTTFGNSLRRMLLSSLDGAAVTSIQIDGVLHEFSTIPGVRDDVTSIVLAL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + ++M + + I G VTA DI+ +DIE+LNP+ I + +++E+TV Sbjct: 83 KQLCIRMQDSEPRTIRIEAAGAREVTAADIECGSDIEILNPELHIATMGETGKLKIEMTV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYVPA ++ +D IG+I ID+++SP+++V+YTVE R G V DYD+L + + T+G Sbjct: 143 ERGRGYVPADRNKKPDDVIGVIPIDSIFSPVQRVNYTVEDTRVGNVTDYDRLILEVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKE----------DINVKSLPFNPALLKK 259 SI E++V+ A+ IL L +F N + E +E D + K L Sbjct: 203 SIRPEEAVSKAAAILVMHLRLFQNMDGSVVEEEEEVPNFPPEEVDDSAKVLEMT------ 256 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +++L+LSVRS NCL+ I + DL Q+TE DM+++ N GRKSL E+K L +GL L Sbjct: 257 IDDLDLSVRSFNCLKRAGINTVADLAQKTEDDMMKVRNLGRKSLDEVKKKLEELGLSL 314 >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 = 224 bits (571), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 122/298 (40%), Positives = 190/298 (63%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRR+L+SSL G AIT+++IDGV HE +I GV ED+T+IILN+K + Sbjct: 28 PLEPGYGITIGNALRRILLSSLEGFAITSIKIDGVDHEFGTIPGVIEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K D +++V+I G V AGDI + + E+LNPD VIC LD A ++ELT++ Sbjct: 88 FKHIVDDIENEKVSITVSGSEVFKAGDIGKQLTGFEILNPDLVICRLDPTASFQIELTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R N I +I ID++++PI+ V Y++E+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPADENRDPNADIHVIAIDSIFTPIRNVKYSIENFRVEQKTDYEKLVLEIATDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++IL +F I E E E+ + + L L K+ +++LS Sbjct: 208 IHPKEALKEAAKILIHHFMLFSDEKIAIETADTEGNEEFDEEVLHMRQLLKSKLADMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +G+L++ + D+L+ NFG+KSL E+ +L ++ L GM++ + Sbjct: 268 VRALNCLKAADVETLGELVKFNKNDLLKFRNFGKKSLTELDELLESLNLSFGMDITKY 325 >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 = 224 bits (571), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 128/315 (40%), Positives = 197/315 (62%), Gaps = 20/315 (6%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+TD Sbjct: 16 DNRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+K +L +S + + VT++ K+GPG VTAGDI + V NP+ I L+ Sbjct: 76 IILNLK--SLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPEMHIATLNDKGK 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+DKL Sbjct: 134 LEVELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDKLI 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNP 254 + ++T SIT D++A A + L + G+ +N E P + I +LP Sbjct: 194 LDVETKNSITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALP--- 250 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +G Sbjct: 251 -----IDDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLG 305 Query: 315 LFLGMNLPDWPPESI 329 L L + + P + Sbjct: 306 LSLKDSPATFDPSEV 320 >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 = 224 bits (571), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 135/325 (41%), Positives = 195/325 (60%), Gaps = 28/325 (8%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 EYI + +R+ + EPL GF +T+GN++RR L+SS+ GAA+T+++IDGVLHE ++I Sbjct: 12 EYI-----DSSRSRFVFEPLEPGFGYTIGNSMRRTLLSSIPGAAVTSIKIDGVLHEFTTI 66 Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHV 133 GV ED+++IILN+K NL +S DS + V ++ K GPG VTAGDIQ +E+ NP+ Sbjct: 67 SGVKEDVSEIILNVK--NLVLSSDSDEPVVMYLSKEGPGAVTAGDIQPPAGVEIHNPELH 124 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 I L+ A + MEL V +G GYVPA T D IG I ID +YSP+ KVSY VE+ R Sbjct: 125 IATLNDTAKLDMELVVERGRGYVPAAP--TSGD-IGRIPIDQIYSPVLKVSYKVEATRVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE--------PKKEVKEDI 245 Q D+DKL + ++T SI+ D++A A L + G+ P + E I Sbjct: 182 QRTDFDKLIIDVETKNSISARDALASAGGTLVELFGLARELNTAAEGIEIGPSPQESEYI 241 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 S+P +E+L SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E Sbjct: 242 AAYSMP--------IEDLNFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINE 293 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIE 330 +K L + L L D+ P +E Sbjct: 294 VKIKLANLNLALKDTPEDFDPTQLE 318 >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 = 224 bits (570), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 129/312 (41%), Positives = 189/312 (60%), Gaps = 12/312 (3%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 EE R+ I EPL GF +T+GN+LRR L+SS+ GAA+T+++I+GVLHE S++ GV ED+T Sbjct: 21 EETRSKFIIEPLEPGFGYTIGNSLRRTLLSSIPGAAVTSIRIEGVLHEFSTVPGVKEDVT 80 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 DIILN+K + + D + + K+GPG VTA DI +EV NP+ I L+ A + Sbjct: 81 DIILNLKELVVSSEHDEPVVMYLRKQGPGEVTAADIAPPAGVEVHNPELRIATLNGKAKL 140 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 MELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 141 EMELTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSPVLKVTYKVEATRVEQRTDFDRLIL 200 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----FNPALL 257 ++T + D+VA A + L + G+ +N E E I++ P L Sbjct: 201 DVETKPCMKPRDAVASAGKTLVELFGLARELNVE------AEGIDIGPSPTDAALAADLA 254 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L M L L Sbjct: 255 LPIEELNLTVRSYNCLKREGIHTVGELVARSEQDLLDIRNFGAKSIEEVKQKLHEMTLAL 314 Query: 318 GMNLPDWPPESI 329 + P + P ++ Sbjct: 315 KDSPPGFDPSAV 326 >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 = 224 bits (570), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 121/298 (40%), Positives = 186/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL+SSL G AIT+++++GV HE S+I GV ED+T+IILN+K + Sbjct: 28 PLEPGYGLTIGNALRRVLLSSLEGFAITSLRVEGVDHEFSTIAGVVEDVTEIILNLKQLR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K D ++ VTI G V AGD Q ++ +VLNPD +ICN+D + ME+T+ Sbjct: 88 FKRQIDEIDNETVTISVSGNDKVVAGDFQKFISGFQVLNPDLIICNMDSKVNLNMEITIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ N P+G I D++++PIK V Y++E+ R Q DY+KL I +DGS Sbjct: 148 KGRGYVPAEENKKANAPLGTIFTDSIFTPIKNVKYSIENFRVEQKTDYEKLVFEITSDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A++ L +F I E + E + +SL L K+ +++LS Sbjct: 208 IHPKDALTEAAKTLIHHFMLFSDERITLEADEIAQTETYDEESLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ + D+++ NFG+KSL E++ ++ GL GM+L + Sbjct: 268 VRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKKSLTELEELVLVKGLNFGMDLAKY 325 >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 = 224 bits (570), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 119/298 (39%), Positives = 184/298 (61%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL+SSL G AIT++++D V HE S I G+ ED+T+IILN+K + Sbjct: 28 PLEPGYGLTVGNALRRVLLSSLEGFAITSIRVDKVEHEFSVISGIVEDVTEIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + + V++ G +TAGD Q ++ +VLNPD VICN+D MEL + Sbjct: 88 FKRQIEDVDSETVSVSVSGKNQLTAGDFQKFISGFQVLNPDLVICNMDAKVNFNMELVIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ PIG I ID++++PIK V Y++E+ R Q DY+KL I++DGS Sbjct: 148 KGRGYVPAEENKKSGAPIGTIAIDSIFTPIKNVKYSIENFRVEQKTDYEKLVFEIESDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 IT +D++ +++L +F I E + E + +SL L K+ +++LS Sbjct: 208 ITPKDALTEGAKVLIHHFMLFSDERITLEADEIAQTETYDEESLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ + D+++ NFG+KSL E++ ++ GL GM+L + Sbjct: 268 VRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKKSLTELEELVINKGLSFGMDLSKY 325 >gi|213420654|ref|ZP_03353720.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] Length = 271 Score = 224 bits (570), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 120/278 (43%), Positives = 182/278 (65%), Gaps = 12/278 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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 KK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLR 274 ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ Sbjct: 238 RQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLK 271 >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 = 224 bits (570), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 120/302 (39%), Positives = 187/302 (61%), Gaps = 4/302 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR+ I EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T+ Sbjct: 16 DNRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILNIK +++ D + K+GPGVVTA DI +E NPD I L+ Sbjct: 76 IILNIKNLSVSSEHDEPVVAYLRKQGPGVVTAADIAPPAGVEFHNPDLHIATLNSKGKFE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ R Q D+D+L + Sbjct: 136 LELTIERGRGYVSAAQNKSGDAEIGRIPVDSIYSPVLKVTFRVEATRVEQRTDFDRLIVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 ++T +I D+VA A L + G+ + ++ + + +E+L+ Sbjct: 196 VETKQAIAPRDAVASAGTTLVELFGLARELNTAAEGIEIGPSPTDAALAADMALPIEDLD 255 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L + LG++L D Sbjct: 256 LTVRSYNCLKREGIHTVGELVARSEADLMDIRNFGAKSIDEVKAKL----VELGLSLKDS 311 Query: 325 PP 326 PP Sbjct: 312 PP 313 >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 = 224 bits (570), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 121/298 (40%), Positives = 187/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL++SL G AIT+V+ID V HE S I+GV ED+T+IILN+K I Sbjct: 15 PLEPGYGLTVGNALRRVLLASLEGFAITSVRIDKVEHEFSVIEGVVEDVTEIILNLKQIR 74 Query: 94 LKMSGD--SHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K D + + V+I G +TAGD Q ++ +VLNPD VICN+D + ME+ + Sbjct: 75 FKRQIDDVNEETVSISVSGKEQLTAGDFQKFISGFQVLNPDLVICNMDPKVSINMEIIIE 134 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ N P+G I +D++++P++ V Y++E+ R Q DY+KL I TDGS Sbjct: 135 KGRGYVPAEENKKSNAPLGSIAVDSIFTPVRNVKYSIENYRVEQKTDYEKLVFEILTDGS 194 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A+++L +F I E + E + +SL L K+ +++LS Sbjct: 195 IHPKDALTEAAKVLIHHFMLFSDERITLEADEIAQTETYDEESLHMRQLLKTKLVDMDLS 254 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ + D+++ NFG+KSL E++ ++ GL GM+L + Sbjct: 255 VRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKKSLTELEELVINKGLNFGMDLSKY 312 >gi|169788447|emb|CAP58145.1| RNA polymerase [Lactobacillus rossiae] Length = 235 Score = 224 bits (570), Expect = 2e-56, Method: Compositional matrix adjust. 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 PAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A ++ D 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|157493287|gb|ABV58009.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 259 Score = 224 bits (570), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 116/265 (43%), Positives = 179/265 (67%), Gaps = 13/265 (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 KMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKG 152 +++ G +T+ K G G V AGDI D+E++NP+HVIC+L D 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++ + + + + F+P LL+ V++LEL+VRS Sbjct: 176 TLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRS 232 Query: 270 TNCLRGENIVYMGDLIQRTEADMLR 294 NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 233 ANCLKAEAIHYIGDLVQRTEVELLK 257 >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 = 224 bits (570), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 123/298 (41%), Positives = 186/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL+SSL G AIT+V+I+GV HE S+I GV ED+T+IILN+K + Sbjct: 28 PLEPGYGLTVGNALRRVLLSSLEGFAITSVRIEGVDHEFSTIPGVVEDVTEIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K D ++ VTI G +TAG Q ++ +VLNP+ VIC+LD + ME+T+ Sbjct: 88 FKRQIDEIDNEAVTISVSGEEELTAGHFQKFISGFQVLNPELVICHLDSKVNINMEITIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ N P+G I D++Y+PIK V Y++E+ R Q DY+KL I +DGS Sbjct: 148 KGRGYVPAEENKKANAPLGTIFTDSIYTPIKNVKYSIENYRVEQKTDYEKLVFEIISDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A++ L +F I E + E + +SL L K+ +++LS Sbjct: 208 IHPKDALTEAAKTLIHHFMLFSDERITLEADEIAQTETYDEESLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ + D+++ NFG+KSL E++ ++ GL GM+L + Sbjct: 268 VRALNCLKAAEVDTLGDLVSYNKNDLMKFRNFGKKSLTELEELVSNKGLNFGMDLSKY 325 >gi|328813989|gb|AEB52110.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 264 Score = 224 bits (570), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 124/266 (46%), Positives = 174/266 (65%), Gaps = 6/266 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I I E +N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EFEKPN-IHKI---DENDNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAK--HHRTENDPIGLITIDALYSPIKKVSY 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|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 = 224 bits (570), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 122/298 (40%), Positives = 187/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI V+I GV HE SS+ GV ED+T+IILN+K I Sbjct: 28 PLEPGFGVTVGNALRRMLLSSLEGYAINTVKIAGVEHEFSSVPGVKEDVTNIILNLKQIR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNP+ VIC+LD A +R++LT++ Sbjct: 88 FKQVVEEFENEKVSIIVENSTEFKAGDISKHLTGFEVLNPELVICHLDPKASMRIDLTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y+VE R Q DYDKL++ + TDGS Sbjct: 148 KGRGYVPADENRQFCTDVNVIPIDSIYTPIRNVKYSVEPYRVEQKTDYDKLTIEVTTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A++IL +F I E P ++ ++ + + L L K+ ++ LS Sbjct: 208 IHPKDALKEAAKILIYHFMLFSDEKITLENPDQDGNQEFDEEVLHMRQLLKTKLVDMNLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKKSLSELDDLLESLNLSFGTDISKY 325 >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 = 224 bits (570), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 129/312 (41%), Positives = 187/312 (59%), Gaps = 13/312 (4%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ GV ED+T+I Sbjct: 17 QRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTTLPGVQEDVTEI 76 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 +LNIKGI L D + + K G G TAGDI + + NPD I L D + + Sbjct: 77 LLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIANPDKHIATLAEDGELEI 136 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 E TV +G GYVPA ++ + D IG I +D++YSP+ KVSY VE+ R Q D+DKL + + Sbjct: 137 EFTVERGRGYVPASMNKQDADEIGRIPVDSIYSPVLKVSYKVEATRVEQRTDFDKLILDV 196 Query: 206 DTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPF----NPALLKK 259 +T +I+ D+VA A L + G+ +N + E + V S P NP Sbjct: 197 ETKPAISPRDAVASAGSTLVELFGLCRELNVQ------AEGVEVGSAPVVEEANPEHAVP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L ++GL L Sbjct: 251 IEDLNLTQRSYNCLKREGIHTIGELVSHTEQDLLDIRNFGMKSIDEVKEKLQSLGLSLKA 310 Query: 320 N-LPDWPPESIE 330 + L D+ P ++E Sbjct: 311 SPLGDFDPNNLE 322 >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 = 224 bits (570), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 125/320 (39%), Positives = 195/320 (60%), Gaps = 17/320 (5%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E I+PN + + + N + EPL RG+ TLGN+LRRVL+SSL GAA+ A+QI Sbjct: 1 MSEFIRPN----VSVDEIGANVARVSVEPLERGYGDTLGNSLRRVLLSSLEGAAVEAIQI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVND 124 DGV HE ++++GV+ED+TDI+LN+KG+ + + +S + +I GP VT D+ Sbjct: 57 DGVQHEFTTVEGVYEDVTDIVLNVKGLVFRNTNNSDEAEASISVDGPCTVTGADLDVPMG 116 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 E++NP IC L A + M L + G GYV + + ENDPIG I +D+++SP+++ + Sbjct: 117 YELVNPAQHICALAEGAHLSMRLRIGNGRGYVSGEDNERENDPIGFIHVDSIFSPVRRCA 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI---NFEEPKKE- 240 VE R G+ DYD+L + ++T+G+I+ ++V A+ I+ + F+ +F+E ++E Sbjct: 177 KAVEPCRVGRHTDYDRLVLEVETNGAISPREAVVEAANIINQHMSAFMGLTDFDETQEEA 236 Query: 241 ---VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 K D+ S L K+VE+L+LSVRS NCL+ I + L+ +E D+L + N Sbjct: 237 SIFAKADVEDDS-----ELEKQVEDLDLSVRSYNCLKRAGIHSVRQLVDFSENDLLNIRN 291 Query: 298 FGRKSLVEIKGVLGTMGLFL 317 FG KS+ E+K L +MGL L Sbjct: 292 FGVKSIEEVKEKLESMGLSL 311 >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 = 223 bits (569), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 127/315 (40%), Positives = 197/315 (62%), Gaps = 20/315 (6%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T+ Sbjct: 16 DNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+K +L +S + + VT++ K+GPG VTAGDI + V NP I L+ Sbjct: 76 IILNLK--SLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPGMHIATLNDKGK 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ R Q D+DKL Sbjct: 134 LEVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDATRVEQRTDFDKLI 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNP 254 + ++T SI+ D++A A + L + G+ +N E P + I +LP Sbjct: 194 LDVETKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALP--- 250 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +G Sbjct: 251 -----IDDLDLTVRSYNCLKREGVHIVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLG 305 Query: 315 LFLGMNLPDWPPESI 329 L L + P + P + Sbjct: 306 LSLKDSPPSFDPSEV 320 >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 = 223 bits (569), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 127/315 (40%), Positives = 197/315 (62%), Gaps = 20/315 (6%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T+ Sbjct: 16 DNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+K +L +S + + VT++ K+GPG VTAGDI + V NP I L+ Sbjct: 76 IILNLK--SLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPGMHIATLNDKGK 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ R Q D+DKL Sbjct: 134 LEVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDATRVEQRTDFDKLI 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNP 254 + ++T SI+ D++A A + L + G+ +N E P + I +LP Sbjct: 194 LDVETKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALP--- 250 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +G Sbjct: 251 -----IDDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLG 305 Query: 315 LFLGMNLPDWPPESI 329 L L + P + P + Sbjct: 306 LSLKDSPPSFDPSEV 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 = 223 bits (569), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 127/315 (40%), Positives = 197/315 (62%), Gaps = 20/315 (6%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T+ Sbjct: 15 DNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTE 74 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+K +L +S + + VT++ K+GPG VTAGDI + V NP I L+ Sbjct: 75 IILNLK--SLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPGMHIATLNDKGK 132 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ R Q D+DKL Sbjct: 133 LEVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDATRVEQRTDFDKLI 192 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNP 254 + ++T SI+ D++A A + L + G+ +N E P + I +LP Sbjct: 193 LDVETKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALP--- 249 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +G Sbjct: 250 -----IDDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLG 304 Query: 315 LFLGMNLPDWPPESI 329 L L + P + P + Sbjct: 305 LSLKDSPPSFDPSEV 319 >gi|328814007|gb|AEB52119.1| DNA-directed RNA polymerase alpha chain [Lactobacillus rhamnosus] Length = 258 Score = 223 bits (569), Expect = 2e-56, Method: Compositional matrix adjust. 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|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 = 223 bits (569), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 117/267 (43%), Positives = 178/267 (66%), Gaps = 8/267 (2%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVT 115 G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V Sbjct: 3 GCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVV 62 Query: 116 AGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLI 171 AGDI D+E+ NP+HVIC+L D +A + M + V +G GYVPA H + PIG + Sbjct: 63 AGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRL 122 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F Sbjct: 123 LVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAF 182 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 ++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE + Sbjct: 183 VDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVE 239 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLG 318 +L+ N G+KSL EIK VL + GL LG Sbjct: 240 LLKTPNLGKKSLTEIKDVLASRGLSLG 266 >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 = 223 bits (569), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 117/293 (39%), Positives = 183/293 (62%), Gaps = 6/293 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 +PL RGF HTLGNA+RR+L+SSLRG+A+ A +IDGV+HE +I GV ED+ II N+K + Sbjct: 32 QPLERGFGHTLGNAMRRLLLSSLRGSAVWAFRIDGVVHEHQTIGGVVEDVHQIIGNLKTL 91 Query: 93 NLKMSGDSHKRV-TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 L + + + V I K GPG VTA DI + +++P H I + + +EL V+K Sbjct: 92 TLALPDEVEQTVLRISKSGPGTVTAADIIATGGVRIIDPSHHIFTITGERDFNIELYVNK 151 Query: 152 GHGYVPAKHHRTE-NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 G GY+ + H + N + ++ IDA+YSP+++V++TV R GQ DYD+L++T++T+G+ Sbjct: 152 GRGYIESDQHPADKNLSVDVVRIDAIYSPVRRVNFTVAETRVGQRTDYDRLTLTVETNGT 211 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKE----VKEDINVKSLPFNPALLKKVEELELS 266 ++ E++V+ A+ + Q F+ F + N ++ +++LELS Sbjct: 212 MSPEEAVSYAAALAQTHFQYFVGFGSSASAQPGTAGDGANSDAIRLAELFRTPIDDLELS 271 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 VRS N L+ NI +GDL+++TEA +L++ NFG+KSL EI +L GL GM Sbjct: 272 VRSVNSLKNSNIRSLGDLVRQTEAQILQVKNFGKKSLQEIAALLEKEGLNFGM 324 >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 = 223 bits (569), Expect = 3e-56, Method: Compositional matrix adjust. Identities = 121/306 (39%), Positives = 194/306 (63%), Gaps = 4/306 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ++R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVLHE S++ GV ED+T+ Sbjct: 16 DHRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVLHEFSTVNGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILNIK +++ D + K+G GVVTA DI +E+ NPD I L+ Sbjct: 76 IILNIKKLSVSSENDEPVVAYLRKQGAGVVTAADITAPAGVEIHNPDLHIATLNAKGKFD 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ R Q D+D+L + Sbjct: 136 MELTIERGRGYVTAAQNKSADAEIGRIPVDSIYSPVLKVTFKVEATRVEQRTDFDRLILD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 ++T ++ D+VA A L + G+ +N E ++ ++ V + + L + +EE Sbjct: 196 VETKENMLPRDAVASAGSTLVELFGLARSLNVEAEGIDLGDEPEV--VEGSADLAQPIEE 253 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 LEL+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L +GL L + Sbjct: 254 LELTVRSYNCLKREGIHTVGELVGRSEADLMDIRNFGAKSIDEVKEKLQELGLSLKDSPA 313 Query: 323 DWPPES 328 + P++ Sbjct: 314 GYDPQA 319 >gi|281415637|ref|ZP_06247379.1| DNA-directed RNA polymerase subunit alpha [Micrococcus luteus NCTC 2665] Length = 334 Score = 223 bits (569), Expect = 3e-56, Method: Compositional matrix adjust. Identities = 121/306 (39%), Positives = 194/306 (63%), Gaps = 4/306 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ++R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVLHE S++ GV ED+T+ Sbjct: 18 DHRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVLHEFSTVNGVKEDVTE 77 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILNIK +++ D + K+G GVVTA DI +E+ NPD I L+ Sbjct: 78 IILNIKKLSVSSENDEPVVAYLRKQGAGVVTAADITAPAGVEIHNPDLHIATLNAKGKFD 137 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ R Q D+D+L + Sbjct: 138 MELTIERGRGYVTAAQNKSADAEIGRIPVDSIYSPVLKVTFKVEATRVEQRTDFDRLILD 197 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 ++T ++ D+VA A L + G+ +N E ++ ++ V + + L + +EE Sbjct: 198 VETKENMLPRDAVASAGSTLVELFGLARSLNVEAEGIDLGDEPEV--VEGSADLAQPIEE 255 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 LEL+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L +GL L + Sbjct: 256 LELTVRSYNCLKREGIHTVGELVGRSEADLMDIRNFGAKSIDEVKEKLQELGLSLKDSPA 315 Query: 323 DWPPES 328 + P++ Sbjct: 316 GYDPQA 321 >gi|326905303|gb|EGE52236.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis W-148] Length = 348 Score = 223 bits (569), Expect = 3e-56, Method: Compositional matrix adjust. Identities = 127/314 (40%), Positives = 196/314 (62%), Gaps = 20/314 (6%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T+I Sbjct: 18 NRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTEI 77 Query: 86 ILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 ILN+K +L +S + + VT++ K+GPG VTAGDI + V NP I L+ + Sbjct: 78 ILNLK--SLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPGMHIATLNDKGKL 135 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ R Q D+DKL + Sbjct: 136 EVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDATRVEQRTDFDKLIL 195 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNPA 255 ++T SI+ D++A A + L + G+ +N E P + I +LP Sbjct: 196 DVETKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALP---- 251 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL Sbjct: 252 ----IDDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGL 307 Query: 316 FLGMNLPDWPPESI 329 L + P + P + Sbjct: 308 SLKDSPPSFDPSEV 321 >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 = 223 bits (568), Expect = 3e-56, Method: Compositional matrix adjust. Identities = 135/317 (42%), Positives = 192/317 (60%), Gaps = 11/317 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E + PN I + Q+E+N+ + + EPL RGF TLGNALRRVL+SS+ G A+TAV+I G Sbjct: 4 EFVFPNKIYW---EQKEDNKGVFVVEPLERGFGTTLGNALRRVLLSSISGTAVTAVKIYG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE SS++GV ED+ +II NIKG+ + + + + K+G G V AGDI ++EV Sbjct: 61 VYHEFSSLEGVAEDVVEIIANIKGVRFTLKDSDVEVLYLKKKGEGEVKAGDISLPPNVEV 120 Query: 128 LNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 NPD VI + D + E+ + +G GYV A+ T + G I +DA +SP+K VSY Sbjct: 121 ANPDKVIATITDPEVEFNAEIRIERGKGYVLAEEMETIGE-TGWILLDADFSPVKLVSYR 179 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKED 244 +E R G+ DY+KL++ + TDG+ + E V A ILQ L + I++E P E E Sbjct: 180 IEQTRVGEKTDYEKLTVEVLTDGTKSPEAVVKEAVDILQRHLSLLEHISYEVPTLE--EP 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 I V L + L +EEL++S R+ N L+ I +GDL+Q TE ++ N GRK+L Sbjct: 238 IPVDEL--SEKLTLSIEELDISQRALNSLKRMGITTIGDLVQMTEEELKSTKNIGRKALA 295 Query: 305 EIKGVLGTMGLFLGMNL 321 EIK L MGL LG+N+ Sbjct: 296 EIKEALKQMGLQLGINI 312 >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 = 223 bits (568), Expect = 3e-56, Method: Compositional matrix adjust. Identities = 121/298 (40%), Positives = 190/298 (63%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRR+L+SSL G AIT+++IDGV HE +I GV ED+T+IILN+K + Sbjct: 28 PLEPGYGITIGNALRRILLSSLEGFAITSIKIDGVDHEFGTIPGVIEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K D +++V+I G V AGDI + + E+LNPD VIC LD A ++ELT++ Sbjct: 88 FKHIVDDIENEKVSITVSGSEVFKAGDIGKQLTGFEILNPDLVICRLDPTASFQIELTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R N + +I ID++++PI+ V Y++E+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPADENRDPNADMHVIAIDSIFTPIRNVKYSIENFRVEQKTDYEKLVLEIATDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++IL +F I E E E+ + + L L K+ +++LS Sbjct: 208 IHPKEALKEAAKILIHHFMLFSDEKIAIETADTEGNEEFDEEVLHMRQLLKSKLADMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +G+L++ + D+L+ NFG+KSL E+ +L ++ L GM++ + Sbjct: 268 VRALNCLKAADVETLGELVKFNKNDLLKFRNFGKKSLTELDELLESLNLSFGMDITKY 325 >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 = 223 bits (568), Expect = 3e-56, Method: Compositional matrix adjust. Identities = 122/296 (41%), Positives = 178/296 (60%), Gaps = 8/296 (2%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ GV ED+T+I Sbjct: 17 QRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTTLPGVQEDVTEI 76 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 +LNIKGI L D + + K G G TAGDI + + + NP+ I L D + + Sbjct: 77 LLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPSGVTIANPEQHIATLAEDGELEI 136 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 E TV +G GYVPA+ ++ + D IG I +D++YSP+ KVSY VE+ R Q D+DKL + + Sbjct: 137 EFTVERGRGYVPAQMNKQDTDEIGRIPVDSIYSPVLKVSYKVEATRVEQRTDFDKLILDV 196 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF----NPALLKKVE 261 +T +I+ D+VA A L + G+ E + V P NP + +E Sbjct: 197 ETKPAISPRDAVASAGSTLVELFGLCREL----NAQAEGVEVGPAPVAEETNPEMAVPIE 252 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +L L+ RS NCL+ E + +G+L+ TE D+L + NFG KS+ E+K L T+GL L Sbjct: 253 DLNLTQRSYNCLKREGVHTIGELVSHTEQDLLDIRNFGMKSIDEVKEKLQTLGLSL 308 >gi|328813965|gb|AEB52098.1| DNA-directed RNA polymerase alpha chain [Lactobacillus farraginis] Length = 270 Score = 223 bits (568), Expect = 3e-56, Method: Compositional matrix adjust. Identities = 122/265 (46%), Positives = 175/265 (66%), Gaps = 4/265 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EPL RG+ TLGN+LRR L+SSL GAA+T++QID VLHE S+IKGV ED+T IILN+ Sbjct: 6 VVVEPLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQIILNV 65 Query: 90 KGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K I+LK+ G D + + I GP VTAGDIQ +D+ VLNPD I + A M L Sbjct: 66 KKISLKLDGPEDEEENLEIDVIGPADVTAGDIQGDSDVTVLNPDLHIATVAEGATFHMRL 125 Query: 148 TVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 T ++G GYV A R PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ + Sbjct: 126 TANRGRGYVSAVENKKRATEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDV 185 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+GSIT ++V+LA++IL + L MF++ + K + + + L +EEL+L Sbjct: 186 WTNGSITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEIMVEKEETHKEKMLEMTIEELDL 245 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEA 290 SVRS NCL+ I + +L ++TEA Sbjct: 246 SVRSYNCLKRAGINTVQELTEKTEA 270 >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 = 223 bits (568), Expect = 3e-56, Method: Compositional matrix adjust. Identities = 121/298 (40%), Positives = 183/298 (61%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL+SSL G AIT+++I+GV HE S+I+GV ED+T+IILN K I Sbjct: 28 PLEPGYGLTVGNALRRVLLSSLEGFAITSIRIEGVDHEFSTIEGVVEDVTEIILNFKQIR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + D + V + G TAGD+Q ++ +VLNP+ VICN + + +ELT+ Sbjct: 88 FRRQIDEVDSEVVNVSFSGKDTFTAGDMQKYISGFQVLNPEMVICNTESSVSLNLELTIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ N IG I ID++++PIK V Y++E+ R Q DY+KL I TDGS Sbjct: 148 KGRGYVPAEENKNPNAAIGTIAIDSIFTPIKNVKYSIENYRVEQKTDYEKLVFEISTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I + ++ A++ L +F I E + E + +SL L K+ ++ELS Sbjct: 208 IHPKQALTEAAKTLIHHFMLFSDERITLEADEIAQTETYDEESLHMRQLLKTKLVDMELS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ + D+++ NFG+KSL E++ ++ GL GM+L + Sbjct: 268 VRALNCLKAAEVETLGDLVSYNKNDLMKFRNFGKKSLTELEELVNVKGLNFGMDLSKY 325 >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 = 223 bits (568), Expect = 3e-56, Method: Compositional matrix adjust. Identities = 122/298 (40%), Positives = 186/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL+SSL G AIT+V+I+GV HE S+I+GV ED+T++ILN+K I Sbjct: 28 PLEPGYGLTVGNALRRVLLSSLEGFAITSVRIEGVDHEFSTIEGVVEDVTEMILNLKQIR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + ++ V+I G +TAGD Q + ++LNPD IC +D + +ELTV Sbjct: 88 FKKRAEDVDNETVSISFSGNDKMTAGDFQKYLTGFDILNPDLEICTMDKKVSLNLELTVQ 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++T PIG I D++++PIK V Y++E+ R Q DY+KL I +DGS Sbjct: 148 KGRGYVPAEENKTSKAPIGTIFTDSVFTPIKNVKYSIENFRVEQKTDYEKLIFEIISDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A++ L +F I E + E + +SL L K+ +L+LS Sbjct: 208 IHPKDALTEAAKTLIHHFMLFSDERITLETEEMSQAETYDEESLHMRQLLKTKLVDLDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ ++D+++ NFG+KSL E++ ++ GL GM+L + Sbjct: 268 VRALNCLKAAEVETLGDLVSHNKSDLMKFRNFGKKSLTELEELVENKGLDFGMDLSKY 325 >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 = 223 bits (568), Expect = 3e-56, Method: Compositional matrix adjust. Identities = 132/315 (41%), Positives = 194/315 (61%), Gaps = 28/315 (8%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +++R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED++ Sbjct: 15 DDSRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSLRIDGVLHEFTTVPGVKEDVS 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 DIILNIK +L +S D + VT++ K G G VT DI+T +EV N D I L+ Sbjct: 75 DIILNIK--SLVLSSDFDEPVTMYLRKEGAGAVTGADIETPAGVEVHNKDLHIATLNEQG 132 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + +EL V +G GYVPA T D IG I +D +YSP+ KVSY VE+ R Q D+DKL Sbjct: 133 KLDIELVVERGRGYVPAA---TSTDEIGRIPVDQIYSPVLKVSYKVEATRVEQRTDFDKL 189 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFN 253 + ++T S++ D++A A + L + G+ +N E P + E I ++P Sbjct: 190 ILDVETKSSMSARDAMASAGKTLVELFGLAQELNIEAEGIEIGPSPQESEHIAAYNMP-- 247 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +E+L+ SVRS NCL+ E I +G+L RTE+D+L + NFG+KS+ E+K L + Sbjct: 248 ------IEDLDFSVRSYNCLKREEIHTVGELAARTESDLLDIRNFGQKSINEVKVKLAGL 301 Query: 314 GLFL-----GMNLPD 323 GL L G +L D Sbjct: 302 GLALKDSPEGFDLSD 316 >gi|328813947|gb|AEB52089.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 267 Score = 223 bits (568), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 114/252 (45%), Positives = 168/252 (66%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E N + EPL RG+ TLGN+LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+ Sbjct: 8 ESTNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDV 67 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILNIK + LKM+ D K + I GP VTA DI D+EVLNP+ IC + Sbjct: 68 TQIILNIKKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGH 127 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +TV KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL+ Sbjct: 128 FHVRMTVKKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLT 187 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + + T+GSI+ ++++LA++IL + L +F+N + K + + + L +EE Sbjct: 188 LDVWTNGSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEE 247 Query: 263 LELSVRSTNCLR 274 L+LSVRS NCL+ Sbjct: 248 LDLSVRSYNCLK 259 >gi|260907114|ref|ZP_05915436.1| DNA-directed RNA polymerase subunit alpha [Brevibacterium linens BL2] Length = 332 Score = 223 bits (568), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 121/299 (40%), Positives = 185/299 (61%), Gaps = 12/299 (4%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ENR+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S++ GV ED+T+ Sbjct: 16 ENRSRFAIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFSTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 ILN+K + + D + K+GPG VTA D+ +E+ NPD I L+ + + Sbjct: 76 FILNLKSLVVSSEFDEPVVAYLRKQGPGTVTAADVSAPAGVEIHNPDLHIATLNGEGRLD 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MELT+ +G GYV + ++ + IG + +D++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 136 MELTIERGRGYVSSAQNKNADAEIGRVPVDSIYSPVLKVTYKVEATRVEQRTDFDRLVLD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPF----NPALLK 258 I+T S+T D++A A + L + G+ +N E E I + P L Sbjct: 196 IETKPSMTPRDAIASAGKTLVELFGLARELNVE------AEGIEIGPSPVDAALAADLAL 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+L+L+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L +GL L Sbjct: 250 AIEDLDLTVRSYNCLKREGIHTVGELVARSEADLMDIRNFGSKSIDEVKAKLNELGLSL 308 >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 = 223 bits (568), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 127/309 (41%), Positives = 189/309 (61%), Gaps = 12/309 (3%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +E R+ + EPL GF +TLGN+LRR L+SS+ GA++T+++ID VLHE S+I+GV ED+T Sbjct: 15 DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIKIDNVLHEFSTIEGVKEDVT 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 ++ILN+KG+ + D + + K G G VTA DI +EV NPD I L + Sbjct: 75 EVILNLKGLVVSSEHDEPVTMYLRKSGAGDVTAADIAPPAGVEVHNPDLKIATLSDKGKL 134 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 MEL V +G GYV A ++ ++ IG + +D++YSP+ KV+Y VE+ R Q D+DKL + Sbjct: 135 EMELVVERGRGYVSAVQNKGADNEIGRMPVDSIYSPVLKVTYKVEATRVEQRTDFDKLVI 194 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLK--- 258 ++T SI D++A A + L + G+ +N E E I++ P + L Sbjct: 195 DVETKPSIRPRDAIASAGKTLVELFGLARELNVE------AEGIDIGPSPVDEQLAADLA 248 Query: 259 -KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 VE+L+L+VRS NCL+ E I +G+LI R+E D+L + NFG KS+ E+K L MGL L Sbjct: 249 LPVEDLQLTVRSYNCLKREGIHTVGELISRSEQDLLDIRNFGAKSIDEVKAKLVEMGLSL 308 Query: 318 GMNLPDWPP 326 + P + P Sbjct: 309 KDSAPGFDP 317 >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 = 223 bits (567), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 128/309 (41%), Positives = 186/309 (60%), Gaps = 34/309 (11%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRRVL+SSL G AIT++ IDGV HE S++ GV ED+TD+ILN+K I Sbjct: 27 PLERGYGITLGNSLRRVLLSSLDGVAITSINIDGVEHEFSTVPGVREDVTDMILNLKKIR 86 Query: 94 LKMSGDSH----KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 ++ RV + K G V+ AGD+Q ++I+VLN D +C LD +A + MELT+ Sbjct: 87 FIAYEEAEFPIKVRVDVTKEG--VLLAGDLQLPSEIDVLNGDLALCTLDTEAHLGMELTI 144 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +GHGYVP +R E+DPIG I ID++YSP+ K +Y V R G +DYDKL++ ++TDG Sbjct: 145 DRGHGYVPFTKNRREDDPIGSIPIDSIYSPVVKCNYNVSDTRVGNEMDYDKLTLELETDG 204 Query: 210 SITGEDSVALASRILQDQLGMF-----------------INFEEPKKEVKEDINVKSLPF 252 SI D+VA A+ IL + +F ++ +E I++ +P Sbjct: 205 SIKASDAVATAATILMNCFELFRPLATGPILEARDGSDMARQSSDQQAEEEKIDLSGIP- 263 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +EELELSVR+ NCL+ I + L ++TE ++ R+ N G+KS+ EI + Sbjct: 264 -------IEELELSVRAFNCLKRAEINTLDQLAEKTEEELGRVRNLGKKSIDEI---IEK 313 Query: 313 MGLFLGMNL 321 + F G+ L Sbjct: 314 LAQFRGLGL 322 >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 = 223 bits (567), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 120/298 (40%), Positives = 186/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI ++I GV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGVTIGNALRRILLSSLEGYAINTIRIAGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNPD VIC+LD A ++++LT++ Sbjct: 88 FKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGFEVLNPDLVICHLDAKASMQIDLTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y+VE R Q DYDKL + + TDGS Sbjct: 148 KGRGYVPADENREFCTDVNVIPIDSIYTPIRNVKYSVEPYRVEQKTDYDKLVIEVSTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A++IL +F I E P ++ ++ + + L L K+ ++ LS Sbjct: 208 IHPKDALKEAAKILIYHFMLFSDEKITLESPDQDGNQEFDEEVLHMRQLLKTKLVDMNLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKKSLSELDDLLESLNLSFGTDISKY 325 >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 = 223 bits (567), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 118/298 (39%), Positives = 187/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GN+LRR+L+SSL G AI ++I GV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGITIGNSLRRILLSSLEGYAINTMRIAGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNPD VIC+LD A ++++LT++ Sbjct: 88 FKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGFEVLNPDLVICHLDAKASMQIDLTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 +G GYVPA +R + ++ ID++Y+PI+ V YTVE R Q DYDKL + + TDGS Sbjct: 148 QGRGYVPADENRQFCTDVNVLPIDSIYTPIRNVKYTVEPYRVEQKTDYDKLVIEVTTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I+ +D++ A++IL +F I E P ++ ++ + + L L K+ ++ LS Sbjct: 208 ISPKDALKEAAKILIYHFMLFSDEKITLENPDQDTNQEFDEEVLHMRQLLKTKLVDMNLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKKSLSELDDLLESLNLSFGTDISKY 325 >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 = 223 bits (567), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 127/315 (40%), Positives = 196/315 (62%), Gaps = 20/315 (6%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T+ Sbjct: 17 ETRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTE 76 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+K +L +S + + VT++ K+GPG VTAGDI + V NP I L+ Sbjct: 77 IILNLK--SLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPGMHIATLNDKGK 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 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNP 254 + ++T SI+ D++A A + L + G+ +N E P + I +LP Sbjct: 195 LDVETKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALP--- 251 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +G Sbjct: 252 -----IDDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLG 306 Query: 315 LFLGMNLPDWPPESI 329 L L + P + P + Sbjct: 307 LSLKDSPPSFDPSEV 321 >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 = 223 bits (567), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 123/296 (41%), Positives = 177/296 (59%), Gaps = 8/296 (2%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ GV ED+T+I Sbjct: 17 QRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTTLPGVQEDVTEI 76 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 +LNIKGI L D + + K G G AGDI + + NP+ I L D + + Sbjct: 77 LLNIKGIVLTSEYDEPVVMYLRKSGKGEAVAGDITPPAGVTIANPEQHIATLADDGELEI 136 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 E TV +G GYVPA+ ++ +ND IG I +D++YSP+ KVSY VE+ R Q D+DKL + + Sbjct: 137 EFTVERGRGYVPAQMNKQDNDEIGRIPVDSIYSPVLKVSYKVEATRVEQRTDFDKLILDV 196 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF----NPALLKKVE 261 +T +I+ D+VA A L + G+ E + V P NP + +E Sbjct: 197 ETKPAISPRDAVASAGSTLVELFGLCREL----NAQAEGVEVGPAPVAEETNPEMAVPIE 252 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L T+GL L Sbjct: 253 DLNLTQRSYNCLKREGIHTIGELVSHTEQDLLDIRNFGMKSIDEVKEKLQTLGLSL 308 >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 = 223 bits (567), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 120/298 (40%), Positives = 186/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRV++S+L G AIT+V++D V HE S I GV ED+T+IILN+K + Sbjct: 28 PLEPGYGLTVGNALRRVMLSALEGFAITSVRMDKVAHEFSVIPGVVEDVTEIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + ++ ++I G +TAGD Q ++ +VLNPD VICN+D + MELT+ Sbjct: 88 FKRQIEDVDNETISIALSGKQQLTAGDFQKFISGFQVLNPDLVICNMDAKVNINMELTIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ PIG I ID++++PIK V Y++E+ R Q DY+KL I +DGS Sbjct: 148 KGRGYVPAEENKKSGAPIGTIAIDSIFTPIKNVKYSIENFRVEQKTDYEKLVFEIVSDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A+++L +F I E + E + +SL L K+ +++LS Sbjct: 208 IHPKDALTEAAKVLIHHFMLFSDERITLEADEIAQTETYDEESLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ + D+++ NFG+KSL E++ ++ GL GM+L + Sbjct: 268 VRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKKSLTELEELVINKGLSFGMDLSKY 325 >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 = 223 bits (567), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 122/286 (42%), Positives = 180/286 (62%), Gaps = 6/286 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 EN EPL G+ HTLGNALRRVL+SS+ GAAIT ++I+GV HE S+I GV ED+T+ Sbjct: 16 ENYGRFKIEPLDPGYGHTLGNALRRVLLSSIPGAAITKIKIEGVFHEFSTIPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV-DAVV 143 I+LNIKGI L+ + ++++ KRG GVV A DI +++E++NP+H IC +D DA + Sbjct: 76 IVLNIKGIRLRSYAERPVKISLSKRGAGVVRAADIDAPSNVEIVNPNHYICTIDRDDAAI 135 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 ME+TV +G GY+PA + PIG I IDA+++P+ KV+Y VE R GQ D D L + Sbjct: 136 DMEMTVERGRGYLPADQR--DALPIGEIPIDAIFTPVPKVNYVVEHIRVGQATDIDSLLI 193 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL--KKVE 261 I TDG+I D+++ A+++L +F E + L PA + +E Sbjct: 194 EIWTDGTIKPGDALSHAAQVLVQYSQTIADFNRLSTEAEPTTAPNGLAI-PADIYDTPIE 252 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 EL+LS R+ NCL+ +I +G +++ E +L + N G+KS+ EI+ Sbjct: 253 ELDLSTRTYNCLKRADITKVGQVLEMDEKALLSVRNLGQKSMEEIR 298 >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 = 223 bits (567), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 119/298 (39%), Positives = 184/298 (61%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL+S+L G AIT+++I+GV HE S+I GV ED+T+IIL++K + Sbjct: 28 PLEPGYGLTVGNALRRVLLSALEGYAITSIRIEGVDHEFSTIPGVVEDVTEIILSLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + ++ VTI G +TAGD Q ++ +VLNP+ VICNLD ME+T+ Sbjct: 88 FKRQIEDIDNESVTIAISGKNQITAGDFQKYISGFQVLNPELVICNLDSKVNFNMEMTIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ +N IG I D++++P+K V Y +E+ R Q DY+KL I TDGS Sbjct: 148 KGRGYVPAEENKKQNAAIGTIFTDSIFTPVKNVKYAIENFRVEQKTDYEKLVFEIKTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A+++L +F I E + E + +SL L K+ +++LS Sbjct: 208 INPKDALTEAAKVLIHHFMLFSDERITLEADEIAQTESYDEESLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ + D+++ NFG+KSL E+ ++ L GM+L + Sbjct: 268 VRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKKSLTELDELVAIKNLTFGMDLAKY 325 >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 = 223 bits (567), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 125/315 (39%), Positives = 192/315 (60%), Gaps = 6/315 (1%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 E +V+ + + + +PL GF T+GNA+RRVL+SSL G AIT ++I GV HE SSI Sbjct: 10 EKVVMDKTTDFHGMFEFKPLEPGFGVTVGNAIRRVLLSSLEGYAITCIRIPGVQHEFSSI 69 Query: 76 KGVHEDLTDIILNIKGINLK-MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHV 133 KGV +D+ +IILN+K + K +S + ++ + +TAGDI + + E+LNPD V Sbjct: 70 KGVMQDVAEIILNLKKVRFKKISENVDSKIVVEVSNQETLTAGDIGKFTSSFEILNPDLV 129 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 ICNLD + +EL + KG GYV ++ + + IG I ID++++PIK V Y VE+ R Sbjct: 130 ICNLDESVDLEVELYIEKGRGYVSSEDQKLPDAAIGHIPIDSIFTPIKNVRYAVENTRVE 189 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKS 249 Q DY+KL + I TDGSI E+++ A+ IL +F I E KKE ++++ Sbjct: 190 QRTDYEKLLLDIQTDGSIHPEEALKGAANILIQHFMLFSDQNIILETAKKEEVQEVDEHF 249 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L L + +L+LSVR+ NCL+ +I +GDL++ ADM++ NFG+KSL E++ + Sbjct: 250 LHMRKLLKTPISDLDLSVRAYNCLKSADIRTLGDLVKLDIADMMKFRNFGKKSLTELEQL 309 Query: 310 LGTMGLFLGMNLPDW 324 + GL GM++ + Sbjct: 310 VAEKGLSFGMDVSKY 324 >gi|1524340|emb|CAA63080.1| RNA polymerase alpha subunit [Streptomyces coelicolor A3(2)] Length = 339 Score = 223 bits (567), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 130/325 (40%), Positives = 199/325 (61%), Gaps = 23/325 (7%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLSKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNGKGKLEMELTVERGRGYVSAVQNKEVGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ ++A A + L + G+ +E+ +I+ + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPR-AMASAGKTLVELFGL-------AREL--NIDAEGI 231 Query: 251 PFNPA---------LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 P+ L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG K Sbjct: 232 DMGPSPTDAALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAK 291 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPP 326 S+ E+K L MGL L + P + P Sbjct: 292 SIDEVKAKLAGMGLALKDSPPGFDP 316 >gi|328813967|gb|AEB52099.1| DNA-directed RNA polymerase alpha chain [Lactobacillus fermentum] Length = 271 Score = 223 bits (567), Expect = 5e-56, Method: Compositional matrix adjust. Identities = 117/268 (43%), Positives = 178/268 (66%), 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 VVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + +++T KG GY A ++T 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|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 = 223 bits (567), Expect = 5e-56, Method: Compositional matrix adjust. Identities = 121/292 (41%), Positives = 179/292 (61%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ GV ED+T+I Sbjct: 17 QRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTTLPGVKEDVTEI 76 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 +LNIK + L D + + K G G TA DI + + NPD I L D + + Sbjct: 77 LLNIKELVLTSEYDEPVVMYLRKSGEGEATAADITPPAGVVIANPDLHIATLAEDGELEI 136 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 E TV +G GYVPA+ ++ E D IG I +D++YSP+ KVSY VE+ R Q D+DKL + + Sbjct: 137 EFTVERGRGYVPAQMNKQEGDEIGRIPVDSIYSPVVKVSYKVEATRVEQRTDFDKLIVDV 196 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 +T +IT D+VA A L + G+F + V+ + +P + +E+L L Sbjct: 197 ETKPAITPRDAVASAGSTLVELFGLFHELNNQAEGVEVGPAPVTEEVDPQMEIPIEDLNL 256 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + RS NCL+ E I +G+L++R+E D+L + NFG+KS+ E+K L +MGL L Sbjct: 257 TQRSYNCLKREGIHTIGELVKRSEQDLLDIRNFGQKSIDEVKDKLASMGLSL 308 >gi|328814013|gb|AEB52122.1| DNA-directed RNA polymerase alpha chain [Lactobacillus rhamnosus] Length = 260 Score = 222 bits (566), Expect = 5e-56, Method: Compositional matrix adjust. Identities = 113/252 (44%), Positives = 168/252 (66%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E N + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDGVLHE S+I GV ED+ Sbjct: 8 ESTNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDGVLHEFSTIDGVLEDV 67 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILNIK + LKM+ D K + I GP VTA DI D+EVLNP+ IC + Sbjct: 68 TQIILNIKKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGH 127 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +TV KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL+ Sbjct: 128 FHVRMTVKKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLT 187 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + + T+GSI+ ++++LA++IL + L +F+N + K + + + L +EE Sbjct: 188 LDVWTNGSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEE 247 Query: 263 LELSVRSTNCLR 274 L+LSVRS NCL+ Sbjct: 248 LDLSVRSYNCLK 259 >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 = 222 bits (566), Expect = 5e-56, Method: Compositional matrix adjust. Identities = 121/305 (39%), Positives = 189/305 (61%), Gaps = 6/305 (1%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E + + I EPL RG+ HT+GNALRRVL+SS+ GAAI ++IDGVL+E S I+GV E Sbjct: 17 KENDFKAQYIVEPLYRGYGHTIGNALRRVLLSSIPGAAIKGLRIDGVLNEFSIIEGVKEA 76 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +TDIILN+K + +K KR+ + +GP +VTA DI +++E++NPD VIC + + Sbjct: 77 VTDIILNVKEVIVKTETSGEKRMNLSVQGPKIVTAADINPDSELEIINPDQVICTVTTEK 136 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ME V G G+V A+ ++ + IT+DA+Y+PIK+VSY+VE G++ D+DKL Sbjct: 137 EINMEFLVDTGEGFVVAEDIERKDWSVDYITVDAIYTPIKRVSYSVEDTMVGRMTDFDKL 196 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK------SLPFNPA 255 ++ ++TDGSI D+++ A +L+ F++ + ++ D+ + S Sbjct: 197 TLNVETDGSIVIRDAISYAVELLRLHFDPFLDIGNGMENLRGDLEEEEVEEVDSSKDEDV 256 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 L K+EEL+L+VRS NCL+ I +G L + ++L++ N GRKSL EI + +G Sbjct: 257 LNLKIEELDLTVRSFNCLKKAGIEEVGQLAILSLNELLKIKNLGRKSLDEILDKMKELGF 316 Query: 316 FLGMN 320 L N Sbjct: 317 DLSQN 321 >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 = 222 bits (566), Expect = 6e-56, Method: Compositional matrix adjust. Identities = 128/310 (41%), Positives = 194/310 (62%), Gaps = 20/310 (6%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E+R+ + EPL GF +TLGN++RR L+SS+ GAA+T++++DGVLHE S++ GV ED T Sbjct: 16 EHRSRFVIEPLEPGFGYTLGNSIRRTLLSSIPGAAVTSIKVDGVLHEFSTVAGVKEDATQ 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 +ILN+K +L +S + + VT++ K+GPG VTA DI +EV NPD I L+ Sbjct: 76 LILNLK--DLVVSSEHDEPVTMYLRKQGPGDVTAADIAPPAGVEVHNPDLKIATLNEKGR 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + MEL V +G GYV A +++ + IG + +D++YSP+ KV+Y VE+ R Q D+D+L Sbjct: 134 LEMELVVERGRGYVSAIQNKSADAEIGRMPVDSIYSPVLKVTYKVEATRVEQRTDFDRLV 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLK-- 258 + ++T S+ D+VA A + L + G+ +N E E I++ P + + Sbjct: 194 VDVETKPSMLPRDAVASAGKTLVELFGLARELNVE------AEGIDIGPSPVDEQMAADL 247 Query: 259 --KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 VE+L+L+VRS NCL+ E I +G+LI R+E D+L + NFG KS+ E+K L MGL Sbjct: 248 ALPVEDLQLTVRSYNCLKREGIHTVGELISRSEQDLLDIRNFGSKSIDEVKLKLAEMGL- 306 Query: 317 LGMNLPDWPP 326 +L D PP Sbjct: 307 ---SLKDSPP 313 >gi|328813951|gb|AEB52091.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 260 Score = 222 bits (566), Expect = 6e-56, Method: Compositional matrix adjust. Identities = 112/245 (45%), Positives = 166/245 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+T IILNI Sbjct: 4 FVVEPLERGYGTTLGNSLRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDVTQIILNI 63 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LKM+ D K + I GP VTA DI D+EVLNP+ IC + + +TV Sbjct: 64 KKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTV 123 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+G Sbjct: 124 KKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNG 183 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI+ ++++LA++IL + L +F+N + K + + + L +EEL+LSVRS Sbjct: 184 SISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEELDLSVRS 243 Query: 270 TNCLR 274 NCL+ Sbjct: 244 YNCLK 248 >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 = 222 bits (565), Expect = 7e-56, Method: Compositional matrix adjust. Identities = 125/316 (39%), Positives = 194/316 (61%), Gaps = 9/316 (2%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 NR+ EPL GF +T+GN+LRR L+SS+ GAA+T+V+IDGVLHE S++ GV ED+T+I Sbjct: 17 NRSRFTIEPLEPGFGYTMGNSLRRTLLSSIPGAAVTSVRIDGVLHEFSTVPGVTEDVTEI 76 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 ILN+K +++ D + K+G G +TA DI+ +E+ NP+ I L+ A Sbjct: 77 ILNVKKLSISSENDEPVVAYLRKQGEGELTAADIEVPAGVEIHNPELHIATLNAKANFNA 136 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 EL + +G GYV A ++T + IG I +D++YSP+ KV+++V + R Q D+D L++ + Sbjct: 137 ELIIERGRGYVSAAQNKTGDAEIGRIPVDSIYSPVLKVTFSVNATRVEQRTDFDSLTLDV 196 Query: 206 DTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 +T +I D+VA A L + G+ +N EV +S+ + AL +E+L Sbjct: 197 ETKEAIAPRDAVASAGSTLVELFGLARELNVAAEGIEVGPSPADESMAADLAL--PIEDL 254 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +SVRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L LG+ L D Sbjct: 255 SMSVRSYNCLKREGIHTVGELVTRSEADLMDIRNFGAKSIDEVKAKLHE----LGLALKD 310 Query: 324 WPPESIEELAKKYEDK 339 PP E +A+ Y+D+ Sbjct: 311 SPP-GFEPVARAYDDE 325 >gi|254819221|ref|ZP_05224222.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium intracellulare ATCC 13950] Length = 347 Score = 222 bits (565), Expect = 7e-56, Method: Compositional matrix adjust. Identities = 127/315 (40%), Positives = 195/315 (61%), Gaps = 20/315 (6%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T Sbjct: 16 DNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTA 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+K +L +S + + VT++ K+GPG VTAGDI + V NPD I L+ Sbjct: 76 IILNLK--SLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPDLHIATLNDKGK 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ R Q D+DKL Sbjct: 134 LEVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDATRVEQRTDFDKLI 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNP 254 + ++T SI D++A A + L + G+ +N E P + I +LP Sbjct: 194 LDVETKSSINPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALP--- 250 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +G Sbjct: 251 -----IDDLDLTVRSYNCLKREGVHTVGELVSRTESDLLDIRNFGQKSIDEVKVKLHQLG 305 Query: 315 LFLGMNLPDWPPESI 329 L L + + P + Sbjct: 306 LSLKDSPASFDPSQV 320 >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 = 222 bits (565), Expect = 7e-56, Method: Compositional matrix adjust. Identities = 121/302 (40%), Positives = 184/302 (60%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S++ GV ED+TD Sbjct: 16 EFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFSTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 +ILN+K + + D + + K+GPGVVTA DI +EV + D + L+ + Sbjct: 76 LILNLKELVVSSENDEPTVMYLRKQGPGVVTAADIAPPAGVEVHSLDLALATLNDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 136 IELTVERGRGYVSAAQNKQPGQEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDRLIVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 ++T SI+ D++A A + L G+ + V + L +EE++ Sbjct: 196 VETKQSISPRDAMASAGKTLVGLFGLAQELNAEAEGVDIGPSAADAALAADLALPIEEMD 255 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K L M L L + P + Sbjct: 256 LTVRSYNCLKREGIHTIGELVSRSEADLLDIRNFGQKSIDEVKTKLAAMALQLKDSPPGF 315 Query: 325 PP 326 P Sbjct: 316 DP 317 >gi|328813953|gb|AEB52092.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 250 Score = 222 bits (565), Expect = 7e-56, Method: Compositional matrix adjust. Identities = 112/245 (45%), Positives = 166/245 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+T IILNI Sbjct: 4 FVVEPLERGYGTTLGNSLRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDVTQIILNI 63 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LKM+ D K + I GP VTA DI D+EVLNP+ IC + + +TV Sbjct: 64 KKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTV 123 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+G Sbjct: 124 KKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNG 183 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI+ ++++LA++IL + L +F+N + K + + + L +EEL+LSVRS Sbjct: 184 SISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEELDLSVRS 243 Query: 270 TNCLR 274 NCL+ Sbjct: 244 YNCLK 248 >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 = 222 bits (565), Expect = 7e-56, Method: Compositional matrix adjust. Identities = 120/298 (40%), Positives = 181/298 (60%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRV++SSL G AIT+V+ D V HE S+I GV ED+T+IILN+K + Sbjct: 28 PLEPGYGLTIGNALRRVMLSSLEGFAITSVKFDKVDHEFSTIPGVREDVTEIILNLKQVR 87 Query: 94 LKMSGD--SHKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + + TI G +TAGD Q T++ +VLNPD VICN++ A ME+T+ Sbjct: 88 FKRQVEDVEDETATITVSGKKQLTAGDFQKTLSGFQVLNPDLVICNMETSASFTMEITIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYV A+ + N IG+I D++++PIK V YT+E+ R Q DY+KL I TDGS Sbjct: 148 KGRGYVSAEENAKPNAAIGVIATDSIFTPIKNVKYTIENYRVEQKTDYEKLVFEIKTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I + ++ A++ L +F I E + + + +SL L K+ +++LS Sbjct: 208 IHPKQALTEAAKTLIHHFMLFSDERITLEADEVAQTDAYDEESLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ +AD+++ NFG+KSL+E+ ++ GL GM+ + Sbjct: 268 VRALNCLKAAEVETLGDLVSFNKADLMKFRNFGKKSLIELDELVANKGLVFGMDTSKY 325 >gi|73913591|gb|AAZ91712.1| RNA polymerase alpha subunit [Corynebacterium stationis] Length = 334 Score = 222 bits (565), Expect = 7e-56, Method: Compositional matrix adjust. Identities = 131/317 (41%), Positives = 192/317 (60%), Gaps = 23/317 (7%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + +R+ I EPL GF +T+GN++RR L+SS+ GAA+T+++I+GVLHE +++ GV ED++ Sbjct: 15 DSSRSRFIFEPLEPGFGYTIGNSMRRTLLSSIPGAAVTSIKIEGVLHEFTTVNGVKEDVS 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +IILN+K +L +S DS + V ++ K GPG VTAGDIQ +E+ NPD I L+ A Sbjct: 75 EIILNVK--SLVLSSDSDEPVVMYLSKEGPGAVTAGDIQPPAGVEIHNPDLHIATLNDTA 132 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + MEL V +G GYVPA T D IG I ID +YSP+ KVSY VE+ R Q D+DKL Sbjct: 133 KLDMELVVERGRGYVPAAP--TSGD-IGRIPIDQIYSPVLKVSYKVEATRVEQRTDFDKL 189 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEE--------PKKEVKEDINVKSLPFN 253 + ++T SI+ D++A A L + G+ P + E I S+P Sbjct: 190 IIDVETKNSISARDALASAGGTLVELFGLARELNTAAEGIEIGPSPQESEYIAAYSMP-- 247 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +E+L SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L + Sbjct: 248 ------IEDLNFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIKLANL 301 Query: 314 GLFLGMNLPDWPPESIE 330 L L D+ P +E Sbjct: 302 NLALKDTPEDFDPTQLE 318 >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 = 222 bits (565), Expect = 7e-56, Method: Compositional matrix adjust. Identities = 121/298 (40%), Positives = 186/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL+SSL G AIT+V+I+GV HE S++ GV ED+T+IILN+K + Sbjct: 28 PLEPGYGLTVGNALRRVLLSSLEGFAITSVRIEGVDHEFSTLAGVVEDVTEIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + ++ VTI G +TAGD Q ++ +VLNPD VI N+D + ME+T+ Sbjct: 88 FKRQIEEIDNETVTISLSGVDQLTAGDFQKFISGFQVLNPDMVIANMDKKVNLNMEITIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ N P+G I D++Y+PI+ V Y++E+ R Q DY+KL I TDGS Sbjct: 148 KGRGYVPAEENKKSNAPLGTIFTDSIYTPIRNVKYSIENYRVEQKTDYEKLVFEIITDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++ L +F I E + E + +SL L K+ +++LS Sbjct: 208 IHPKEALTEAAKTLIHHFMLFSDERITLEADEIAQTETYDEESLHMRQLLKTKLIDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ + D+++ NFG+KSL E++ ++ GL GM+L + Sbjct: 268 VRALNCLKAAEVETLGDLVSYNKNDLMKFRNFGKKSLTELEELVNVKGLSFGMDLAKY 325 >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 = 222 bits (565), Expect = 8e-56, Method: Compositional matrix adjust. Identities = 124/295 (42%), Positives = 183/295 (62%), Gaps = 7/295 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL G A+T ++IDGVLHE S+I+GV ED+ DI+LNI Sbjct: 23 FVWEPLERGYGITLGNSLRRVLLSSLSGMAVTGIKIDGVLHEFSTIEGVREDVADIVLNI 82 Query: 90 KGINLKMSGDSH-----KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 K + K++ D K I K G G VT DI T D EVLNP+ I LD +A + Sbjct: 83 KALCFKVNLDDQGTYEPKTFYIKKSGEGEVTGADIITDQDTEVLNPELHIATLDKNANLN 142 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 ME+ V G GYV A +++++ PIG I +D++YSPI +V + V R G V +YD+L++ Sbjct: 143 MEIYVDIGRGYVSADKNKSKDQPIGFIPVDSIYSPITRVKFGVTDTRVGNVTNYDRLTLE 202 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV--KSLPFNPALLKKVEE 262 + TDGS+ +++V A+ IL + L +F PK + E+ + + L +++ Sbjct: 203 VWTDGSLGPDEAVTSAAEILINYLALFKTTNVPKIQGSEESGKPDEEGTKSSVLQMSIDD 262 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+L+VRS NCLR I + D+I +TE +++ + N G KSL E+K + +GL L Sbjct: 263 LDLTVRSNNCLRRAGINTVEDIINKTEDELICVRNLGSKSLEEVKNKIEELGLHL 317 >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 = 222 bits (565), Expect = 8e-56, Method: Compositional matrix adjust. Identities = 118/253 (46%), Positives = 175/253 (69%), Gaps = 8/253 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 7 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 66 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D +A V M + V Sbjct: 67 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTDGNAEVAMRIKVQ 126 Query: 151 KGHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVP A+ H E+D PIG + +DA YSP+ K++YTVE+AR Q D DKL + ++T Sbjct: 127 RGRGYVPASARIHTDEDDRPIGRLLVDATYSPVDKIAYTVEAARVEQRTDLDKLVIDMET 186 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G+I E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+V Sbjct: 187 NGTIEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 243 Query: 268 RSTNCLRGENIVY 280 RS NCL+ E I Y Sbjct: 244 RSANCLKAEAIHY 256 >gi|328814009|gb|AEB52120.1| DNA-directed RNA polymerase alpha chain [Lactobacillus rhamnosus] Length = 257 Score = 222 bits (565), Expect = 8e-56, Method: Compositional matrix adjust. 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|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 = 222 bits (565), Expect = 8e-56, Method: Compositional matrix adjust. Identities = 125/316 (39%), Positives = 194/316 (61%), Gaps = 9/316 (2%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 NR+ EPL GF +T+GN+LRR L+SS+ GAA+T+V+IDGVLHE S++ GV ED+T+I Sbjct: 17 NRSRFTIEPLEPGFGYTMGNSLRRTLLSSIPGAAVTSVRIDGVLHEFSTVPGVTEDVTEI 76 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 ILN+K +++ D + K+G G +TA DI+ +E+ NP+ I L+ A Sbjct: 77 ILNVKKLSISSENDEPVVAYLRKQGEGELTAADIEVPAGVEIHNPELHIATLNAKANFNA 136 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 EL + +G GYV A ++T + IG I +D++YSP+ KV+++V + R Q D+D L++ + Sbjct: 137 ELIIERGRGYVSAAQNKTGDAEIGRIPVDSIYSPVLKVTFSVNATRVEQRTDFDSLTLDV 196 Query: 206 DTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 +T +I D+VA A L + G+ +N EV +S+ + AL +E+L Sbjct: 197 ETKEAIAPRDAVASAGSTLVELFGLARELNVAAEGIEVGPSPADESMAADLAL--PIEDL 254 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +SVRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L LG+ L D Sbjct: 255 NMSVRSYNCLKREGIHTVGELVTRSEADLMDIRNFGAKSIDEVKAKLHE----LGLALKD 310 Query: 324 WPPESIEELAKKYEDK 339 PP E +A+ Y+D+ Sbjct: 311 SPP-GFEPVARAYDDE 325 >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 = 221 bits (564), Expect = 8e-56, Method: Compositional matrix adjust. Identities = 118/294 (40%), Positives = 185/294 (62%), Gaps = 6/294 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + +PL RG+ +TLGN +RRVL++SL GAA TA+QIDGV HE ++ +GV ED+TDI+LN+ Sbjct: 21 FVVDPLERGYGYTLGNTMRRVLLNSLDGAAATAIQIDGVQHEFATAEGVIEDITDIVLNV 80 Query: 90 KGINLKMSGDSHKRVT--IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 KG+ + + T + GP VT D+Q + ++NPDHVI + + M + Sbjct: 81 KGLVFSVFAEDAIEATAHVSAEGPCTVTGADLQVPTEFTLVNPDHVIATVADGGQLDMTI 140 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + G GYV A+ ++ DPIG+I +D+L+SP+++ + +V R GQ DYDKL + ++T Sbjct: 141 RIGVGRGYVVAERNKRNEDPIGIIHVDSLFSPVRRCALSVTDTRVGQSTDYDKLILEVET 200 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP----FNPALLKKVEEL 263 DGS+T D+V A+ I+ +G F++ E ++E + ++ P N L K++E+L Sbjct: 201 DGSLTPTDAVCQAANIVTQYMGAFLSLNESEEEEEGEVPSIFAPEGEETNAELDKQIEDL 260 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +LSVRS NCL+ I + L++ +E D+L + NFG KS+ E+K L +MGL L Sbjct: 261 DLSVRSYNCLKRAGIHSVRQLVEYSENDLLNIRNFGAKSIEEVKDKLISMGLNL 314 >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 = 221 bits (564), Expect = 8e-56, Method: Compositional matrix adjust. Identities = 123/295 (41%), Positives = 182/295 (61%), Gaps = 7/295 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL G A+T ++IDGVLHE S+I+GV ED+ DI+LNI Sbjct: 23 FVWEPLERGYGITLGNSLRRVLLSSLSGMAVTGIKIDGVLHEFSTIEGVREDVADIVLNI 82 Query: 90 KGINLKMSGDSH-----KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 K + K+ D K I K G G VT D+ T D EVLNP+ I LD + + Sbjct: 83 KALCFKVGLDDQASFEPKTFYIKKAGEGEVTGADVITDQDTEVLNPELHIATLDKNGALN 142 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 ME+ V G GYV A+ +++++ PIG I +D++YSPI +V + V R G V +YD+L++ Sbjct: 143 MEIYVDVGRGYVQAEKNKSKDQPIGFIPVDSIYSPITRVKFGVTDTRVGNVTNYDRLTLE 202 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA--LLKKVEE 262 + TDGS+ +++V A+ IL L +F P+ + ED S + + L +++ Sbjct: 203 VWTDGSLGPDEAVTSAAEILIKYLALFKTTNVPRIQGDEDGTKTSDEGSKSSVLQMSIDD 262 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+L+VRS NCLR I + D+I +TE +++ + N G KSL E+K + +GL L Sbjct: 263 LDLTVRSNNCLRRAGINTVEDIINKTEDELICVRNLGSKSLEEVKNKIEELGLHL 317 >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 = 221 bits (564), Expect = 8e-56, Method: Compositional matrix adjust. Identities = 123/301 (40%), Positives = 187/301 (62%), Gaps = 16/301 (5%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T+ Sbjct: 16 DNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+KG+ + D + + K+GPG VTAGDI + + NP I L+ + Sbjct: 76 IILNLKGLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTLHNPGMRIATLNDKGKIE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ R Q D+DKL + Sbjct: 136 AELVVERGRGYVPAVQNRALGAEIGRIPVDSIYSPVLKVTYKVDATRVEQRTDFDKLILD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNPAL 256 ++T SIT D++A A + L + G+ +N E P + I +LP Sbjct: 196 VETKSSITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALP----- 250 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL Sbjct: 251 ---IDDLDLTVRSYNCLKREGVHTVGELVSRTESDLLDIRNFGQKSIDEVKVKLHQLGLS 307 Query: 317 L 317 L Sbjct: 308 L 308 >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 = 221 bits (564), Expect = 9e-56, Method: Compositional matrix adjust. Identities = 116/267 (43%), Positives = 177/267 (66%), Gaps = 8/267 (2%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVT 115 G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V Sbjct: 3 GCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVV 62 Query: 116 AGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLI 171 AGDI D+E+ NP+HVIC+L D +A + M + V +G GYVPA H + PIG + Sbjct: 63 AGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRL 122 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F Sbjct: 123 LVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAF 182 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 ++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE + Sbjct: 183 VDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVE 239 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLG 318 +L+ N G+KSL EIK VL + GL L Sbjct: 240 LLKTPNLGKKSLTEIKDVLASRGLSLA 266 >gi|289524822|emb|CBJ94467.1| alpha subunit of RNA polymerase [Vibrio sp. Cmf 5.9] Length = 265 Score = 221 bits (564), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 116/266 (43%), Positives = 177/266 (66%), Gaps = 8/266 (3%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVT 115 G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V Sbjct: 3 GCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVV 62 Query: 116 AGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLI 171 AGDI D+E+ NP+HVIC+L D +A + M + V +G GYVPA H + PIG + Sbjct: 63 AGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRL 122 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F Sbjct: 123 LVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAF 182 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 ++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE + Sbjct: 183 VDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVE 239 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFL 317 +L+ N G+KSL EIK VL + GL L Sbjct: 240 LLKTPNLGKKSLTEIKDVLASRGLSL 265 >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 = 221 bits (564), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 123/292 (42%), Positives = 184/292 (63%), Gaps = 4/292 (1%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ T+GNALRRVL+SS+ G+AI V+IDGVL+E S+I+GV E +TDIILNIK I Sbjct: 28 EPLYRGYGATIGNALRRVLLSSIPGSAIKGVKIDGVLNEFSTIEGVKEAVTDIILNIKEI 87 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 ++ K++++ +GP +TA DI ++++NPD VI + + ME V G Sbjct: 88 VVESDEPGEKKMSLSVKGPREITARDIILEPGLKIINPDQVIATITTKREINMEFLVDSG 147 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 G+V ++ TEN PIG I +DA+Y+PIKK+SY+VE G+ DYDKL++ I TDGSI Sbjct: 148 EGFVVSEEIETENWPIGYIAVDAIYTPIKKISYSVEDTMVGRATDYDKLTLDITTDGSIE 207 Query: 213 GEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 D+++ A ++ L F N E+ + E + + +++ + N K+EEL+ +VR Sbjct: 208 IRDALSYAVELISFHLNPFTNIGNSMEKFRSEDEVESSIEVISENNMDDMKIEELDFTVR 267 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 S NCL+ + +GDL + T A++L++ N GRKSL EI + +G L N Sbjct: 268 SYNCLKKAGVNTIGDLGKMTYAELLKIKNLGRKSLNEIIDKMKELGFDLNDN 319 >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 = 221 bits (563), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 118/298 (39%), Positives = 186/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI ++I GV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGVTIGNALRRILLSSLEGYAINTIRIAGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNPD VIC+LD A ++++LT++ Sbjct: 88 FKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGFEVLNPDLVICHLDAKASMQIDLTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GY+PA +R + +I ID++Y+PI+ V Y+VE R Q DYDKL + + TDGS Sbjct: 148 KGRGYIPADENREFCTDVNVIPIDSIYTPIRNVKYSVEPYRVEQKTDYDKLVIEVSTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A++IL +F I E P ++ ++ + + L L ++ ++ LS Sbjct: 208 IHPKDALKEAAKILIYHFMLFSDEKITLESPDQDGNQEFDEEVLHMRQLLKTRLVDMNLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKKSLSELDDLLESLNLSFGTDISKY 325 >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 = 221 bits (563), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 119/298 (39%), Positives = 186/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI ++I GV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGVTIGNALRRILLSSLEGYAINTIRIGGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNPD VIC+LDV A +++++T++ Sbjct: 88 FKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGFEVLNPDLVICHLDVKASMQIDITIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + ++ ID++Y+PI+ V Y+VE R Q DYDKL + + TDGS Sbjct: 148 KGRGYVPADENREFCTDVNVLPIDSIYTPIRNVKYSVEPYRVEQKTDYDKLVLEVTTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A++IL +F I E +E ++ + + L L K+ ++ LS Sbjct: 208 IYPKDALKEAAKILIYHFMLFSDEKITLESSDQENNQEFDEEVLHMRQLLKTKLIDMNLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKKSLSELDDLLESLNLSFGTDISKY 325 >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 = 221 bits (563), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 119/288 (41%), Positives = 182/288 (63%), Gaps = 3/288 (1%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA+ A+QIDG HE ++I + ED+TDI+LN+KG+ Sbjct: 24 EPLERGYGDTLGNSLRRVLLSSLEGAAVEAIQIDGAQHEFTTIPNMVEDVTDIVLNVKGL 83 Query: 93 NLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + G + + TI GP VT D ++ E++NPD I L + M + + Sbjct: 84 VFRTLGTTDEGTATISVDGPCEVTGADFFIPSEFELVNPDQHIATLTEGGHLTMSMRIGY 143 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GYV + ++ +NDPIG+I +D+L+SP+K+ + VE+ R GQ DYD+L + I+T+G+I Sbjct: 144 GRGYVSYEQNKRDNDPIGIIHVDSLFSPVKRCAKLVEACRVGQHTDYDRLVLEIETNGAI 203 Query: 212 TGEDSVALASRILQDQLGMFINF-EEPKKEVKEDINVKSLPF-NPALLKKVEELELSVRS 269 + D+V A+ I+ + F+ +EP+ E + I + N L K++E+L+LSVRS Sbjct: 204 SPRDAVVSAANIINQHMAAFMTLADEPEAEEEVSIFAPEVTSDNAELDKQIEDLDLSVRS 263 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ I + L++ +E D+L + NFG KS+ E+K L +MGL L Sbjct: 264 YNCLKRAGIHSVRQLVEFSENDLLNIRNFGVKSIEEVKDKLESMGLSL 311 >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 = 221 bits (562), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 124/294 (42%), Positives = 182/294 (61%), Gaps = 4/294 (1%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ GV ED+T+I Sbjct: 37 QRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTALPGVEEDVTEI 96 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 +LNIKGI L D + + K G G TAGDI I + NP+ I +L D + + Sbjct: 97 LLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGITIANPEMHIASLAEDGELEI 156 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 E TV +G GYVPA+ ++ ++D IG I +D++YSP+ KVSY VE+ R Q D+DKL + + Sbjct: 157 EFTVERGRGYVPAQMNKQDSDEIGRIPVDSIYSPVLKVSYKVEATRVEQRTDFDKLILDV 216 Query: 206 DTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 +T +I+ D+VA A L + G+ +N + EV V+ NP L +E+L Sbjct: 217 ETKPAISPRDAVASAGSTLVELFGLCRELNMQAEGVEVGPAPVVEET--NPELAVPIEDL 274 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+ RS NCL+ E I +G+L+ E D+L + NFG KS+ E+K L ++GL L Sbjct: 275 NLTQRSYNCLKREGIHTVGELVAHNEQDLLDIRNFGMKSIDEVKEKLQSLGLSL 328 >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 = 221 bits (562), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 126/317 (39%), Positives = 191/317 (60%), Gaps = 11/317 (3%) Query: 6 WQELIKPN-NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 E I+P +E I E + EPL RG+ TLGN+LRRVL+SSL GAA+ A+Q Sbjct: 1 MSEFIRPQVQVEEI-----NETSARVSVEPLERGYGDTLGNSLRRVLLSSLEGAAVEAIQ 55 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVN 123 IDG HE +I + ED+TDI+LN+KG+ + G + + TI GP VT D + Sbjct: 56 IDGAQHEFMTIPNMVEDVTDIVLNVKGLVFRALGTTDEATATISVDGPCEVTGADFFIPS 115 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 + E++NP+ I L + M + + G GYV + ++ +NDPIG+I +D+LYSP+ + Sbjct: 116 EFELVNPEQHIATLTEGGHLTMSMRIGYGRGYVSGEANKRDNDPIGVIHVDSLYSPVSRC 175 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + VE+ R GQ DYD+L + I+T+GSI D+V A+ I+ + F+N E EV+E Sbjct: 176 AKLVEACRVGQHTDYDRLVLEIETNGSIAPRDAVVQAANIINQHMAAFMNLAE-TPEVEE 234 Query: 244 DINVKSLPF---NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + ++ + N L K++E+L+LSVRS NCL+ +I + L++ +E D+L + NFG Sbjct: 235 EASIFAPEVTNDNAELDKQIEDLDLSVRSYNCLKRASIHSVRQLVEFSENDLLNIRNFGV 294 Query: 301 KSLVEIKGVLGTMGLFL 317 KS+ E+K L +MGL L Sbjct: 295 KSIEEVKDKLESMGLSL 311 >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 = 221 bits (562), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 119/298 (39%), Positives = 187/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT ++IDGV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGITVGNALRRILLSSLEGFAITTIRIDGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDSHK--RVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + + +V+I AGDI + + EVLNP+ VIC+LD A +++++T++ Sbjct: 88 FKQVVEEFESEKVSITVENSSEFKAGDIGKYLTGFEVLNPELVICHLDSKATMQIDITIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y+VE+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKYSVENFRVEQKTDYEKLVLEISTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++IL +F I E + E+ + + L L K+ +++LS Sbjct: 208 IHPKEALKEAAKILIYHFMLFSDEKITLESNDTDGNEEFDEEVLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKKSLTELDDLLESLNLSFGTDISKY 325 >gi|168701504|ref|ZP_02733781.1| DNA-directed RNA polymerase subunit alpha [Gemmata obscuriglobus UQM 2246] Length = 336 Score = 221 bits (562), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 122/303 (40%), Positives = 181/303 (59%), Gaps = 12/303 (3%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 AEP +GF T+GN+LRR+L+SSL G+AIT V+I GV HEIS+I GV ED+TDIILN+K Sbjct: 30 AEPFEKGFGMTIGNSLRRILLSSLEGSAITRVKIQGVQHEISTITGVVEDVTDIILNVKS 89 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + +K D K + I K G V D+Q I+++NP+H I L D ME+TV Sbjct: 90 LVVKNLSDQPKTIRIQKHEAGAVRGVDVQHDETIQIINPEHHIATLTSDVPFVMEMTVEN 149 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GY A + ++ +G+I +D+ +SP+ +V Y +E R GQ +YD+L M I T+G++ Sbjct: 150 GRGYRTADDNAGKDREVGVIPVDSSFSPVVRVKYDIEETRVGQKTNYDRLVMEIWTNGTL 209 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK------------ 259 + ++ A++IL+ L F+ + EP E++ D + N ++ + Sbjct: 210 APQMAIVEAAKILRKHLNPFVQYTEPGPELQLDDGPIEIGPNASVRDQQDAELERKLNMS 269 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 + EL+LSVR+TNCL E I + DL+ RT ++L + NFG +L E+K L GL LGM Sbjct: 270 LAELDLSVRATNCLETEGIQTVRDLVIRTSEELLEVRNFGETTLREVKSKLEERGLALGM 329 Query: 320 NLP 322 LP Sbjct: 330 RLP 332 >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 = 221 bits (562), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 125/290 (43%), Positives = 178/290 (61%), Gaps = 8/290 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 Q E R+ I EPL GF +TLGN++RR L+SS+ GAA+T+V+IDGVLHE S+I GV ED Sbjct: 13 QVSEYRSRFILEPLEPGFGYTLGNSMRRTLLSSIPGAAVTSVRIDGVLHEFSTIAGVKED 72 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DIILN+K + + D + + K+GPG VTA DI +E+ NPD I L+ Sbjct: 73 VADIILNLKELVVSSENDEPVLMYLHKQGPGEVTAADITPPAGVEIHNPDLHIATLNDKG 132 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ++LTV +G GYV A ++ E D IG I ID++YSP+ KVSY VE+ R Q D+DKL Sbjct: 133 KIEIDLTVERGRGYVSAAQNKGEEDEIGRIPIDSIYSPVLKVSYKVEATRVAQRTDFDKL 192 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF----NPALL 257 + ++ S T D++A A + L + G+ + EV E I + P + L Sbjct: 193 VVDVEVKPSTTPRDALASAGKTLVELFGLCVEL---NNEV-EGIELGPPPVVETQSSDLQ 248 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L L RS NCL+ E I +G+LIQR+EAD+L + NFG KS+ ++K Sbjct: 249 RPITILNLPARSQNCLQREGIRTIGELIQRSEADLLDIRNFGAKSIEDVK 298 >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 = 221 bits (562), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 130/315 (41%), Positives = 190/315 (60%), Gaps = 7/315 (2%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 R+ + EPL GF +TLGN+LRR L+SS+ GA+IT+++I+G HE S++ GV ED+T+II Sbjct: 18 RSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASITSIKIEGNQHEFSTLPGVVEDVTEII 77 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+KG+ L D + + K G G VTA DI +E+ NPD I L D + ME Sbjct: 78 LNLKGLVLSSEEDEPVAMYLRKSGAGEVTAADIAVPTGVEIYNPDLHIATLADDGSIEME 137 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 L V +G GYV + + + IG I +D+LYSP+ VSY VE+ R D+D+L + ++ Sbjct: 138 LVVERGRGYVSSTLNNNPDAEIGRIAVDSLYSPVLTVSYKVEATRVETRTDFDRLIVDVE 197 Query: 207 TDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 T SI D+VA A + L + G+F +N E E+ + L + AL VE+L Sbjct: 198 TKPSIRPHDAVASAGKTLVELFGLFRELNVEAEGVEMGPSPVDEQLAADMAL--PVEDLN 255 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 LSVRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K LG +GL L + P + Sbjct: 256 LSVRSYNCLKREGIHTVGELVSRSEQDLLDIRNFGSKSIDEVKEKLGDLGLTLKDSTPGF 315 Query: 325 PPESIEELAKKYEDK 339 P + A ++ED+ Sbjct: 316 DPLAA---ADRFEDE 327 >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 = 220 bits (561), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 130/310 (41%), Positives = 194/310 (62%), Gaps = 16/310 (5%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S+I GV ED+T+II Sbjct: 18 RSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFSTITGVKEDVTEII 77 Query: 87 LNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 LN+K NL +S ++ + V ++ K+G GVVTA DI +EV NPD I L+ + Sbjct: 78 LNVK--NLVLSSENDEPVVMYLRKQGAGVVTAADIVPPAGVEVHNPDLHIATLNDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELTV +G GYV A+ +++ + IG I +D++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 136 IELTVERGRGYVSAQQNKSMDAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDRLIVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----FNPALLK 258 ++T SI D++A A + L + G+ +N E E I + P L Sbjct: 196 VETKSSIVPRDALASAGKTLVELFGLARELNVE------AEGIEIGPSPTDAALAADLAL 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L L++RS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L +GL L Sbjct: 250 PIEDLNLTIRSYNCLKREGIHQVGELVARSEADLLDIRNFGAKSINEVKEKLHELGLSLK 309 Query: 319 MNLPDWPPES 328 + D+ P S Sbjct: 310 DSPLDFQPSS 319 >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 = 220 bits (561), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 118/298 (39%), Positives = 185/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G A+ ++I GV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGVTIGNALRRILLSSLEGYAVNTIRIAGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNPD VIC+LD A ++++LT++ Sbjct: 88 FKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGFEVLNPDLVICHLDAKASMQIDLTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + ++ ID++Y+PI+ V Y VE R Q DYDKL + I TDGS Sbjct: 148 KGRGYVPADENRQFCTDVNVLPIDSIYTPIRNVKYAVEPYRVEQKTDYDKLVLEITTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I+ +D++ A++IL +F I E +E ++ + + L L ++ ++ LS Sbjct: 208 ISPKDALKEAAKILIYHFMLFSDEKITLETQDQESNQEFDEEVLHMRQLLKTRLVDMNLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKKSLSELDDLLESLNLSFGTDISKY 325 >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 = 220 bits (561), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 120/298 (40%), Positives = 186/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL+SSL G AIT+++I+GV HE S+I GV ED+T+IILN+K + Sbjct: 28 PLEPGYGITVGNALRRVLLSSLEGYAITSIKIEGVEHEFSTIPGVVEDVTEIILNLKKVR 87 Query: 94 LKMSGDSH--KRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K D + VT G +TAGD+ + ++ +VLNP+ VI NLD + + T+ Sbjct: 88 FKKQIDESDAENVTATISGQDQLTAGDLGKFISGFQVLNPELVIANLDSKVNLTISFTIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ + PIG I ID++Y+PIK V Y +E+ R Q DY+KL I TDGS Sbjct: 148 KGRGYVPAEENKKASAPIGTIAIDSIYTPIKNVKYAIENYRVEQKTDYEKLVFEITTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I+ +D++ A++IL +F I E + E + ++L L K+ +L+LS Sbjct: 208 ISPQDALTEAAKILIHHFMLFSDERITLEAEEVASGEAYDEEALHMRQLLKTKLVDLDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +G+L+ ++D+++ NFG+KSL E++ ++ + GL GM+ + Sbjct: 268 VRALNCLKAAEVETLGELVSFAKSDLMKFRNFGKKSLSELEELVDSKGLSFGMDTSKY 325 >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 = 220 bits (561), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 118/298 (39%), Positives = 186/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI ++I GV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGVTIGNALRRILLSSLEGYAINTIRIAGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + ++ EVLNPD VIC+LD A +++++T++ Sbjct: 88 FKQIVEEFENEKVSITVENSTEFKAGDISKYLSGFEVLNPDLVICHLDSKASMQIDITIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y VE R Q DYDKL + + TDGS Sbjct: 148 KGRGYVPADENREFCTDVNVIAIDSIYTPIRNVKYAVEPYRVEQKTDYDKLVLEVTTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A++IL +F I+ E + E ++ + + L L ++ ++ LS Sbjct: 208 IHPKDALKEAAKILIYHFMLFSDEKISLESSETESNQEFDEEILHMRQLLKTRLVDMNLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKKSLTELDDLLESLNLSFGTDISKY 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 = 220 bits (561), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 119/298 (39%), Positives = 186/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT ++IDGV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGITVGNALRRILLSSLEGFAITTIRIDGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDSHK--RVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + + +V+I AGDI + + EVLNP+ VIC+LD A +++++T++ Sbjct: 88 FKQVVEEFESEKVSITVENSSEFKAGDIGKYLTGFEVLNPELVICHLDSKATMQIDITIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y VE+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKYAVENFRVEQKTDYEKLVLEISTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++IL +F I E + E+ + + L L K+ +++LS Sbjct: 208 IHPKEALKEAAKILIYHFMLFSDEKITLESNDTDGNEEFDEEVLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKKSLTELDDLLESLNLSFGTDISKY 325 >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 = 220 bits (561), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 128/300 (42%), Positives = 186/300 (62%), Gaps = 9/300 (3%) 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 VRMELTVSKGHGYVPAKHHRT----ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + MEL G GY+ A ++ + IG + D++Y+PI ++SY VE R GQ Y Sbjct: 138 LEMELKARNGRGYISADGNKALYQGSSQGIGTVYTDSIYTPIDRISYNVEPTRVGQDAKY 197 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP---KKEVKEDINVKSLPFNPA 255 D+L I T+GSIT + S+AL S+IL D L + + E + V +D+N +S P N Sbjct: 198 DRLIFEIWTNGSITPQMSLALGSKILIDHLDLLTHVNESVADMESVMKDVNGES-PKNMQ 256 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 + +E+L+LSVRS NCL+ I + +L QR+E +M+R+ N G+KSL E+K + +GL Sbjct: 257 SM-AIEDLDLSVRSYNCLKRAGIQTVEELTQRSEEEMMRVRNLGKKSLKEVKDKIYELGL 315 >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 = 220 bits (560), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 116/268 (43%), Positives = 177/268 (66%), Gaps = 8/268 (2%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVT 115 G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V Sbjct: 3 GCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVV 62 Query: 116 AGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLI 171 AGDI D+E+ NP+HVIC+L D +A + M + V +G GYVPA H + PIG + Sbjct: 63 AGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRL 122 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F Sbjct: 123 LVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAF 182 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 ++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE + Sbjct: 183 VDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVE 239 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +L+ N G+KSL EIK V + GL L M Sbjct: 240 LLKTPNLGKKSLTEIKDVHASRGLSLRM 267 >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 = 220 bits (560), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 131/312 (41%), Positives = 190/312 (60%), Gaps = 17/312 (5%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV ED++DI+ Sbjct: 18 RSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTITGVKEDVSDIV 77 Query: 87 LNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 LN+KGI L S DS + V ++ K G G V AGDIQ +E+ NPD + L+ D + Sbjct: 78 LNVKGIVL--SSDSDEPVVMYLNKEGAGEVKAGDIQPPAGVEIHNPDLHLATLNDDGRLN 135 Query: 145 MELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 MEL V +G GYVPA + ND IG I +D +YSP+ KVSY VE+ R Q D+DKL Sbjct: 136 MELVVERGRGYVPAAMN---NDVAEIGRIPVDQIYSPVLKVSYKVEATRVEQRTDFDKLV 192 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF----NPALLK 258 + ++T SIT D++A A + L + G+ E I + + P + Sbjct: 193 IDVETKNSITARDAMASAGKTLVELFGLAREL----NTAAEGIEIGASPLEGDHTASYSM 248 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L+ SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L +GL L Sbjct: 249 PIEDLDFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKVKLAGLGLTLK 308 Query: 319 MNLPDWPPESIE 330 D+ ++E Sbjct: 309 DAPEDFDVTTVE 320 >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 = 220 bits (560), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 124/316 (39%), Positives = 193/316 (61%), Gaps = 9/316 (2%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 NR+ EPL GF +T+GN+LRR L+SS+ GAA+T+V+IDGVLHE S++ GV ED+T+I Sbjct: 17 NRSRFTIEPLEPGFGYTMGNSLRRTLLSSIPGAAVTSVRIDGVLHEFSTVPGVTEDVTEI 76 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 ILNIK +++ D + K+G G +TAGDI+ +E+ NP+ + L+ A Sbjct: 77 ILNIKKLSISSENDEPVVAYLRKQGEGELTAGDIEVPAGVEIHNPELHLATLNASANFNA 136 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 EL + +G GYV A ++ + IG I +D++YSP+ KV+++V + R Q D+D L++ + Sbjct: 137 ELVIERGRGYVTAAQNKAGDSEIGRIPVDSIYSPVLKVTFSVNATRVEQRTDFDSLTLDV 196 Query: 206 DTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 +T +I D+VA A L + G+ +N EV +S+ + AL +E+L Sbjct: 197 ETKEAIAPRDAVASAGSTLVELFGLARELNIAAEGIEVGPSPADESMAADLAL--PIEDL 254 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +SVRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L LG++L D Sbjct: 255 NMSVRSYNCLKREGIHTVGELVTRSEADLMDIRNFGAKSIDEVKAKLTE----LGLSLKD 310 Query: 324 WPPESIEELAKKYEDK 339 PP E A+ +D+ Sbjct: 311 SPP-GFEPAARPLDDE 325 >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 = 219 bits (559), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 127/310 (40%), Positives = 197/310 (63%), Gaps = 16/310 (5%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E+R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T+ Sbjct: 16 ESRSRFSIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+K NL +S ++ + V ++ K+G GVVTA DI +EV NPD I L+ Sbjct: 76 IILNVK--NLVVSSENDEPVVMYLRKQGSGVVTAADIVPPAGVEVHNPDLHIATLNDKGK 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +ELTV +G GYV A+ +++ + IG + +D++YSP+ KV+Y VE+ R Q D+DKL Sbjct: 134 LEIELTVERGRGYVSAQQNKSFDAEIGRVPVDSIYSPVLKVTYKVEATRVEQRTDFDKLI 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----FNPAL 256 + ++T +I+ D++A A + L + G+ +N E E I + P L Sbjct: 194 VDVETKQAISPRDALASAGKTLVELFGLARELNVE------AEGIEIGPSPTDAALAADL 247 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E+L+L++RS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L +GL Sbjct: 248 ALPIEDLQLTIRSYNCLKREGIHAVGELVARSEADLLDIRNFGAKSINEVKDKLAELGLS 307 Query: 317 LGMNLPDWPP 326 L + D+ P Sbjct: 308 LKDSPLDFDP 317 >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 = 219 bits (559), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 120/292 (41%), Positives = 178/292 (60%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 R+ I EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ G+ ED+T+I Sbjct: 17 QRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTTLPGIEEDVTEI 76 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 +LNIKGI L D + + K G G TAGDI + + NPD I L D + + Sbjct: 77 LLNIKGIVLTSEYDEPVVMYLRKAGSGEATAGDITPPAGVTIANPDLHIATLAEDGELEI 136 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 E TV +G GYVPA+ ++ + D IG I +D++YSP+ KVSY VE+ R Q D+DKL + + Sbjct: 137 EFTVERGRGYVPAQMNKQDGDEIGRIPVDSIYSPVLKVSYKVEATRVEQRTDFDKLILDV 196 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 +T +I+ D+VA A L + G+ + V+ + +P + +E+L L Sbjct: 197 ETKPAISPRDAVASAGSTLVELFGLCRELNTQAEGVEIGPAPVAEQADPGMSVPIEDLNL 256 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L ++GL L Sbjct: 257 TQRSYNCLKREGIHTVGELVNHTEQDLLDIRNFGMKSIDEVKEKLQSLGLSL 308 >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 = 219 bits (559), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 120/298 (40%), Positives = 191/298 (64%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRR+L+SSL G AIT+++I+GV HE +I GV ED+T+IILN+K + Sbjct: 28 PLEPGYGITIGNALRRILLSSLEGFAITSIKIEGVDHEFGTIPGVIEDVTNIILNLKQVR 87 Query: 94 LKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K D +++V+I G V AGDI + + EVLNP+ VIC LD +A ++ELT++ Sbjct: 88 FKHIVDDIENEKVSITVSGSEVFKAGDIGKQLTGFEVLNPELVICRLDPNAGFQIELTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R N + +I ID++Y+PI+ V Y++E+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPADENRDPNADMHVIAIDSIYTPIRNVKYSIENFRVEQKTDYEKLVLEIATDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++IL +F I E + E+ + + L L K+ +++LS Sbjct: 208 IHPKEALKEAAKILIHHFMLFSDEKIAIETVDTDGNEEFDEEVLHMRQLLKSKLSDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +G+L++ + D+L+ NFG+KSL E+ +L ++ L GM++ + Sbjct: 268 VRALNCLKAADVETLGELVKFNKNDLLKFRNFGKKSLTELDELLESLNLSFGMDITKY 325 >gi|319442995|ref|ZP_07992151.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium variabile DSM 44702] Length = 337 Score = 219 bits (559), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 132/301 (43%), Positives = 185/301 (61%), Gaps = 23/301 (7%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++I+GVLHE ++I GV ED++DII Sbjct: 18 RSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIEGVLHEFTTIPGVKEDVSDII 77 Query: 87 LNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 LNIK L +S DS + VT++ K G G VT D+ +EV NPD I L+ + Sbjct: 78 LNIKA--LVISSDSDEPVTMYIRKEGLGEVTGADVVVPAGVEVHNPDLHIATLNEQGKLD 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +EL V +G GYVPA E IG I +D +YSP+ KVSY VE+ R Q D+DKL + Sbjct: 136 IELVVERGRGYVPAAATTGE---IGRIPVDQIYSPVLKVSYKVEATRVEQRTDFDKLVLD 192 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNPAL 256 ++T SIT D++A A L + G+ +N E P + E I SLP Sbjct: 193 VETKNSITARDAIASAGGTLVELFGLARELNTEAEGIEIGPSPQETEHIAAYSLP----- 247 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E+L+ SVRS NCL+ E+I +G+L RTE+D+L + NFG+KS+ E+K L +GL Sbjct: 248 ---IEDLDFSVRSYNCLKREDIHTVGELAARTESDLLDIRNFGQKSINEVKVKLAELGLG 304 Query: 317 L 317 L Sbjct: 305 L 305 >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 = 219 bits (559), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 116/294 (39%), Positives = 178/294 (60%), Gaps = 6/294 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF +TLGN +RRVL+SSL GA TA+QI+GV HE ++ +GV ED+TDI+LN+ Sbjct: 21 FVVEPLERGFGYTLGNCMRRVLLSSLDGARATAIQIEGVQHEFTTAEGVIEDVTDIVLNV 80 Query: 90 KGINLKMSGDSHKRVT--IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 KG+ + + T I GP VT DIQ + ++NP+HVI + + M + Sbjct: 81 KGLVFAALTEDYTEATATISVEGPCTVTGADIQVPTEFTLINPEHVIATVADGGTLNMSI 140 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + G GYV A+ ++ DPIG+I +D+L+SP+++ + V R GQ D+D+L + ++T Sbjct: 141 RIGVGRGYVSAERNKRTEDPIGIIPVDSLFSPVRRCTLAVNDTRVGQRTDFDQLLLEVET 200 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI----NVKSLPFNPALLKKVEEL 263 DGSI ++V A+ I+ +G F+ + E + DI + N L K++E+L Sbjct: 201 DGSIAPNEAVCRAANIINQYMGAFLTLADITDEDEGDIPSIFATEGQESNAELDKQIEDL 260 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +LSVRS NCL+ I + L++ +E D+L + NFG KS+ E+K L +M L L Sbjct: 261 DLSVRSYNCLKRAGIHSVRQLVEFSENDLLNIRNFGAKSIEEVKDKLISMDLNL 314 >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 = 219 bits (559), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 121/298 (40%), Positives = 184/298 (61%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI ++I V HE SSI GV ED+T+IILN+K + Sbjct: 28 PLEPGFGVTIGNALRRILLSSLEGYAINTMRIGSVEHEFSSIPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNPD VIC+LD A ++++LT++ Sbjct: 88 FKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGFEVLNPDLVICHLDAKASMQIDLTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYV A +R + +I ID++Y+PI+ V YTVE R Q DYDKL + +DTDGS Sbjct: 148 KGRGYVTADENREFCTDVNVIPIDSIYTPIRNVKYTVEPYRVEQKTDYDKLVIEVDTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A++IL +F I E P E ++ + + L L ++ ++ LS Sbjct: 208 IQPKDALKEAAKILIYHFMLFSDEKIALESPDVEGNQEFDEEVLHMRQLLKTRLVDMNLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKKSLSELDDLLESLNLTFGTDISKY 325 >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 = 219 bits (559), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 123/296 (41%), Positives = 177/296 (59%), Gaps = 8/296 (2%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I GV HE +++ GV ED+T+I Sbjct: 17 QRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGVPHEFTTLPGVEEDVTEI 76 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 +LNIKGI L D + + K G G TAGDI + + NPD I L D + + Sbjct: 77 LLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIANPDMHIATLAEDGELEI 136 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 E TV +G GYVPA+ ++ +N IG I +D++YSP+ KVSY VE+ R Q D+DKL + + Sbjct: 137 EFTVERGRGYVPAQMNKQDNAEIGRIPVDSIYSPVLKVSYRVEATRVEQRTDFDKLILDV 196 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF----NPALLKKVE 261 +T +I+ D+VA A L + G+ E + V P NP + +E Sbjct: 197 ETKPAISPRDAVASAGSTLVELFGLCREL----NTQAEGVEVGPAPVAEETNPEMAVPIE 252 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L ++GL L Sbjct: 253 DLNLTQRSYNCLKREGIHTIGELVAHTEQDLLDIRNFGMKSIDEVKEKLQSLGLAL 308 >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 = 219 bits (559), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 121/305 (39%), Positives = 185/305 (60%), Gaps = 8/305 (2%) Query: 23 EEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 EE N T+ I EPL RG+ +TLGN +RRVL+SSL GA TA+QI+GV HE ++ +GV E Sbjct: 12 EEVNDTVARFIVEPLERGYGYTLGNCMRRVLLSSLDGAKATAIQIEGVQHEFTTAEGVIE 71 Query: 81 DLTDIILNIKGINLKMSGDSHKRVT--IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 D+TDI+LN+KG+ D + T + GP VT D+ + ++NP+HVI + Sbjct: 72 DITDIVLNVKGLVFSALNDDIEEATAHVSAEGPCTVTGADLDIPTEFTLVNPEHVIATVA 131 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M + + G GYV A+ ++ DPIG+I +D+L+SP+++ + V R GQ DY Sbjct: 132 DGGQLDMTVRIGVGRGYVSAERNKRTEDPIGVIHVDSLFSPVRRCTLNVTDTRVGQRTDY 191 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF----EEPKKEVKEDINVKSLPFNP 254 DKL + ++TDGSIT ++V AS I+ +G F++ +E + E+ + N Sbjct: 192 DKLVLEVETDGSITPTEAVCRASNIINQYMGAFLSLSDVVDEEEGEIPSIFAPEGQESNA 251 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 L K++E+L+LSVRS NCL+ I + L++ +E D+L + NFG KS+ E+K L +M Sbjct: 252 ELDKQIEDLDLSVRSYNCLKRAGIHSVRQLVEFSENDLLNIRNFGAKSIEEVKDKLISMD 311 Query: 315 LFLGM 319 L L + Sbjct: 312 LNLKL 316 >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 = 219 bits (559), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 124/308 (40%), Positives = 188/308 (61%), Gaps = 12/308 (3%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 + R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S++ G ED+T+ Sbjct: 16 DTRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSLRIDGVLHEFSTVPGAKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 +ILNIK + + D + + + K+GP VTA DI +EV NPD I L+ + Sbjct: 76 MILNIKELVVSSEHDDPQVIYLRKQGPCEVTAADIVAPAGVEVHNPDLHIATLNDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +E+ V +G GYVPA ++ IG I ID++YSP+ KV+Y VE+ R Q D+D+L M Sbjct: 136 IEMVVERGRGYVPAAQNKLPGHEIGRIPIDSIYSPVLKVTYKVEATRVEQRTDFDRLIMD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----FNPALLK 258 ++T S+ D++A A + L + G+ +N + E I++ P L Sbjct: 196 VETKPSMRPRDAMASAGKTLVELFGLVRELNVD------AEGIDIGPSPSDAALAADLAL 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K L MGL L Sbjct: 250 PIEDLNLTVRSYNCLKREGIHTVGELVARSEADLLDIRNFGQKSIEEVKTKLAEMGLSLK 309 Query: 319 MNLPDWPP 326 + P + P Sbjct: 310 DSPPGFDP 317 >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 = 219 bits (559), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 118/313 (37%), Positives = 190/313 (60%), Gaps = 6/313 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + Q +E + +PL RG+ T+GNALRRV++SSL G AIT+++I G+ HE S+I+G Sbjct: 12 ISVKQADEFHGIFTFKPLERGYGVTIGNALRRVILSSLEGYAITSIRIPGIYHEFSTIEG 71 Query: 78 VHEDLTDIILNIKGINLKMSGDS-HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVIC 135 V EDL +IILN+K I K GD+ ++ I ++TAGD Q E+ NP+ VIC Sbjct: 72 VTEDLVEIILNLKQIRFKKIGDTTENKIFISINNKKILTAGDFAQATAAFEITNPELVIC 131 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 ++D A +E+TV KG GYVPA+ ++ + G+I ID++++P+K V Y VE+ R GQ Sbjct: 132 HIDESARFEIEVTVEKGRGYVPAEENKIDAQVKGVIPIDSIFTPVKNVKYHVENTRVGQK 191 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKSLP 251 DY+ L +++TDG+I + ++ A+ I+ + I+ E + + ++ +L Sbjct: 192 TDYESLVFSVETDGTIHPQTAIERAADIMIKHFALLIDRNKMVETKDADEIDVLDESTLQ 251 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L + E+ LSVR+ NCL+ +I +GDL+Q +DM + NFG+KSL E++ ++ Sbjct: 252 MRKLLKTPLSEMGLSVRAFNCLKAADIKTLGDLVQLKVSDMAQFRNFGKKSLKELQDLVA 311 Query: 312 TMGLFLGMNLPDW 324 + L GM+L + Sbjct: 312 SKDLTFGMDLSAY 324 >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 = 219 bits (558), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 119/298 (39%), Positives = 185/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT ++IDGV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGITVGNALRRILLSSLEGFAITTIKIDGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDSHK--RVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + + +V+I AGDI + + EVLNP+ VIC+LD A +++++T++ Sbjct: 88 FKQVVEEFESEKVSITIENSSEFKAGDIGKYLTGFEVLNPELVICHLDSKATMQIDITIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y +E R Q DYDKL + I TDGS Sbjct: 148 KGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKYQIEPFRVEQKTDYDKLVLEITTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++IL +F I E + E+ + + L L K+ +++LS Sbjct: 208 IHPKEALKEAAKILIYHFMLFSDEKITLESNDVDGNEEFDEEVLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKKSLTELDDLLESLNLSFGTDISKY 325 >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 = 219 bits (558), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 120/298 (40%), Positives = 183/298 (61%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL+SSL G AIT+V+ID V HE S I GV ED+T+IILN+K + Sbjct: 28 PLEPGYGLTVGNALRRVLLSSLEGHAITSVRIDKVEHEFSVIPGVVEDVTEIILNLKQVR 87 Query: 94 LK--MSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + + V+I G +TAGD Q ++ +VLNPD VICN+D + ME+ + Sbjct: 88 FKKQIEDSEAEVVSISVSGKDQLTAGDFQKFISGYQVLNPDLVICNMDSKVSINMEIVID 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ N +G I +D++++PIK V Y++E+ R Q DY+KL I TDGS Sbjct: 148 KGRGYVPAEENKKSNAALGTIAVDSIFTPIKNVKYSIENFRVEQKTDYEKLVFEIVTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ +++L +F I E + E + +SL L K+ +++LS Sbjct: 208 IHPKDALTEGAKVLIHHFMLFSDERITLEADEIAQTETYDEESLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ + D+++ NFG+KSL E++ ++ GL GM+L + Sbjct: 268 VRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKKSLTELEELVINKGLSFGMDLSKY 325 >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 = 219 bits (558), Expect = 5e-55, Method: Compositional matrix adjust. Identities = 118/284 (41%), Positives = 181/284 (63%), Gaps = 11/284 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPR---LVYIEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y Sbjct: 238 VRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHY 278 >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 = 219 bits (558), Expect = 5e-55, Method: Compositional matrix adjust. Identities = 120/294 (40%), Positives = 188/294 (63%), Gaps = 6/294 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L SSL G+AI++V++DGVLHE SSI GV ED+ +IILN+ Sbjct: 23 FVVEPLERGYGITLGNSLRRILSSSLPGSAISSVKVDGVLHEFSSIPGVKEDVVEIILNL 82 Query: 90 KGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRM 145 KG+ ++ G K + I K G G VT DI+ +IE+LNP+H I L+ ++ + + Sbjct: 83 KGLAIRDTSQGTEPKVIYIEKSGEGPVTGADIKCGPEIEILNPEHHIATLNGGANSNLSI 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDAL--YSPIKKVSYTVESAREGQVLDYDKLSM 203 E+TV+ G GY + + PIG+I +DA Y+P+++V++ VE R GQ DYDKL++ Sbjct: 143 EMTVTTGRGYEGVDKLKKTDLPIGVIPVDANANYTPVERVNFIVEDTRVGQQTDYDKLTL 202 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 + T+G++ +++V+LA+++L + L +FI+ E + + + + L +EEL Sbjct: 203 EVWTNGTLKPDEAVSLAAKVLSEHLNLFIDLSENARTTEIMVTKEDDSKEKTLEMTIEEL 262 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +LSVRS NCL+ I + DL +TE +M+++ N GRKSL E+ L +G L Sbjct: 263 DLSVRSFNCLKRAGINTVEDLTNKTEEEMMKVRNLGRKSLEEVFQKLNELGFQL 316 >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 = 219 bits (558), Expect = 5e-55, Method: Compositional matrix adjust. Identities = 123/296 (41%), Positives = 177/296 (59%), Gaps = 8/296 (2%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I GV HE +++ GV ED+T+I Sbjct: 17 QRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGVPHEFTTLPGVEEDVTEI 76 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 +LNIKGI L D + + K G G TAGDI + + NPD I +L D + + Sbjct: 77 LLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIANPDMHIASLADDGELEI 136 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 E TV +G GYVPA+ ++ +N IG I +D++YSP+ KVSY VE+ R Q D+DKL + + Sbjct: 137 EFTVERGRGYVPAQMNKQDNAEIGRIPVDSIYSPVLKVSYRVEATRVEQRTDFDKLILDV 196 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF----NPALLKKVE 261 +T +I+ D+VA A L + G+ E + V P NP + +E Sbjct: 197 ETKPAISPRDAVASAGSTLVELFGLCREL----NTQAEGVEVGPAPVAEETNPEMAVPIE 252 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L +GL L Sbjct: 253 DLNLTQRSYNCLKREGIHTIGELVAHTEQDLLDIRNFGMKSIDEVKEKLQALGLAL 308 >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 = 219 bits (558), Expect = 5e-55, Method: Compositional matrix adjust. Identities = 120/298 (40%), Positives = 182/298 (61%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRV++SSL G AIT+V+ D V HE S+I GV ED+T+IILN+K I Sbjct: 28 PLEPGYGLTIGNALRRVMLSSLEGFAITSVKFDKVGHEFSTISGVREDVTEIILNLKQIR 87 Query: 94 LKMSGD--SHKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + ++ TI G +TAGD Q ++ +VLN D VICN+D A +E+T+ Sbjct: 88 FKRQIEDIENETATITVSGKRQLTAGDFQKALSGFQVLNTDLVICNMDSSASFTIEITIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYV A+ + N PIG+I DA+++PIK V Y++E+ R Q DY+KL I TDGS Sbjct: 148 KGRGYVSAEENAKPNAPIGVIATDAIFTPIKNVKYSIENYRVEQKTDYEKLVFEIKTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I + ++ A++ L +F I E + + + +SL L K+ +++LS Sbjct: 208 IHPKQALTEAAKTLIHHFMLFSDERITLEADEIAQTDTYDEESLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ +AD+++ NFG+KSL+E++ ++ GL GM+ + Sbjct: 268 VRALNCLKAAEVETLGDLVSFNKADLMKFRNFGKKSLIELEELVVNKGLVFGMDTSKY 325 >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 = 219 bits (558), Expect = 5e-55, Method: Compositional matrix adjust. Identities = 124/316 (39%), Positives = 193/316 (61%), Gaps = 9/316 (2%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 NR+ EPL GF +T+GN+LRR L+SS+ GAA+T+V+IDGVLHE S++ GV ED+T+I Sbjct: 17 NRSRFTIEPLEPGFGYTMGNSLRRTLLSSIPGAAVTSVRIDGVLHEFSTVPGVTEDVTEI 76 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 ILNIK +++ D + K+G G +TAGDI+ +E+ NP+ + L+ A Sbjct: 77 ILNIKKLSISSENDEPVVAYLRKQGEGELTAGDIEVPAGVEIHNPELHLATLNASANFNA 136 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 EL + +G GYV A ++ + IG I +D++YSP+ KV+++V + R Q D+D L++ + Sbjct: 137 ELVIERGRGYVTAAQNKVGDGEIGRIPVDSIYSPVLKVTFSVNATRVEQRTDFDSLTLDV 196 Query: 206 DTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 +T +I D+VA A L + G+ +N EV +S+ + AL +E+L Sbjct: 197 ETKEAIAPRDAVASAGSTLVELFGLARELNIAAEGIEVGPSPADESMAADLAL--PIEDL 254 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +SVRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L + LG+ L D Sbjct: 255 NMSVRSYNCLKREGIHTVGELVTRSEADLMDIRNFGAKSIDEVKAKL----IELGLALKD 310 Query: 324 WPPESIEELAKKYEDK 339 PP E A+ +D+ Sbjct: 311 SPP-GFEPAARPLDDE 325 >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 = 219 bits (558), Expect = 5e-55, Method: Compositional matrix adjust. Identities = 122/296 (41%), Positives = 178/296 (60%), Gaps = 8/296 (2%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ GV ED+ +I Sbjct: 17 QRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTALPGVKEDVAEI 76 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 +LNIK + L D + + K G G TA DI + V NPD I L D + + Sbjct: 77 LLNIKELVLTSEYDEPVVMYLRKSGEGEATAADITPPAGVVVANPDLHIATLAEDGELEI 136 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 E TV +G GYVPA+ ++ E D IG I +D++YSP+ KVSY V+ R Q D+DKL++ + Sbjct: 137 EFTVERGRGYVPAQMNKQEGDEIGRIPVDSIYSPVLKVSYKVDPTRVEQRTDFDKLTVDV 196 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP----FNPALLKKVE 261 +T SI+ D+VA A L + G+F E + V P +P + +E Sbjct: 197 ETKPSISPRDAVASAGSTLVELFGLFHEL----NNQAEGVEVGPAPVVEEVDPQMEIPIE 252 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +L L+ RS NCL+ E I +G+L++R+E D+L + NFG+KS+ E+K L +MGL L Sbjct: 253 DLNLTQRSYNCLKREGIHTIGELVKRSEQDLLDIRNFGQKSIDEVKEKLDSMGLSL 308 >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 = 219 bits (558), Expect = 5e-55, Method: Compositional matrix adjust. Identities = 118/298 (39%), Positives = 186/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT ++IDGV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGITVGNALRRILLSSLEGFAITTIRIDGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDSHK--RVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + + +V+I AGDI + + EVLNP+ VIC+LD + +++++T++ Sbjct: 88 FKQVVEEFESEKVSITVENSSEFKAGDIGKYLTGFEVLNPELVICHLDSKSTMQIDITIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y VE+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKYAVENFRVEQKTDYEKLVLEISTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++IL +F I E + E+ + + L L K+ +++LS Sbjct: 208 IHPKEALKEAAKILIYHFMLFSDEKITLESNDTDGNEEFDEEVLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKKSLTELDDLLESLNLSFGTDISKY 325 >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 = 219 bits (558), Expect = 5e-55, Method: Compositional matrix adjust. Identities = 116/293 (39%), Positives = 182/293 (62%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E +N + EPL RGF TLGN+LRRVL+SSL G+A+ A+++ G +HE S++ GV ED+ Sbjct: 16 ETDNYGKFVIEPLERGFGTTLGNSLRRVLLSSLPGSAVYAIKVQGAIHEFSAVDGVVEDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILN+K + + D + I GP VT DIQ +++ +++ D I ++ A Sbjct: 76 TSIILNLKKLVFDVDSDESATMIIDVEGPATVTGADIQCPSEVTMISNDMEIAHVAQGAH 135 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + MEL K GYV A ++ E + IG+I D++YSP++KVSY VE R G+ YD+L+ Sbjct: 136 LYMELYAKKDRGYVSADQNKKEINTIGIIPTDSIYSPVEKVSYAVEPTRVGESAKYDQLT 195 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + I+T+G++ ++++LA++IL + L MF+ + ++ +S N L +EE Sbjct: 196 LEIETNGALKPYEAISLAAKILVEHLNMFVELTDMAVNMEVMSEAQSDTTNKVLDMTIEE 255 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 L+LSVRS NCL+ I + DL ++E DM+++ N G+KSL E+K L +GL Sbjct: 256 LDLSVRSYNCLKRAGIQTVQDLAAKSEDDMIKVRNLGKKSLKEVKEKLVELGL 308 >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 = 219 bits (557), Expect = 6e-55, Method: Compositional matrix adjust. Identities = 119/290 (41%), Positives = 185/290 (63%), Gaps = 7/290 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA+ A+QIDG HE ++I + ED+TDI+LN+KG+ Sbjct: 24 EPLERGYGDTLGNSLRRVLLSSLEGAAVEAIQIDGAQHEFTTIPNMVEDVTDIVLNVKGL 83 Query: 93 NLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + G + + TI GP VT D ++ E++NP+ I L + M + + Sbjct: 84 VFRTLGTTDEGTATISVDGPCEVTGADFFIPSEFELVNPEQHIATLTEGGHLTMSMRIGY 143 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GYV + ++ +NDPIG+I +D+L+SP+K+ + VE+ R GQ DYD+L + I+T+G+I Sbjct: 144 GRGYVSYEQNKRDNDPIGIIHVDSLFSPVKRCAKLVEACRVGQHTDYDRLVLEIETNGAI 203 Query: 212 TGEDSVALASRILQDQLGMFINF-EEPKKEVKEDINVKSLPF---NPALLKKVEELELSV 267 D+V A+ I+ + F+ +EP E +E+I++ + N L K++E+L+LSV Sbjct: 204 NPRDAVVSAANIINQHMAAFMTLADEP--EAEEEISIFAPEVTSDNAELDKQIEDLDLSV 261 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS NCL+ +I + L++ +E D+L + NFG KS+ E+K L +MGL L Sbjct: 262 RSYNCLKRASIHSVRQLVEFSENDLLNIRNFGVKSIEEVKDKLESMGLSL 311 >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 = 219 bits (557), Expect = 6e-55, Method: Compositional matrix adjust. Identities = 129/317 (40%), Positives = 194/317 (61%), Gaps = 11/317 (3%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 EYI + NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++I+GVLHE ++I Sbjct: 12 EYI-----DTNRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIEGVLHEFTTI 66 Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHV 133 GV E++++IILNIK NL +S DS + V ++ +GP VTA DI D+ V NPD Sbjct: 67 NGVKENVSEIILNIK--NLVLSSDSDEPVVMYLSAQGPTDVTAADIDLPADVTVHNPDLH 124 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 I +L+ A + MEL V +G GYVPA + IG I +D +YSP+ KVSY VE+ R Sbjct: 125 IASLNESARLDMELVVERGRGYVPAMTN--SGGEIGRIPVDQIYSPVLKVSYKVEATRVE 182 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D+DKL + ++T S++ D++A A L + G+ + ++ + + + Sbjct: 183 QRTDFDKLIIDVETKNSMSARDALASAGSTLVELFGLARELNTAAEGIEIGPSPQETEYI 242 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 A +E+L SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L ++ Sbjct: 243 AAYNMPIEDLNFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIKLASL 302 Query: 314 GLFLGMNLPDWPPESIE 330 GL L D+ P IE Sbjct: 303 GLTLKDAPEDFDPTQIE 319 >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 = 219 bits (557), Expect = 6e-55, Method: Compositional matrix adjust. Identities = 121/300 (40%), Positives = 186/300 (62%), Gaps = 9/300 (3%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI ++I GV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGVTIGNALRRILLSSLEGFAINTIRIAGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNPD VIC+LD A ++++LT++ Sbjct: 88 FKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGFEVLNPDLVICHLDSKASMQIDLTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ +R + ++ ID++Y+PI+ V Y VE R Q DYDKL + + TDGS Sbjct: 148 KGRGYVPAEENREYCTDVNVLPIDSIYTPIRNVKYAVEPYRVEQKTDYDKLVVEVTTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEE--LE 264 I +D++ A++IL +F I E P +E ++ + + L L K+ + L Sbjct: 208 IHPKDALKEAAKILIYHFMLFSDEKITLENPDQEGNQEFDEEVLHMRQLLKTKLTDASLN 267 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 LSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKKSLSELDDLLESLNLSFGTDITKY 327 >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 = 219 bits (557), Expect = 6e-55, Method: Compositional matrix adjust. Identities = 120/285 (42%), Positives = 183/285 (64%), Gaps = 1/285 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+++SSL G A T+V+I+GV HE S+I GV ED+TDI+LN+K + Sbjct: 25 PLERGYGITLGNSLRRIMLSSLPGTAPTSVKIEGVEHEFSTISGVVEDVTDIVLNLKELV 84 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+M + + + + G G VTA + +IE+LNPD I L D + ME+TV G Sbjct: 85 LRMESEEPEILRLNASGEGEVTADEFTVSGNIEILNPDQHIATLSDDGQLDMEVTVENGR 144 Query: 154 GYVPAKHHR-TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A+ ++ E IG+I +D+ +SPIK+V++ VE G D DKL + I+TDGS+T Sbjct: 145 GYVSAEENKDDEEHVIGVIPMDSSFSPIKRVNFDVEDVWVGNRTDLDKLVLEINTDGSLT 204 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 E++++LA+++L + L + IN E +V + + + L +EEL+LSVRS+NC Sbjct: 205 PEEAISLAAKVLDEHLDLLINLNEEITDVDLMVEKEEEEKDKVLETTIEELDLSVRSSNC 264 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+ I + +L ++TE D++++ N G+KSL EIK L + L L Sbjct: 265 LKRAGIDNVEELTEQTEDDLMKVRNLGKKSLQEIKDKLDELDLSL 309 >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 = 219 bits (557), Expect = 6e-55, Method: Compositional matrix adjust. Identities = 122/298 (40%), Positives = 186/298 (62%), Gaps = 6/298 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 +PL +G+ T+GNALRR+L+SSL G AIT+V+ GVLHE SSI+GV ED+T+IILN+K + Sbjct: 27 KPLEKGYGVTIGNALRRILLSSLEGYAITSVKFPGVLHEFSSIEGVVEDVTEIILNLKMV 86 Query: 93 NLKMSGDS-HKRVTIFKRGPGVVTAGDIQTVN-DIEVLNPDHVICNLDVDAVVRMELTVS 150 K D ++T+ + V+ AGDI + EVLNP+ IC++D + ME+ V Sbjct: 87 RFKKINDMVDNKITVNIKKQSVLKAGDISKFSPSFEVLNPELEICHIDDTRDLEMEIFVE 146 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVP+ R P G I IDA+Y+PIK V Y+VE+ R Q DY++L + I+TDGS Sbjct: 147 KGRGYVPSDEPRVNELPFGHIPIDAIYTPIKNVKYSVENTRVEQKTDYERLLLDIETDGS 206 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I E+++ A+ IL +F + FE K E + ++ + L L + +L+LS Sbjct: 207 IHPEEALKGAAYILIQHFMLFSDQTMTFETAKPEEENVVDEEVLHMRKLLKTSLADLDLS 266 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL++ +DM++ NFG+KSL E++ ++ L GM++ + Sbjct: 267 VRAYNCLKSADVRTLGDLVRLEISDMMKFRNFGKKSLTELEQLVAEKNLTFGMDVAKY 324 >gi|156752145|gb|ABU93823.1| RNA polymerase subunit A [Vibrio sp. 23023] Length = 256 Score = 219 bits (557), Expect = 6e-55, Method: Compositional matrix adjust. Identities = 113/259 (43%), Positives = 175/259 (67%), Gaps = 8/259 (3%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHK 102 GNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G Sbjct: 1 GNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEV 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK-- 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++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Sbjct: 181 RAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAI 237 Query: 279 VYMGDLIQRTEADMLRMAN 297 Y+GDL+QRTE ++L+ N Sbjct: 238 HYIGDLVQRTEVELLKTPN 256 >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 = 219 bits (557), Expect = 7e-55, Method: Compositional matrix adjust. Identities = 117/298 (39%), Positives = 185/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GN+LRR+L+SSL G AI ++I GV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGITIGNSLRRILLSSLEGYAINTIRIAGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNPD VIC+LD A ++++LT++ Sbjct: 88 FKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGFEVLNPDLVICHLDAKASMQIDLTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 +G GYVPA +R + ++ ID++Y+PI+ V Y+VE R Q DYDKL + + TDGS Sbjct: 148 QGRGYVPADENRQFCTDVNVLPIDSIYTPIRNVKYSVEPYRVEQKTDYDKLVIEVTTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 ++ +D++ A++IL +F I E P ++ ++ + + L L K+ +L LS Sbjct: 208 LSPKDALKEAAKILIYHFMLFSDEKITLENPDQDDNQEFDEEVLRMRQLLKTKLIDLNLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G + + Sbjct: 268 VRALNCLKAAEVETLGDLVQYNKTDLLKFRNFGKKSLSELDDLLESLNLSFGTDTSKY 325 >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 = 218 bits (556), Expect = 7e-55, Method: Compositional matrix adjust. Identities = 125/306 (40%), Positives = 189/306 (61%), Gaps = 10/306 (3%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-----DGVLHEISS---- 74 + N +A P RGF T+GN LRRVL+SS++G A++AV+I +G H +SS Sbjct: 24 QSNYGKFVAYPFERGFGTTVGNTLRRVLLSSIQGYAVSAVKITCYNEEGTPHMVSSEFEM 83 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHV 133 + V ED +II N+K + +K+ + ++ + + +GPG +T D + ND+E++N D Sbjct: 84 VPEVVEDTPEIIANLKQLQIKLPEEVEQKTLLIECKGPGEITGADFEKDNDVEIINKDWK 143 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 I + A +E+ + G GYVP++ + + IG I IDA++SPIK+V+Y +E+ R G Sbjct: 144 ILTMMEKANFDLEVQIDLGRGYVPSEVNEKYIEEIGTIPIDAVFSPIKRVTYGIENTRVG 203 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q DYDKL+M I TDG+I ED++A A++I +D +FINF+E + +D++ + Sbjct: 204 QRSDYDKLTMEIYTDGTIAPEDALAEAAKIAKDHFTIFINFDEDAIDGDDDVDEEEERVR 263 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 L VEELELSVRS NCL+ NI +GDL ++TE ++ + NFG+KSL EIK L Sbjct: 264 AVLDTPVEELELSVRSFNCLKSANIRTIGDLTRKTEEEIAKTRNFGKKSLQEIKEKLKEW 323 Query: 314 GLFLGM 319 L LGM Sbjct: 324 NLSLGM 329 >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 = 218 bits (556), Expect = 7e-55, Method: Compositional matrix adjust. Identities = 123/296 (41%), Positives = 177/296 (59%), Gaps = 8/296 (2%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I GV HE +++ GV ED+T+I Sbjct: 17 QRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGVPHEFTTLPGVEEDVTEI 76 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 +LNIKGI L D + + K G G TAGDI + + NPD I L D + + Sbjct: 77 LLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIANPDMHIATLAEDGELEI 136 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 E TV +G GYVPA+ ++ +N IG I +D++YSP+ KVSY VE+ R Q D+DKL + + Sbjct: 137 EFTVERGRGYVPAQMNKQDNAEIGRIPVDSIYSPVLKVSYRVEATRVEQRTDFDKLILDV 196 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF----NPALLKKVE 261 +T +I+ D+VA A L + G+ E + V P NP + +E Sbjct: 197 ETKPAISPRDAVASAGSTLVELFGLCREL----NTQAEGVEVGPAPVAEETNPEMNIPIE 252 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L ++GL L Sbjct: 253 DLNLTQRSYNCLKREGIHTIGELVAHTEQDLLDIRNFGMKSIDEVKEKLQSLGLAL 308 >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 = 218 bits (556), Expect = 8e-55, Method: Compositional matrix adjust. Identities = 121/300 (40%), Positives = 186/300 (62%), Gaps = 9/300 (3%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI ++I GV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGVTIGNALRRILLSSLEGFAINTIRIAGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNPD VIC+LD A ++++LT++ Sbjct: 88 FKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGFEVLNPDLVICHLDSKASMQIDLTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ +R + ++ ID++Y+PI+ V Y VE R Q DYDKL + + TDGS Sbjct: 148 KGRGYVPAEENREFCTDVNVLPIDSIYTPIRNVKYAVEPYRVEQKTDYDKLVVEVTTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEE--LE 264 I +D++ A++IL +F I E P +E ++ + + L L K+ + L Sbjct: 208 IHPKDALKEAAKILIYHFMLFSDEKITLENPDQEGNQEFDEEVLHMRQLLKTKLTDASLN 267 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 LSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKKSLSELDDLLESLNLSFGTDITKY 327 >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 = 218 bits (556), Expect = 8e-55, Method: Compositional matrix adjust. Identities = 121/300 (40%), Positives = 186/300 (62%), Gaps = 9/300 (3%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI ++I GV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGVTIGNALRRILLSSLEGFAINTIRIAGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNPD VIC+LD A ++++LT++ Sbjct: 88 FKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGFEVLNPDLVICHLDSKASMQIDLTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ +R + ++ ID++Y+PI+ V Y VE R Q DYDKL + + TDGS Sbjct: 148 KGRGYVPAEENREFCTDVNVLPIDSIYTPIRNVKYAVEPYRVEQKTDYDKLVVEVTTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEE--LE 264 I +D++ A++IL +F I E P +E ++ + + L L K+ + L Sbjct: 208 IHPKDALKEAAKILIYHFMLFSDEKITLENPDQEGNQEFDEEVLHMRQLLKTKLTDASLN 267 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 LSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKKSLSELDDLLESLNLSFGTDITKY 327 >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 = 218 bits (556), Expect = 8e-55, Method: Compositional matrix adjust. Identities = 123/306 (40%), Positives = 190/306 (62%), Gaps = 5/306 (1%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV ED++DII Sbjct: 18 RSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTINGVKEDVSDII 77 Query: 87 LNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 LNIKG L +S DS + V ++ K G GV+TAGDI+ +E+ NPD + L+ + Sbjct: 78 LNIKG--LVLSSDSDEPVVMYLRKEGAGVITAGDIEPPAGVEIHNPDLHLATLNEQGRLD 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +E+ V +G GYVPA + + IG I +D +YSP+ KVSY VE+ R Q D+DKL + Sbjct: 136 IEMIVERGRGYVPATLYSGPAE-IGRIPVDQIYSPVLKVSYKVEATRVEQRTDFDKLIID 194 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 ++T S+ D++A A + L + G+ + ++ + + + A +E+L Sbjct: 195 VETKNSMAPRDALASAGKTLVELFGLARELNTAAEGIEIGPSPQETEYIAAYGMPIEDLN 254 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L +GL L D+ Sbjct: 255 FSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIKLAGLGLTLKDAPEDF 314 Query: 325 PPESIE 330 P ++ Sbjct: 315 DPTQLD 320 >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 = 218 bits (556), Expect = 8e-55, Method: Compositional matrix adjust. Identities = 123/296 (41%), Positives = 177/296 (59%), Gaps = 8/296 (2%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I GV HE +++ GV ED+T+I Sbjct: 17 QRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGVPHEFTTLPGVEEDVTEI 76 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 +LNIKGI L D + + K G G TAGDI + + NPD I L D + + Sbjct: 77 LLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIANPDMHIATLAEDGELEI 136 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 E TV +G GYVPA+ ++ +N IG I +D++YSP+ KVSY VE+ R Q D+DKL + + Sbjct: 137 EFTVERGRGYVPAQMNKQDNAEIGRIPVDSIYSPVLKVSYRVEATRVEQRTDFDKLILDV 196 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF----NPALLKKVE 261 +T +I+ D+VA A L + G+ E + V P NP + +E Sbjct: 197 ETKPAISPRDAVASAGSTLVELFGLCREL----NTQAEGVEVGPAPVAEETNPEMNIPIE 252 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L ++GL L Sbjct: 253 DLNLTQRSYNCLKREGIHTIGELVAHTEQDLLDIRNFGMKSIDEVKEKLQSLGLAL 308 >gi|156788956|gb|ABU96049.1| RNA polymerase subunit A [Vibrio parahaemolyticus] Length = 258 Score = 218 bits (556), Expect = 9e-55, Method: Compositional matrix adjust. Identities = 112/260 (43%), Positives = 176/260 (67%), Gaps = 8/260 (3%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRV 104 ALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G + Sbjct: 2 ALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFI 61 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y Sbjct: 182 ATILTEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHY 238 Query: 281 MGDLIQRTEADMLRMANFGR 300 +GDL+QRTE ++L+ N G+ Sbjct: 239 IGDLVQRTEVELLKTPNLGK 258 >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 = 218 bits (555), Expect = 9e-55, Method: Compositional matrix adjust. Identities = 120/298 (40%), Positives = 185/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI ++I GV HE +S+ GV ED+T+IILN+K I Sbjct: 28 PLEPGFGITVGNALRRILLSSLEGYAINTMRIAGVEHEFASVPGVKEDVTNIILNLKQIR 87 Query: 94 LK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNP+ VIC+LD A +++EL+++ Sbjct: 88 FKKIVEEFENEKVSITVENTTEFKAGDINKYLTGFEVLNPELVICHLDAKATMQIELSIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y VE+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPADENRIFCTDVNVIPIDSIYTPIRNVKYAVENYRVEQKTDYEKLVLEISTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A++IL +F I E E E+ + + L L K+ +++LS Sbjct: 208 IHPKDALKEAAKILIYHFMLFSDEKITLENSDGEGNEEFDEEVLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKKSLTELDDLLESLNLSFGTDISKY 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 = 218 bits (555), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 120/298 (40%), Positives = 181/298 (60%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRV++SSL G AIT+V+ D V HE S+I GV ED+T+IILN+K I Sbjct: 28 PLEPGYGLTIGNALRRVMLSSLEGFAITSVKFDKVGHEFSTISGVREDVTEIILNLKQIR 87 Query: 94 LKMSGD--SHKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + ++ TI G +TAGD Q ++ +VLN D VICN+D A +E+T+ Sbjct: 88 FKRQIEDIENETATITVSGKRQLTAGDFQKALSGFQVLNTDLVICNMDSSASFTIEVTIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYV A+ + N PIG+I DA+++PIK V Y++E+ R Q DY+KL I TDGS Sbjct: 148 KGRGYVSAEENAKPNAPIGVIATDAIFTPIKNVKYSIENYRVEQKTDYEKLVFEIKTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I + ++ A++ L +F I E + + + +SL L K+ +++LS Sbjct: 208 IHPKQALTEAAKTLIHHFMLFSDERITLEADEIAQTDTYDEESLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ +AD+++ NFG+KSL+E+ ++ GL GM+ + Sbjct: 268 VRALNCLKAAEVETLGDLVSFNKADLMKFRNFGKKSLIELDELVVNKGLVFGMDTSKY 325 >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 = 218 bits (555), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 124/307 (40%), Positives = 187/307 (60%), Gaps = 4/307 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S++ GV ED+T+ Sbjct: 16 EARSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFSTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 +ILNIK + D + K+G G +T DI +EV NPD + L+ + + Sbjct: 76 LILNIKSLVFSSEHDEPVVAYLRKQGSGEMTGADISCPAGVEVHNPDLYLGALNDEGAID 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELT+ +G GYV A+ ++ IG I +D++YSP+ V+Y VE+ R Q D+DKL + Sbjct: 136 LELTIERGRGYVSAQQNKGGEQEIGRIPVDSIYSPVLSVTYKVEATRVEQRTDFDKLIVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 ++T S++ D++A A + L + G+ +N E E+ SL + AL VEE Sbjct: 196 VETKNSMSPADAMASAGKTLVELFGLARDLNVEAEGIEMGTVQTDASLAADLAL--PVEE 253 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 L LSVRS NCL+ E I +G+L+ R++AD+L + NFG KS+ E++ L +GL L Sbjct: 254 LNLSVRSYNCLKREGIHTVGELVARSQADLLDIRNFGNKSIDEVQVELHKLGLALKDTPA 313 Query: 323 DWPPESI 329 D+ P +I Sbjct: 314 DFDPSTI 320 >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 = 218 bits (555), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 123/296 (41%), Positives = 177/296 (59%), Gaps = 8/296 (2%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I GV HE +++ GV ED+T+I Sbjct: 29 QRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGVPHEFTTLPGVEEDVTEI 88 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 +LNIKGI L D + + K G G TAGDI + + NPD I L D + + Sbjct: 89 LLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIANPDMHIATLAEDGELEI 148 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 E TV +G GYVPA+ ++ +N IG I +D++YSP+ KVSY VE+ R Q D+DKL + + Sbjct: 149 EFTVERGRGYVPAQMNKQDNAEIGRIPVDSIYSPVLKVSYRVEATRVEQRTDFDKLILDV 208 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF----NPALLKKVE 261 +T +I+ D+VA A L + G+ E + V P NP + +E Sbjct: 209 ETKPAISPRDAVASAGSTLVELFGLCREL----NTQAEGVEVGPAPVAEETNPEMNIPIE 264 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L ++GL L Sbjct: 265 DLNLTQRSYNCLKREGIHTIGELVAHTEQDLLDIRNFGMKSIDEVKEKLQSLGLAL 320 >gi|313292082|gb|ADR51230.1| DNA-directed RNA polymerase alpha chain [Enterococcus gallinarum] Length = 241 Score = 218 bits (555), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 108/217 (49%), Positives = 152/217 (70%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ Sbjct: 7 EEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDV 66 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILNIKG+ LKM GD K + I GP VTAGDI +D+E+LN D ICN+ A Sbjct: 67 AQIILNIKGLALKMYGDEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICNVSEGAS 126 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+ Sbjct: 127 FHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLT 186 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 M I TDGSI ++++LA++I+ + L +F+N + K Sbjct: 187 MEIWTDGSIEPLEAMSLAAKIMTEHLDIFVNLTDEAK 223 >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 = 218 bits (554), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 128/317 (40%), Positives = 188/317 (59%), Gaps = 19/317 (5%) Query: 18 IVLGQEEENRTL-MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 +V Q E + + EPL GF T+GNA+RRVL+SSL G AI+AV I G+ HE S I Sbjct: 19 VVFNQIREGYSAEFVVEPLRGGFGLTIGNAMRRVLLSSLSGFAISAVGIKGLTHEFSCIP 78 Query: 77 GVHEDLTDIILNIKGINLK-MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 GV ED D+ LN+K + LK +SG + + + G G V + I +D EV+N D +IC Sbjct: 79 GVREDFADLALNLKKVVLKSVSGATCGNLHLSVTGGGAVFSNMISPSHDFEVVNADLLIC 138 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRT-ENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 N+ + ME+ VS G GYV + R E D G + IDA+Y+P++ V++TV+ G Sbjct: 139 NVAEGVSLEMEMKVSSGFGYVSSVSVRKDEYDLEGAVPIDAIYNPVRAVNFTVKPTSAGS 198 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 + +DKL + ++T+G++ + +V AS+IL Q F+N +P+ V +P++ Sbjct: 199 FVGHDKLILYVETNGAMDPKTAVLEASKILSTQARCFLNIADPEHRVH------GVPYSV 252 Query: 255 A----------LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + L +++ L LS R+ CL GENIVY+ DL+ RTEAD+L+ NFGR+SL Sbjct: 253 STSDRNDTSDLLSARIDRLYLSARARKCLNGENIVYIRDLVSRTEADLLKAPNFGRRSLE 312 Query: 305 EIKGVLGTMGLFLGMNL 321 E+K L + GL LGMNL Sbjct: 313 EVKKELFSKGLSLGMNL 329 >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 = 218 bits (554), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 125/298 (41%), Positives = 178/298 (59%), Gaps = 12/298 (4%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ GV ED+T+I Sbjct: 17 QRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTTLPGVEEDVTEI 76 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 +LNIKGI L D + + K G G TAGDI + + NPD I L D + + Sbjct: 77 LLNIKGIVLTSEYDEPVVMYLRKNGKGEATAGDITPPAGVTIANPDLHIATLAEDGELEI 136 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 E TV +G GYVPA+ ++ EN IG I +D++YSP+ KVSY VE+ R Q D+DKL + + Sbjct: 137 EFTVERGRGYVPAQMNKQENSEIGRIPVDSIYSPVLKVSYKVEATRVEQRTDFDKLILDV 196 Query: 206 DTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----FNPALLKK 259 +T +IT D+VA A L + G+ +N + E + V P + L Sbjct: 197 ETKPAITPRDAVASAGSTLVELFGLCRELNVD------AEGVEVGPAPTHDEADSQLAIP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E++ + RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L TMGL L Sbjct: 251 IEDMNFTQRSYNCLKREGIHTVGELVVHTEQDLLDIRNFGMKSIDEVKEKLQTMGLSL 308 >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 = 218 bits (554), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 122/313 (38%), Positives = 187/313 (59%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 R+ + EPL GF +T+GN+LRR L+SS+ GAA+T+++I+GV HE +++ GV ED+T++I Sbjct: 18 RSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGAAVTSIRIEGVEHEFTTVPGVKEDVTEMI 77 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+KG+ + D + + K+GPGVVTA DI +EV NPD I L+ + ME Sbjct: 78 LNLKGLVVSSEHDEPVLMYLRKQGPGVVTAADIAPPAGVEVHNPDLHIATLNGKGKLEME 137 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LTV +G GYV A ++ IG I ID++YSP+ +V+Y VE+ R Q D+D+L + I+ Sbjct: 138 LTVERGRGYVSATQNKQAGQEIGRIPIDSIYSPVLRVTYKVEATRVEQRTDFDRLIVDIE 197 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T +I D+VA A + L + G+ + + + L +E+L L+ Sbjct: 198 TKPAIRPRDAVASAGKTLVELFGLARELNVDAEGIDMGPSPTDAALAADLALPIEDLNLT 257 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L MGL L + P + P Sbjct: 258 VRSYNCLKREGIHSVGELVARSEQDLLDIRNFGAKSIDEVKQKLVDMGLSLKDSPPGFDP 317 Query: 327 ESIEELAKKYEDK 339 S + +D+ Sbjct: 318 SSAADSYSSEDDE 330 >gi|328813971|gb|AEB52101.1| DNA-directed RNA polymerase alpha chain [Lactobacillus fermentum] Length = 257 Score = 218 bits (554), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 114/257 (44%), Positives = 172/257 (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 SKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GY A ++T 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|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 = 218 bits (554), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 124/298 (41%), Positives = 179/298 (60%), Gaps = 12/298 (4%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ GV ED+T+I Sbjct: 17 QRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTTLPGVEEDVTEI 76 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 +LNIKGI L D + + K G G TAGDI + + NP+ I L D + + Sbjct: 77 LLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIANPEMHIATLAEDGELEI 136 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 E TV +G GYVPA+ ++ EN IG I +D++YSP+ KVSY VE+ R Q D+DKL + + Sbjct: 137 EFTVERGRGYVPAQMNKQENSEIGRIPVDSIYSPVLKVSYKVEATRVEQRTDFDKLILDV 196 Query: 206 DTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----FNPALLKK 259 +T +IT D+VA A L + G+ +N + E + V P + + Sbjct: 197 ETKPAITPRDAVASAGSTLVELFGLCRELNVD------AEGVEVGPAPVMGEVDSQMATP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L +MGL L Sbjct: 251 IEDLNLTQRSYNCLKREGIHTVGELVVHTEQDLLDIRNFGMKSIDEVKEKLQSMGLSL 308 >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 = 218 bits (554), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 118/298 (39%), Positives = 186/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT ++IDGV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGITVGNALRRILLSSLEGFAITTIKIDGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDSHK--RVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + + +V+I AGDI + + EVLNP+ VIC+LD + +++++T++ Sbjct: 88 FKQVVEEFESEKVSITIENSSEFKAGDIGKYLTGFEVLNPELVICHLDSKSTMQIDITIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y VE+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKYQVENFRVEQKTDYEKLVLEITTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++IL +F I E + E+ + + L L K+ +++LS Sbjct: 208 IHPKEALKEAAKILIYHFMLFSDEKITLETNDVDGNEEFDEEVLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKKSLTELDDLLESLNLSFGTDISKY 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 = 218 bits (554), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 121/300 (40%), Positives = 185/300 (61%), Gaps = 9/300 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 +PL G+ T+GNALRR+L+SSL G AITA++I+GV HE ++I GV ED+T+IILN+K + Sbjct: 27 KPLEPGYGITIGNALRRILLSSLEGFAITAIKIEGVEHEFATIPGVLEDVTNIILNLKQV 86 Query: 93 NLKM---SGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELT 148 K + D K TI V AGD+ +++ EVLN + VIC+LD A + ME + Sbjct: 87 RFKQIVPNADVEK-ATIVISNSEVFRAGDLNAQLSNFEVLNSNLVICHLDKSATLTMEFS 145 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 ++KG GYV A+ +R E++ + I ID++Y+PI+ V Y VE+ R Q DY+KL M + TD Sbjct: 146 INKGRGYVSAEENRAEHNELSTIAIDSIYTPIRNVKYAVENFRVEQKTDYEKLLMEVTTD 205 Query: 209 GSITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 GSI D++ A++IL +F I E ++ + SL L K+ L+ Sbjct: 206 GSIRPVDALREAAQILISHFSLFAENKIAIEYVDIVDTDEFDEDSLHMRQLLKSKLSGLD 265 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 LSVR+ NCL + +GDL+ + +D++++ NFG+KSL E+ +L T+ L GM++ + Sbjct: 266 LSVRALNCLNAAGVDTLGDLVSLSRSDLMKIRNFGKKSLTELDELLATLNLSFGMDISKY 325 >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 = 218 bits (554), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 119/293 (40%), Positives = 179/293 (61%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+EN I EPL RGF TLGN+LRRVL+SS+ GAA+ AV+I+G +HE S++ GV ED+ Sbjct: 16 EDENYGKFIIEPLERGFGTTLGNSLRRVLLSSMPGAAVFAVKINGAIHEFSAVDGVLEDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILNIK + ++ D + I GP VT DIQ +++++++ D VI ++ Sbjct: 76 TAIILNIKKLVFELDSDEDVTMVIDVTGPATVTGADIQCPSEVKMISNDLVIAHVAEGQH 135 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 ME+ K GY+ A ++ + IG+I D+++SP+ V+Y VE R GQ YD+L+ Sbjct: 136 FYMEMYAHKDRGYMSADQNKKYVNTIGVIPTDSIFSPVVNVAYLVEPTRVGQSAKYDQLT 195 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 M I TDGSI + +A+A+++L + L MF+ + + V+ N L +EE Sbjct: 196 MEITTDGSIKPHEVLAIAAKVLVEHLNMFVELTDQAMNMDVMSEVQQDTGNKVLDMTIEE 255 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 L+LSVRS NCL+ I + +L +TE DM+++ N G+KSL E+K L +GL Sbjct: 256 LDLSVRSYNCLKRAGIQTVQELASKTEDDMIKVRNLGKKSLKEVKEKLNELGL 308 >gi|328813963|gb|AEB52097.1| DNA-directed RNA polymerase alpha chain [Lactobacillus farraginis] Length = 264 Score = 218 bits (554), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 119/262 (45%), Positives = 172/262 (65%), Gaps = 4/262 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EPL RG+ TLGN+LRR L+SSL GAA+T++QID VLHE S+IKGV ED+T IILN+ Sbjct: 3 VVVEPLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQIILNV 62 Query: 90 KGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K I+LK+ G D + + I GP VTAGDIQ +D+ VLNPD I + A M L Sbjct: 63 KKISLKLDGPEDEEENLEIDVIGPADVTAGDIQGDSDVTVLNPDLHIATVAEGATFHMRL 122 Query: 148 TVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 T ++G GYV A R PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ + Sbjct: 123 TANRGRGYVSAVENKKRATEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDV 182 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+GSIT ++V+LA++IL + L MF++ + K + + + L +EEL+L Sbjct: 183 WTNGSITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEIMVEKEETHKEKMLEMTIEELDL 242 Query: 266 SVRSTNCLRGENIVYMGDLIQR 287 SVRS NCL+ I + +L ++ Sbjct: 243 SVRSYNCLKRAGINTVQELTEK 264 >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 = 218 bits (554), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 125/319 (39%), Positives = 198/319 (62%), Gaps = 8/319 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ENR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S++ GV ED+T+ Sbjct: 16 ENRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFSTVPGVKEDITE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRG--PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 +ILNIK NL +S ++ + V ++ R G VTA DI +E+ NPD I L+ Sbjct: 76 VILNIK--NLVVSSENDEPVVMYLRREEAGRVTAADITPPAGVEIHNPDLHIATLNEKGR 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +EL V +G GYV A ++ + IG + +D++YSP+ KV+Y VE+ R Q D+DKL Sbjct: 134 LEIELIVERGRGYVSAAQNKGVDGEIGRVPVDSIYSPVLKVTYKVEATRVEQRTDFDKLI 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKV 260 + ++T +I+ D+VA A + L + G+ +N E E+ ++L + AL + Sbjct: 194 VDVETKPAISPRDAVASAGKTLVELFGLAHELNQEAEGIEIGPSPTDQALAADLAL--PI 251 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 +L L+VRS NCL E + +G+L R+EAD+L + NFG+KS+ E+K L +GL L + Sbjct: 252 NDLNLTVRSYNCLMREGVHTVGELTARSEADLLDIRNFGQKSIDEVKAKLADLGLSLKDS 311 Query: 321 LPDWPPESIEELAKKYEDK 339 + P +++ + + D+ Sbjct: 312 PAGFDPSALDSYSDDFGDQ 330 >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 = 217 bits (553), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 116/289 (40%), Positives = 179/289 (61%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T++ I+GV HE ++I GV ED+T IILN+ Sbjct: 23 FVIEPLKRGYGTTLGNSLRRVLLSSLPGAAVTSISIEGVQHEFTAIDGVVEDVTQIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L + + K + I G VTA DI+ ++ ++NP+ I L +RM + Sbjct: 83 KNLILSIDTEEVKELRIDVAREGAVTAADIECDEEVTIINPELHIATLSATGRLRMTMKA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G+GYV A ++ + G I ID++Y+P+ +VSY VE R GQ YDKL++ + T+G Sbjct: 143 RRGNGYVGADDNKKLLESAGEIAIDSIYTPVTRVSYDVEKTRVGQDASYDKLTLEVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI ++++++AS+IL + + +N E + + + N L +EEL+LSVRS Sbjct: 203 SINPQEAISVASKILVEHFSILVNLNEAGQLASFIVEREDEEKNKVLEMPIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 NCLR I + +L + +E DM+++ N G+KSL E+K L +GL LG Sbjct: 263 YNCLRRAGINTVEELARHSEEDMMKVRNLGKKSLKEVKDKLDELGLSLG 311 >gi|76563869|gb|ABA46366.1| RNA polymerase alpha subunit [Photobacterium halotolerans] Length = 252 Score = 217 bits (553), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 111/250 (44%), Positives = 169/250 (67%), Gaps = 7/250 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 5 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDVLEILLNLKGL 64 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +++ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V + Sbjct: 65 AVKVEGKDEVILSLSKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNADISMRIKVER 124 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA +SP+ +++Y+VE+AR Q D DKL + ++T+ Sbjct: 125 GRGYVPASARIHSDEDERPIGRLLVDATFSPVDRIAYSVEAARVEQRTDLDKLVIDMETN 184 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+VR Sbjct: 185 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 241 Query: 269 STNCLRGENI 278 S NCL+ E I Sbjct: 242 SANCLKAEAI 251 >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 = 217 bits (553), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 118/298 (39%), Positives = 186/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT ++I+GV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGITVGNALRRILLSSLEGFAITTIRIEGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDSHK--RVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + + +V+I AGDI + + EVLNP+ VIC+LD A +++++T++ Sbjct: 88 FKQVVEEFESEKVSITIENSSEFKAGDIGKYLTGFEVLNPELVICHLDSKATMQIDITIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y VE+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKYAVENFRVEQKTDYEKLVLEITTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++IL +F I E + E+ + + L L K+ +++LS Sbjct: 208 IHPKEALKEAAKILIYHFMLFSDEKITLESNDVDGNEEFDEEVLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKKSLTELDDLLESLNLSFGTDISKY 325 >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 = 217 bits (553), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 122/294 (41%), Positives = 183/294 (62%), Gaps = 11/294 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF +T+GNALRRVL+SSL GAA+ +++I+GV HE +SI GV ED+T I+LN+ Sbjct: 23 FVIEPLERGFGNTIGNALRRVLLSSLPGAAVYSIKIEGVYHEFTSIAGVGEDVTGIVLNV 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L + + + I ++GP VVTA DI+ ++E+LN DH+I L AV+ MEL Sbjct: 83 KDLVLNVQDEEVYTLRISQKGPKVVTAADIECPANVEILNKDHIIATLAEGAVLEMELKA 142 Query: 150 SKGHGYVPAKH----HRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 G GYV + ++ + IG I D++Y+PI++V Y +E R GQ YD+L M + Sbjct: 143 RNGRGYVSSDENKLIYQNASQGIGTIFTDSIYTPIERVKYHIEPTRVGQDSKYDRLIMEV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKE----VKEDINVKSLPFNPALLKKVE 261 T+GSI + +++L S+IL D L + ++ E +K D+ S NP +E Sbjct: 203 WTNGSIQPQVALSLGSKILMDHLEQIVAIKDSVYETESVIKPDV---SGVENPMATMMIE 259 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 +L+LSVRS NCL+ I + +L +TE +M+R+ N G+KSL E+K L +GL Sbjct: 260 DLDLSVRSYNCLKRAGIQTVEELTLKTEDEMMRIRNLGKKSLKEVKDKLHDLGL 313 >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 = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 125/303 (41%), Positives = 187/303 (61%), Gaps = 20/303 (6%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR+ I EPL GF +TLGN+LRR L+SS+ GA++T++++DGVLHE +++ GV ED+T+ Sbjct: 16 DNRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRVDGVLHEFTTVPGVKEDITE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 +ILN+K L +S + + VT++ K+GPG VTA DI + V N D + L Sbjct: 76 LILNLK--ELVVSSEDDEPVTMYLRKQGPGDVTAADIAPPAGVTVHNSDLKLATLTKKGK 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+DKL Sbjct: 134 LEIELVVERGRGYVPASPNKVVGAEIGRIPVDSIYSPVLKVTYRVEATRVEQRTDFDKLV 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNP 254 + ++T SIT D++A A L + G+ +N + P + I LP Sbjct: 194 LDVETKPSITPRDALASAGTTLVELFGLARELNVDAEGIEIGPSPAEADHIAAFGLP--- 250 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +EE++L+VRS NCL+ E I +G+L+ RTEAD+L + NFG+KS+ E+K L MG Sbjct: 251 -----IEEMDLTVRSYNCLKREGIHTVGELVSRTEADLLDIRNFGQKSIDEVKIKLAGMG 305 Query: 315 LFL 317 L L Sbjct: 306 LAL 308 >gi|161511759|emb|CAP16890.1| DNA-directed RNA polymerase subunit alpha [Pediococcus damnosus] Length = 265 Score = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 113/254 (44%), Positives = 167/254 (65%), Gaps = 2/254 (0%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+ N + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDGVLHE S+I+GV ED+ Sbjct: 10 EKSNYGRFVVEPLERGYGTTLGNSLRRILLSSLPGAALTSVQIDGVLHEFSTIEGVVEDV 69 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ IC + Sbjct: 70 TQIILNLKKVSLKVESDEEKSLEINVMGPANVTAGDIVGDGDVTILNPELPICTVAEGTT 129 Query: 143 VRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 LT KG GY A + R + PIG++ ID++Y+PI++V+Y VE+ R GQ DYDK Sbjct: 130 FHAVLTAEKGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDK 189 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L++ + TDGS+ ++++L+++IL + L +F+N ++ K+ + + + L + Sbjct: 190 LTLDVWTDGSLAASEAISLSAKILTEHLTIFVNLDDQAKDTEIMVEKEETHKEKMLEMTI 249 Query: 261 EELELSVRSTNCLR 274 EEL+LSVRS NCL+ Sbjct: 250 EELDLSVRSYNCLK 263 >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 = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 128/312 (41%), Positives = 195/312 (62%), Gaps = 16/312 (5%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E+R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S+I GV ED+T+ Sbjct: 16 EHRSRFSIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFSTIPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILNIK NL +S ++ + V ++ K+G G VT DI +EV NP+ + L+ Sbjct: 76 IILNIK--NLVVSSENDEPVVMYLRKQGAGEVTGADIVPPAGVEVHNPELHLATLNEKGK 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +ELTV +G GYV A +++ + IG I ID++YSP+ KV+Y VE+ R Q D+DKL Sbjct: 134 LEIELTVERGRGYVSANQNKSFDAEIGRIPIDSIYSPVLKVTYKVEATRVEQRTDFDKLI 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----FNPAL 256 + +++ +I+ D++A A R L + G+ +N E E I + P L Sbjct: 194 VDVESKPAISPRDALASAGRTLVELFGLARELNVE------AEGIEIGPSPTDAALAADL 247 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E+L+L++RS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L +GL Sbjct: 248 ALPIEDLQLTIRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSITEVKEKLAELGLT 307 Query: 317 LGMNLPDWPPES 328 L + D+ P + Sbjct: 308 LKDSPLDFDPSA 319 >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 = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 117/298 (39%), Positives = 186/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT ++I+GV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGITVGNALRRILLSSLEGFAITTIKIEGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDSHK--RVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + + +V+I AGDI + + EVLNP+ VIC+LD + +++++T++ Sbjct: 88 FKQVVEEFESEKVSITIENSSEFKAGDIGKYLTGFEVLNPELVICHLDSKSTMQIDITIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y VE+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKYQVENFRVEQKTDYEKLVLEITTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++IL +F I E + E+ + + L L K+ +++LS Sbjct: 208 IHPKEALKEAAKILIYHFMLFSDEKITLESNDADGNEEFDEEVLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKKSLTELDDLLESLNLSFGTDISKY 325 >gi|269784300|emb|CBH50795.1| alpha subunit of RNA polymerase [Vibrio sp. C 14.7] Length = 261 Score = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 113/261 (43%), Positives = 174/261 (66%), Gaps = 8/261 (3%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVT 115 G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V Sbjct: 3 GCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVV 62 Query: 116 AGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLI 171 AGDI D+E+ NP+HVIC+L D +A + M + V +G GYVPA H + PIG + Sbjct: 63 AGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRL 122 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F Sbjct: 123 LVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAF 182 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 ++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE + Sbjct: 183 VDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVE 239 Query: 292 MLRMANFGRKSLVEIKGVLGT 312 +L+ N G+KSL EIK VL + Sbjct: 240 LLKTPNLGKKSLTEIKDVLAS 260 >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 = 217 bits (552), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 119/298 (39%), Positives = 184/298 (61%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI ++I GV HE +SI GV ED+T+IILN+K + Sbjct: 28 PLESGFGVTIGNALRRILLSSLEGFAINTIKIAGVEHEFASIPGVREDVTNIILNLKQVR 87 Query: 94 LK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V++ AGDI + ++ EVLNP+ VI +LD A + +ELT++ Sbjct: 88 FKHIVEELENEKVSLTISNATEFRAGDIGKHLSGFEVLNPELVIAHLDSKATISIELTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ +R + I ID++Y+PI+ V Y VE R Q DYDKL + + TDGS Sbjct: 148 KGRGYVPAEENRDACVEVTQIPIDSIYTPIRNVKYVVEPFRVEQKTDYDKLVLEVTTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A++IL +F I E+ +E E+ + + L L +K+ ++ LS Sbjct: 208 IQPKDALKEAAKILIYHFMLFSDEKITMEDATQEDNEEFDEEVLHMRQVLKQKLSDMNLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L + L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQFNKNDLLKFRNFGKKSLTELDDLLAGLNLQFGTDISKY 325 >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 = 217 bits (552), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 118/298 (39%), Positives = 183/298 (61%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL+S+L G AIT+V++D V HE S I GV ED+T++ILN+K + Sbjct: 28 PLEPGYGLTVGNALRRVLLSALEGFAITSVRMDKVEHEFSVIPGVVEDVTEMILNLKQVR 87 Query: 94 LKMSGD--SHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + + V+I G +TAGD Q ++ +VLNPD VICN+D + ME+ + Sbjct: 88 FKRQIEDVEAETVSISVSGKNQLTAGDFQKFISGYQVLNPDLVICNMDAKVSINMEIVIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ IG I ID++++PIK V Y++E+ R Q DY+KL I +DGS Sbjct: 148 KGRGYVPAEENKKPGAAIGTIPIDSIFTPIKNVKYSIENYRVEQKTDYEKLVFEISSDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A+++L +F I E + E + +SL L K+ +++LS Sbjct: 208 INPKDALTEAAKVLIHHFMLFSDERITLEADEIAQTETYDEESLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ + D+++ NFG+KSL E++ ++ GL GM+L + Sbjct: 268 VRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKKSLTELEELVINKGLSFGMDLSKY 325 >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 = 217 bits (552), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 120/296 (40%), Positives = 181/296 (61%), Gaps = 19/296 (6%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA+ A+QIDG HE +I + ED+TDI+LN+KG+ Sbjct: 24 EPLERGYGDTLGNSLRRVLLSSLEGAAVEAIQIDGAQHEFMTIPNMVEDVTDIVLNVKGL 83 Query: 93 NLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + G + + TI GPG VT D +D E++NPD I L + M + + Sbjct: 84 VFRSLGTTDEATATISVDGPGEVTGADFFVPSDFELVNPDQHIATLTEGGHLTMSMRIGY 143 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GY+ + ++ +NDPIG+I +D+LYSP+++ + VE+ R GQ DYD+L + I+T+G++ Sbjct: 144 GRGYISYEANKHDNDPIGIIHVDSLYSPVRRCAKLVEATRVGQHTDYDRLVLEIETNGAL 203 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKK----------EVKEDINVKSLPFNPALLKKVE 261 + D+V A+ I+ + F+N E + EV D N L K++E Sbjct: 204 SPRDAVVSAANIINQHMASFMNLAEVPEVEEEVSIFAPEVTSD--------NAELDKQIE 255 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +L+LSVRS NCL+ +I + L++ +E D+L + NFG KS+ E+K L +MGL L Sbjct: 256 DLDLSVRSYNCLKRASIHSVRQLVEFSENDLLNIRNFGVKSIEEVKDKLESMGLGL 311 >gi|161511757|emb|CAP16889.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 263 Score = 217 bits (552), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 113/254 (44%), Positives = 167/254 (65%), Gaps = 2/254 (0%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+ N + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDGVLHE S+I+GV ED+ Sbjct: 9 EKSNYGRFVVEPLERGYGTTLGNSLRRILLSSLPGAALTSVQIDGVLHEFSTIEGVVEDV 68 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ IC + Sbjct: 69 TQIILNLKKVSLKVESDEEKSLEINVMGPANVTAGDIVGDGDVTILNPELPICTVAEGTT 128 Query: 143 VRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 LT KG GY A + R + PIG++ ID++Y+PI++V+Y VE+ R GQ DYDK Sbjct: 129 FHAVLTAEKGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDK 188 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L++ + TDGS+ ++++L+++IL + L +F+N ++ K+ + + + L + Sbjct: 189 LTLDVWTDGSLAASEAISLSAKILTEHLTIFVNLDDQAKDTEIMVEKEETHKEKMLEMTI 248 Query: 261 EELELSVRSTNCLR 274 EEL+LSVRS NCL+ Sbjct: 249 EELDLSVRSYNCLK 262 >gi|300089411|gb|ADJ67857.1| RNA polymerase alpha-subunit [Photobacterium jeanii] Length = 248 Score = 216 bits (551), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 111/248 (44%), Positives = 166/248 (66%), Gaps = 7/248 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 4 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDVLEILLNLKGL 63 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D +A + M + V + Sbjct: 64 AVKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNADISMRIKVER 123 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA +SP+ +++Y VE+AR Q D DKL + + T+ Sbjct: 124 GRGYVPASARIHTEEDERPIGRLLVDATFSPVDRIAYAVEAARVEQRTDLDKLVIDMQTN 183 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V++LEL+VR Sbjct: 184 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVR 240 Query: 269 STNCLRGE 276 S NCL+ E Sbjct: 241 SANCLKAE 248 >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 = 216 bits (551), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 117/298 (39%), Positives = 186/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI ++I+GV HE ++I GV ED+T+IILN+K + Sbjct: 28 PLEPGFGITVGNALRRILLSSLEGYAINTIRIEGVEHEFATIPGVKEDVTNIILNLKQVR 87 Query: 94 LK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNP+ VIC+LD A +++++T++ Sbjct: 88 FKRVVEEFENEKVSITVENSTEFKAGDIGKYLTGFEVLNPELVICHLDSKATMQIDITIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y VE+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPADENREFCTDVNVIPIDSIYTPIRNVKYAVENYRVEQKTDYEKLVLEITTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++IL +F I E E E+ + + L L K+ +++LS Sbjct: 208 IHPKEALKEAAKILIHHFMLFSDEKITLETSDAEGNEEFDEEVLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKKSLTELDDLLESLNLSFGTDISKY 325 >gi|71056810|emb|CAH58960.1| DNA-directed RNA polymerase alpha chain [Enterococcus gallinarum] Length = 230 Score = 216 bits (551), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 106/210 (50%), Positives = 148/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI ++++LA++I+ + L +F+N + K Sbjct: 181 SIEPLEAMSLAAKIMTEHLDIFVNLTDEAK 210 >gi|157493283|gb|ABV58007.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 249 Score = 216 bits (550), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 111/251 (44%), Positives = 170/251 (67%), Gaps = 8/251 (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 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D 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++ + + + + F+P LL+ V++LEL+V Sbjct: 181 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTV 237 Query: 268 RSTNCLRGENI 278 RS NCL+ E I Sbjct: 238 RSANCLKAEAI 248 >gi|71056824|emb|CAH58967.1| DNA-directed RNA polymerase alpha chain [Enterococcus gallinarum] Length = 235 Score = 216 bits (550), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 106/210 (50%), Positives = 148/210 (70%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILNI Sbjct: 6 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQIILNI 65 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM GD K + I GP VTAGDI +D+E+LN D ICN+ A LTV Sbjct: 66 KGLALKMYGDEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICNVSEGASFHARLTV 125 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDG Sbjct: 126 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDG 185 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI ++++LA++I+ + L +F+N + K Sbjct: 186 SIEPLEAMSLAAKIMTEHLDIFVNLTDEAK 215 >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 = 216 bits (550), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 119/293 (40%), Positives = 178/293 (60%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ I EPL GF +T+GN+LRR L+SS+ GAA+T+++I+GV HE +++ GV ED+T+ Sbjct: 16 EFRSKFILEPLEPGFGYTIGNSLRRTLLSSIPGAAVTSIRIEGVEHEFTTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+KG+ + D + + K+GPGVVTA DI +EV NP+ I L+ + Sbjct: 76 IILNLKGLVVSSEHDEPVLMYLRKQGPGVVTAADIAPPAGVEVHNPEMHIATLNSKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 ME+TV +G GYV A ++ IG I ID++YSP+ +V+Y VE+ R Q D+D+L + Sbjct: 136 MEMTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSPVMRVTYKVEATRVEQRTDFDRLILD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 + T +I D+VA A + L + G+ + + + L +E+L Sbjct: 196 VWTKPAIRPRDAVASAGKTLVELFGLARELNVDAEGIDMGPSPTDAALAADLALPIEDLN 255 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+VRS NCL+ E I +G+L+ RTE D+L + NFG KS+ E+K L MGL L Sbjct: 256 LTVRSYNCLKREGIHTVGELVARTEQDLLDIRNFGAKSIEEVKQKLSDMGLAL 308 >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 = 216 bits (550), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 129/320 (40%), Positives = 193/320 (60%), Gaps = 15/320 (4%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 + R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I G ED+ + Sbjct: 16 DTRSRFSIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTIPGAKEDVVE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 ++LN+K L +S + + VT++ K+GPG VTAGDIQ + + V NP+ + L+ Sbjct: 76 LVLNVK--QLCVSSELDEPVTMYLRKQGPGDVTAGDIQPPSGVTVHNPELKLATLNGKGR 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + MEL V +G GYV A ++ IG I +D++YSP+ KVSY VE+ R Q D+DKL Sbjct: 134 LDMELIVERGRGYVSAAQNKQAGAGIGRIPVDSIYSPVVKVSYRVEATRVEQRTDFDKLI 193 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK--- 259 + ++T S ++A A L + G++ + E I+V P + L Sbjct: 194 IDVETKPSTGPRTALASAGSTLVELFGLYRELD----SAAEGIDVGPSPADAQLAADLAL 249 Query: 260 -VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +EELEL+VRS NCL+ E + +G+LI RTEAD+L + NFG+KS+ E+K L +GL L Sbjct: 250 PIEELELTVRSYNCLKREGVDQVGELINRTEADLLDIRNFGQKSIDEVKMKLAGLGLALK 309 Query: 319 MNLPDWPPESIEELAKKYED 338 + + P E A Y+D Sbjct: 310 DSPGTFDP---AEAAAAYDD 326 >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 = 216 bits (550), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 117/298 (39%), Positives = 186/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT ++I+GV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGITVGNALRRILLSSLEGFAITTIKIEGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDSHK--RVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + + +V+I AGDI + + EVLNP+ VIC+LD + +++++T++ Sbjct: 88 FKQVVEEFESEKVSITIENSSEFKAGDIGKYLTGFEVLNPELVICHLDSKSTMQIDITIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y VE+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKYQVENFRVEQKTDYEKLVLEITTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++IL +F I E + E+ + + L L K+ +++LS Sbjct: 208 IHPKEALKEAAKILIYHFMLFSDEKITLESNDVDGNEEFDEEVLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKKSLTELDDLLESLNLSFGTDISKY 325 >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 = 216 bits (550), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 116/271 (42%), Positives = 179/271 (66%), Gaps = 4/271 (1%) Query: 51 LMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSH-KRVTIFK 108 ++SSL GAA++ V+IDGVLHE SSI GV ED+++II+N+K + +K S D+ 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|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 = 216 bits (550), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 117/298 (39%), Positives = 184/298 (61%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI + IDGV HE ++I GV ED+T+IILN+K + Sbjct: 28 PLEPGFGITVGNALRRILLSSLEGYAINTIHIDGVEHEFATIPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNP+ VIC+LD ++M++T++ Sbjct: 88 FKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGFEVLNPELVICHLDSKTTMQMDITIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y VE+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKYAVENYRVEQKTDYEKLVLEITTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++IL +F I E + E+ + + L L K+ +++LS Sbjct: 208 IHPKEALKEAAKILIYHFMLFSDEKITLETSDVDGNEEFDEEVLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKKSLTELDDLLESLNLSFGTDISKY 325 >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 = 216 bits (550), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 124/298 (41%), Positives = 177/298 (59%), Gaps = 12/298 (4%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ GV ED+T+I Sbjct: 17 QRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTTLPGVEEDVTEI 76 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 +LNIKGI L D + + K G G TAGDI + + NPD I L D + + Sbjct: 77 LLNIKGIVLTSEYDEPVVMYLRKNGKGEATAGDITPPAGVTIANPDLHIATLAEDGELEI 136 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 E TV +G GYVPA+ ++ EN IG I +D++YSP+ KVSY VE+ R Q D+DKL + + Sbjct: 137 EFTVERGRGYVPAQMNKQENSEIGRIPVDSIYSPVLKVSYKVEATRVEQRTDFDKLILDV 196 Query: 206 DTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----FNPALLKK 259 +T +IT D+VA A L + G+ +N + E + V P + L Sbjct: 197 ETKPAITPRDAVASAGSTLVELFGLCRELNVD------AEGVEVGPAPTHDEADSQLAIP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E++ + RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L MGL L Sbjct: 251 IEDMNFTQRSYNCLKREGIHTVGELVVHTEQDLLDIRNFGMKSIDEVKEKLQAMGLSL 308 >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 = 216 bits (550), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 117/298 (39%), Positives = 185/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT ++IDGV HE SS+ G ED+T+IILN+K + Sbjct: 28 PLEPGFGITVGNALRRILLSSLEGFAITTIKIDGVEHEFSSVPGAKEDVTNIILNLKQVR 87 Query: 94 LKMSGDSHK--RVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + + +V+I AGDI + + EVLNP+ VIC+LD + +++++T++ Sbjct: 88 FKQVVEEFESEKVSITVENSSEFKAGDIGKYLTGFEVLNPELVICHLDSKSTMQIDITIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y VE+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKYQVENFRVEQKTDYEKLVLEITTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++IL +F I E + E+ + + L L K+ +++LS Sbjct: 208 IHPKEALKEAAKILIYHFMLFSDEKITLETNDVDGNEEFDEEVLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKKSLTELDDLLESLNLSFGTDISKY 325 >gi|190411113|gb|ACE78311.1| RpoA [Vibrio campbellii] Length = 257 Score = 216 bits (550), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 111/260 (42%), Positives = 175/260 (67%), Gaps = 8/260 (3%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRV 104 ALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G + Sbjct: 1 ALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFI 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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++ + + + + F+P LL+ V++LEL+VRS NC + E I Y Sbjct: 181 ATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCRKAEAIHY 237 Query: 281 MGDLIQRTEADMLRMANFGR 300 +GDL+QRTE ++L+ N G+ Sbjct: 238 IGDLVQRTEVELLKTPNLGK 257 >gi|156752147|gb|ABU93824.1| RNA polymerase subunit A [Vibrio sp. 09022] Length = 256 Score = 216 bits (550), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 111/259 (42%), Positives = 174/259 (67%), Gaps = 8/259 (3%) Query: 47 LRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVT 105 LRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T Sbjct: 1 LRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFIT 60 Query: 106 IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+ Sbjct: 181 TILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYI 237 Query: 282 GDLIQRTEADMLRMANFGR 300 GDL+QRTE ++L+ N G+ Sbjct: 238 GDLVQRTEVELLKTPNLGK 256 >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 = 216 bits (550), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 106/210 (50%), Positives = 148/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI ++++LA++I+ + L +F+N + K Sbjct: 181 SIEPLEAMSLAAKIMTEHLDIFVNLTDEAK 210 >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 = 216 bits (550), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 117/298 (39%), Positives = 185/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL+SSL G AIT+V+++ V HE S+I GV ED+T+IILN+K + Sbjct: 28 PLEPGYGLTVGNALRRVLLSSLEGFAITSVKLENVEHEFSTIPGVVEDVTEIILNLKQVR 87 Query: 94 LK--MSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + ++VT+ G + A D+Q ++ +VLNPD VIC+L+ + ME+ + Sbjct: 88 FKRQIEDTEEEKVTVIIGGQEQLKAADLQKFISGFQVLNPDLVICHLEKSVQLNMEIAIE 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ ++ N +G+I ID++++PIK V Y++E+ R Q DY+KL I TDGS Sbjct: 148 KGRGYVPAEENKKANAELGVIAIDSIFTPIKNVKYSIENFRVEQKTDYEKLVFEIITDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A++ L +F I E + E + +SL L K+ +++LS Sbjct: 208 IHPKDALTEAAKTLIHHFLLFSDERITLEADEIAQTETYDEESLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +GDL+ + D+++ NFG+KSL E++ ++ GL GM+L + Sbjct: 268 VRALNCLKAAEVDTLGDLVSYNKNDLMKFRNFGKKSLTELEELVVLKGLSFGMDLAKY 325 >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 = 216 bits (550), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 123/306 (40%), Positives = 181/306 (59%), Gaps = 16/306 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +IAEP G+ HT+GN+LRR+L+S L G+A+TAV++ G +HE S+I V ED+ +I+LN+ Sbjct: 26 IIAEPYESGYGHTVGNSLRRILLSGLDGSAVTAVRVRGAVHEYSTIPNVKEDVINILLNL 85 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + +K+ G + + V + PG VTA DI V+ +E++N D I NL+ + +E+ + Sbjct: 86 KKLRVKLEGKNREYVYLTASKPGKVTAKDIAEVSGVEIINKDLEIANLEQGGKLELEIEI 145 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 S+G GYVPA+ P G I +DA++SPI KV Y VE AR GQ DYD+L + I TDG Sbjct: 146 SQGKGYVPAEDLSKIQRPAGFIPVDAIFSPILKVHYDVEPARVGQKTDYDRLVIQITTDG 205 Query: 210 SITGEDSVALASRILQDQLGMF------INFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 ++ ++ A+ +L L +F +N P+ E S+ A+ KVEEL Sbjct: 206 TLEPAKALHKAAVLLSQSLHIFTIEGEEVNAAAPETEPLS--TTGSVSGVSAVNSKVEEL 263 Query: 264 --------ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 ELS RS NCL+ E + + DL+ +TE D+ + NFG +SL E+K L M L Sbjct: 264 LNQSVEFIELSSRSINCLKSEGVNTVKDLVSKTEDDLKMIKNFGTRSLDEVKERLAEMNL 323 Query: 316 FLGMNL 321 LGM Sbjct: 324 SLGMKF 329 >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 = 216 bits (549), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 121/297 (40%), Positives = 184/297 (61%), Gaps = 12/297 (4%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 R+ I EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVLHE S++ GV ED+T+ I Sbjct: 18 RSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVLHEFSTVPGVKEDVTEFI 77 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+K + + D + K+GPG VTA DI +EV NPD I +L+ + + +E Sbjct: 78 LNLKSLVVSSEFDEPVVAYLRKQGPGEVTAADISAPGGVEVHNPDLHIASLNDEGQLDIE 137 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LT+ +G GYV A ++ + IG I +D++YSP+ KV+Y VE+ R Q D+D+L + ++ Sbjct: 138 LTIERGRGYVSAAQNKNADAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDRLIIDVE 197 Query: 207 TDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPF----NPALLKKV 260 T SI D+VA A + L + G+ +N E E I++ P L + Sbjct: 198 TKPSILPRDAVASAGKTLVELFGLARELNVE------AEGIDIGPSPVDAALAADLALAI 251 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 E+L+L+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L + L L Sbjct: 252 EDLDLTVRSYNCLKREGIHTVGELVARSEADLMDIRNFGSKSIDEVKQKLNELNLSL 308 >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 = 216 bits (549), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 125/308 (40%), Positives = 185/308 (60%), Gaps = 12/308 (3%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV HE S+I+G ED+T+ Sbjct: 16 EFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQHEFSTIEGCVEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+KG+ L D + + K G G VTA DI + + NP+ I L+ D Sbjct: 76 IILNLKGLVLSSEEDEPVAMYLRKSGAGEVTAADINPPAGVTIHNPELHIATLNDDGRFE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ R Q D+DKL + Sbjct: 136 MELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEATRVEQRTDFDKLVVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----FNPALLK 258 ++T SI D++A A + L + G+ +N E E I + S P + +L Sbjct: 196 VETKPSILPRDAIASAGKTLVELFGLTRELNAE------AEGIEIGSGPVDEEYAESLGT 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L +GL L Sbjct: 250 PVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEKLTELGLALK 309 Query: 319 MNLPDWPP 326 + P + P Sbjct: 310 DSAPGFDP 317 >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 = 216 bits (549), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 125/306 (40%), Positives = 187/306 (61%), Gaps = 11/306 (3%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-----DGVLHEISS---- 74 E N IA P RGF T+GN LRRVL+SS++G A+TAV+ DGV H ISS Sbjct: 24 EPNYGKFIAYPFERGFGTTIGNTLRRVLLSSIQGYAVTAVKFTSFNEDGVPHLISSEYEQ 83 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 + GV ED+ DII +K + ++M DS + I +GPG+VT + + + +E+ N D V Sbjct: 84 LPGVREDIADIIAALKKLQIRMPEDSEGTNLLIECKGPGIVTGANFER-DQVEITNKDLV 142 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 + + DA + ME+ + G GYVP++ + + IG I IDA +SP+ +V Y++E R G Sbjct: 143 LFTMMDDANIEMEVQIDLGRGYVPSEINEKYVEEIGTIPIDATFSPVTRVKYSIEPTRVG 202 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 DYDKL++ I TDG+I ++++A A++I ++ +FINF+E ++++ + Sbjct: 203 YRSDYDKLTLEIYTDGTIAPQNALAEAAKIAKEYFQIFINFDETLISNNDEVDEEEERVR 262 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 L VEELEL+VRS+NCL+ NI +GDL ++TE ++ + NFG+KSL EIK L Sbjct: 263 KILNTSVEELELTVRSSNCLKNANIRTIGDLTKKTEEEIAKTRNFGKKSLQEIKEKLKEW 322 Query: 314 GLFLGM 319 L LGM Sbjct: 323 NLSLGM 328 >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 = 216 bits (549), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 125/314 (39%), Positives = 193/314 (61%), Gaps = 16/314 (5%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S++ GV ED+T Sbjct: 15 DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFSTVPGVTEDVT 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRG--PGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +IILN+K NL +S ++ + V ++ R GVVT +I+ +EV NPD + L+ Sbjct: 75 EIILNLK--NLVVSSENDEPVVMYLRADTAGVVTGANIEPPAGVEVHNPDLHVATLNDKG 132 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + +EL V +G GYV A ++T ++ IG + ID++YSP+ KV+Y VE+ R Q D+D+L Sbjct: 133 RLEIELVVERGRGYVSAVQNKTGDEEIGRMPIDSIYSPVLKVTYKVEATRVEQRTDFDRL 192 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKK 259 + ++T SI D++A A L + G+ +N E E I++ P + L Sbjct: 193 VVDVETKKSILPRDAIASAGSTLVELFGLARELNVE------AEGIDIGPSPVDEQLAAD 246 Query: 260 ----VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 +E+L +VRS NCL+ E I +G+LI R+E D+L + NFG KS+ E+K L MGL Sbjct: 247 LALPIEDLNFTVRSYNCLKREGIHTVGELITRSEQDLLDIRNFGSKSIDEVKAKLAEMGL 306 Query: 316 FLGMNLPDWPPESI 329 L + + P ++ Sbjct: 307 ALKDSPAGFDPSAV 320 >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 = 216 bits (549), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 119/298 (39%), Positives = 189/298 (63%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRR+L+SSL G AIT+++I+G+ HE S+I GV +D+T+IILN+K + Sbjct: 28 PLEPGYGITIGNALRRILLSSLEGFAITSIKIEGIDHEYSTIPGVIDDVTNIILNLKQVR 87 Query: 94 LK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++VTI G AGDI + EVLNP VIC LD A ++++TV+ Sbjct: 88 FKQIVEDIENEKVTINVSGTTSFKAGDIGKYFTGFEVLNPKLVICELDPSASFQIDITVN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GY P++ ++ N IGLI IDA+++PI+ V Y++E+ R QV DY+KL + I TDGS Sbjct: 148 KGRGYAPSEENKPANAEIGLIPIDAIFTPIRNVKYSIENYRVEQVTDYEKLVLEISTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ +++IL +F I+ E + E ++ + + L L K+ +LELS Sbjct: 208 IHPKEALKESAKILIHHFMLFSDEKISLEVTEGEGSDEFDEEILHMRQLLKTKLTDLELS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +G L + D+L+ NFG+KSL E++ L ++ L GM++ + Sbjct: 268 VRALNCLKAADVDTLGQLAGYHKHDLLKFRNFGKKSLTELEEKLESLNLSFGMDIAKY 325 >gi|313808805|gb|EFS47259.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL087PA2] Length = 338 Score = 216 bits (549), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 125/308 (40%), Positives = 185/308 (60%), Gaps = 12/308 (3%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV HE S+I+G ED+T+ Sbjct: 16 EFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQHEFSTIEGCVEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+KG+ L D + + K G G VTA DI + + NP+ I L+ D Sbjct: 76 IILNLKGLVLSSEEDEPVAMYLRKSGAGEVTAADITPPAGVTIHNPELHIATLNDDGRFE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ R Q D+DKL + Sbjct: 136 MELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEATRVEQRTDFDKLVVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----FNPALLK 258 ++T SI D++A A + L + G+ +N E E I + S P + +L Sbjct: 196 VETKPSILPRDAIASAGKTLVELFGLTRELNAE------AEGIEIGSGPVDEEYAESLGT 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L +GL L Sbjct: 250 PVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEKLTELGLALK 309 Query: 319 MNLPDWPP 326 + P + P Sbjct: 310 DSAPGFDP 317 >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 = 216 bits (549), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 112/277 (40%), Positives = 182/277 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF T+GNALRR+L+SSL G A+ A++IDGVLHE S++ GV ED+T+IIL++ Sbjct: 23 FVVEPLERGFGITVGNALRRILLSSLPGVAVYAIRIDGVLHEFSTVPGVKEDVTEIILSL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K ++ + + K + I GP V DI ++ +++ D I LD A + ME+ V Sbjct: 83 KELSATIDDEEPKVLRIQAIGPCEVKGSDIICPPEVNIVSKDLHIATLDEGAKLNMEIYV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GY+ A+ ++ E+ PIG++ +D++Y+P++KVSY VE+ R GQ D+DKL++ + T+G Sbjct: 143 NKGRGYISAEENKKESMPIGVLPVDSIYTPVEKVSYHVENTRVGQRSDFDKLTLEVLTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI ++ ++LA+++L + L +FI+ E V+ + + L +EEL+LSVRS Sbjct: 203 SINPQEGISLAAKVLDEHLKLFIDLTEHVGNVEIMVEKEEDKKEKVLEMTIEELDLSVRS 262 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 NCL+ I + +L ++E DM+++ N G+KSL E+ Sbjct: 263 YNCLKRAGINTVEELSNKSEDDMMKVRNLGKKSLEEV 299 >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 = 216 bits (549), Expect = 6e-54, Method: Compositional matrix adjust. Identities = 117/298 (39%), Positives = 185/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI ++I+GV HE +S+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGITVGNALRRILLSSLEGFAINTIKIEGVEHEFASVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNP+ VIC+LD A ++M++T++ Sbjct: 88 FKQVVEEFENEKVSITVENSSEFKAGDISKYLTGFEVLNPELVICHLDSKATMQMDITIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y VE+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKYQVENFRVEQKTDYEKLVLEITTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++IL +F I E + E+ + + L L K+ +++LS Sbjct: 208 IHPKEALKEAAKILIYHFMLFSDEKITLETSDVDGNEEFDEEVLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L + L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKKSLTELDDLLEGLNLSFGTDISKY 325 >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 = 215 bits (548), Expect = 6e-54, Method: Compositional matrix adjust. Identities = 116/298 (38%), Positives = 183/298 (61%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI ++I GV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGVTIGNALRRILLSSLEGYAINTIKIAGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNPD VIC+LD A ++++L ++ Sbjct: 88 FKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGFEVLNPDLVICHLDTKASMQIDLNIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ +R + ++ ID++Y+PI+ V Y VE R Q DYDKL + + TDGS Sbjct: 148 KGRGYVPAEENREFCTDVNVLPIDSIYTPIRNVKYAVEPYRVEQKTDYDKLVIEVTTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I +D++ A++ L +F I E P ++ ++ + + L L ++ ++ LS Sbjct: 208 IHPKDALKEAAKTLIYHFMLFSDEKITLENPDQDNNQEFDEEVLHMRQLLKTRLVDMNLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L + L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKKSLSELDDLLEGLNLSFGTDISKY 325 >gi|161511769|emb|CAP16895.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 262 Score = 215 bits (548), Expect = 6e-54, Method: Compositional matrix adjust. Identities = 116/254 (45%), Positives = 164/254 (64%), Gaps = 2/254 (0%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E +N + EPL RG+ TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+GV ED+ Sbjct: 8 ENDNYGRFVIEPLERGYGTTLGNSLRRILLSSLPGAAITSVQIDSVLHEFSTIEGVVEDV 67 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ IC + Sbjct: 68 TQIILNLKKVSLKIESDEDKTLEINVAGPANVTAGDIMGDGDVVILNPELPICTVAEGTT 127 Query: 143 VRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 LT G GY A + R + PIG++ ID++Y+PI++V+Y VE+ R GQ DYDK Sbjct: 128 FHAVLTADTGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDK 187 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L++ I TDGSIT ++ +L+++IL + L +F+N + KE + + + L + Sbjct: 188 LTLDIWTDGSITPSEATSLSAKILTEHLAIFVNLNDQAKETEIMVEKEETHKEKMLEMTI 247 Query: 261 EELELSVRSTNCLR 274 EEL+LSVRS NCL+ Sbjct: 248 EELDLSVRSYNCLK 261 >gi|327332743|gb|EGE74477.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL097PA1] Length = 338 Score = 215 bits (548), Expect = 6e-54, Method: Compositional matrix adjust. Identities = 125/308 (40%), Positives = 185/308 (60%), Gaps = 12/308 (3%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV HE S+I+G ED+T+ Sbjct: 16 EFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQHEFSTIEGCVEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+KG+ L D + + K G G VTA DI + + NP+ I L+ D Sbjct: 76 IILNLKGLVLSSEEDEPVAMYLRKTGAGEVTAADINPPAGVTIHNPELHIATLNDDGRFE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ R Q D+DKL + Sbjct: 136 MELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEATRVEQRTDFDKLVVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----FNPALLK 258 ++T SI D++A A + L + G+ +N E E I + S P + +L Sbjct: 196 VETKPSILPRDAIASAGKTLVELFGLTRELNAE------AEGIEIGSGPVDEEYAESLGT 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L +GL L Sbjct: 250 PVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEKLTELGLALK 309 Query: 319 MNLPDWPP 326 + P + P Sbjct: 310 DSAPGFDP 317 >gi|328813943|gb|AEB52087.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 250 Score = 215 bits (548), Expect = 7e-54, Method: Compositional matrix adjust. Identities = 112/249 (44%), Positives = 167/249 (67%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+T IILNIK + LKM+ D Sbjct: 2 TLGNSLRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKMNTDED 61 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + I GP VTA DI D+EVLNP+ IC + + +TV KG GYV A + Sbjct: 62 KNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTVKKGRGYVAADQN 121 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 ++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA+ Sbjct: 122 KSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLAA 181 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYM 281 +IL + L +F+N + K + + + L +EEL+LSVRS NCL+ I + Sbjct: 182 KILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEELDLSVRSYNCLKRAGINTV 241 Query: 282 GDLIQRTEA 290 +L +TEA Sbjct: 242 QELTNKTEA 250 >gi|313292080|gb|ADR51229.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 241 Score = 215 bits (548), Expect = 7e-54, Method: Compositional matrix adjust. Identities = 107/217 (49%), Positives = 151/217 (69%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ Sbjct: 7 EEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDV 66 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILNIKG+ LKM G K + I GP VTAGDI +D+E+LN D IC++ A Sbjct: 67 TQIILNIKGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGAT 126 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+ Sbjct: 127 FHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLT 186 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 M I TDGSI ++++L+++I+ + L +F+N + K Sbjct: 187 MEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAK 223 >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 = 215 bits (548), Expect = 7e-54, Method: Compositional matrix adjust. Identities = 124/308 (40%), Positives = 185/308 (60%), Gaps = 12/308 (3%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV HE S+I+G ED+T+ Sbjct: 16 EFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQHEFSTIEGCVEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+KG+ L D + + K G G +TA DI + + NP+ I L+ D Sbjct: 76 IILNLKGLVLSSEEDEPVAMYLRKTGAGEITAADINPPAGVTIHNPELHIATLNDDGRFE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ R Q D+DKL + Sbjct: 136 MELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEATRVEQRTDFDKLVVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----FNPALLK 258 ++T SI D++A A + L + G+ +N E E I + S P + +L Sbjct: 196 VETKPSILPRDAIASAGKTLVELFGLTRELNVE------AEGIEIGSGPVDEEYAESLGT 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L +GL L Sbjct: 250 PVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEKLTELGLALK 309 Query: 319 MNLPDWPP 326 + P + P Sbjct: 310 DSAPGFDP 317 >gi|161511761|emb|CAP16891.1| DNA-directed RNA polymerase subunit alpha [Pediococcus ethanolidurans] Length = 251 Score = 215 bits (548), Expect = 7e-54, Method: Compositional matrix adjust. Identities = 109/245 (44%), Positives = 161/245 (65%), Gaps = 2/245 (0%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+ Sbjct: 7 ENANYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDV 66 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILNIK ++LK+ D K + I +GP VTAGDIQ +D+E+LNPD IC + Sbjct: 67 TQIILNIKKVSLKIESDDEKSLEINVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVT 126 Query: 143 VRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 LT G GYV A ++ D PIG++ ID++Y+PI++V+Y VE+ R GQ DYDK Sbjct: 127 FHAVLTADTGRGYVSADENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDK 186 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L++ + TDGSI+ ++ +L+++IL + L +F+N + ++ + + + L + Sbjct: 187 LTLDVWTDGSISPSEATSLSAKILTEHLALFVNLTDEAQDAEIMVEKEETHKEKMLEMSI 246 Query: 261 EELEL 265 EEL+L Sbjct: 247 EELDL 251 >gi|315109197|gb|EFT81173.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL030PA2] Length = 338 Score = 215 bits (547), Expect = 8e-54, Method: Compositional matrix adjust. Identities = 124/308 (40%), Positives = 185/308 (60%), Gaps = 12/308 (3%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV HE S+I+G ED+T+ Sbjct: 16 EFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQHEFSTIEGCVEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+KG+ L D + + K G G +TA DI + + NP+ I L+ D Sbjct: 76 IILNLKGLVLSSEEDEPVAMYLRKTGAGEITAADINPPAGVTIHNPELHIATLNDDGRFE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ R Q D+DKL + Sbjct: 136 MELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEATRVEQRTDFDKLVVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----FNPALLK 258 ++T SI D++A A + L + G+ +N E E I + S P + +L Sbjct: 196 VETKPSILPRDAIASAGKTLVELFGLTRELNVE------AEGIEIGSGPVDEEYAESLGT 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L +GL L Sbjct: 250 PVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEKLTELGLALK 309 Query: 319 MNLPDWPP 326 + P + P Sbjct: 310 DSAPGFDP 317 >gi|295809868|emb|CBL85110.1| alpha subunit of RNA polymerase [Vibrio tapetis] Length = 263 Score = 215 bits (547), Expect = 8e-54, Method: Compositional matrix adjust. Identities = 113/261 (43%), Positives = 173/261 (66%), Gaps = 8/261 (3%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVT 115 G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +K++ G +T+ K G G V Sbjct: 3 GCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVKVAEGKDEVFITLNKSGSGPVV 62 Query: 116 AGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLI 171 AGDI D+E+ NP+HVIC+L D +A + M + V +G GYVPA H + PIG + Sbjct: 63 AGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASSRIHTEEDERPIGRL 122 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ ++ IL +QL F Sbjct: 123 LVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRSATILAEQLDAF 182 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 ++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE + Sbjct: 183 VDLRDIRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVE 239 Query: 292 MLRMANFGRKSLVEIKGVLGT 312 +L+ N G KSL EIK VL + Sbjct: 240 LLKTPNLGNKSLTEIKDVLAS 260 >gi|328813979|gb|AEB52105.1| DNA-directed RNA polymerase alpha chain [Lactobacillus helveticus] Length = 263 Score = 215 bits (547), Expect = 9e-54, Method: Compositional matrix adjust. Identities = 114/264 (43%), Positives = 167/264 (63%), Gaps = 4/264 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDGVLH Sbjct: 3 KPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLH 58 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++VLNP Sbjct: 59 EFSTVPGVREDVTKIILNLKKLELKSLSDERKVIELDVEGPATVTADDLKVDADVQVLNP 118 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D IC + + ME+ V G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES Sbjct: 119 DQYICTIAEGGHLHMEIAVQNGRGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQVEST 178 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R G+ D+DKL+ I TDGSI D+++ A++IL + +F + + K + + + Sbjct: 179 RVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEHFKVFESADADTKFSEVMVEKEDD 238 Query: 251 PFNPALLKKVEELELSVRSTNCLR 274 L +EEL+LSVRS NCL+ Sbjct: 239 KKEKKLEMTIEELDLSVRSYNCLK 262 >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 = 215 bits (547), Expect = 9e-54, Method: Compositional matrix adjust. Identities = 112/293 (38%), Positives = 183/293 (62%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E +N + EPL RGF TLGN+LRRVL+SSL G+A+ A+++ G +HE S++ GV ED+ Sbjct: 16 ETDNYGKFVIEPLERGFGTTLGNSLRRVLLSSLPGSAVYAIKVQGAIHEFSAVDGVVEDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILN+K + + D + I GP VT DIQ +++ +++ D VI ++ A Sbjct: 76 TSIILNLKKLVFDVDSDESATMIIDVEGPATVTGADIQCPSEVTMISNDLVIAHVAQGAH 135 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + MEL K GY+ A ++ + + IG+I D+++SP+++VSY VE R G+ YD+L+ Sbjct: 136 LYMELYAKKDRGYISADQNKKDINTIGIIPTDSIFSPVERVSYAVEPTRVGESAKYDQLT 195 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + I+T+G++ ++++LA++IL + L MF+ + ++ ++ N L +EE Sbjct: 196 LEIETNGALKPYEAISLAAKILVEHLNMFVELTDMAVNMEVMSEAQNDTSNKVLDMTIEE 255 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 L+LSVRS NCL+ I + DL ++E DM+++ N G+KSL E+K L +GL Sbjct: 256 LDLSVRSYNCLKRAGIQTVQDLAAKSEDDMIKVRNLGKKSLKEVKEKLVELGL 308 >gi|295809862|emb|CBL85107.1| alpha subunit of RNA polymerase [Vibrio tapetis] Length = 260 Score = 215 bits (547), Expect = 9e-54, Method: Compositional matrix adjust. Identities = 113/261 (43%), Positives = 173/261 (66%), Gaps = 8/261 (3%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVT 115 G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +K++ G +T+ K G G V Sbjct: 3 GCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVKVAEGKDEVFITLNKSGSGPVV 62 Query: 116 AGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLI 171 AGDI D+E+ NP+HVIC+L D +A + M + V +G GYVPA H + PIG + Sbjct: 63 AGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASSRIHTEEDERPIGRL 122 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ ++ IL +QL F Sbjct: 123 LVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRSATILAEQLDAF 182 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 ++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE + Sbjct: 183 VDLRDIRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVE 239 Query: 292 MLRMANFGRKSLVEIKGVLGT 312 +L+ N G KSL EIK VL + Sbjct: 240 LLKTPNLGNKSLTEIKDVLAS 260 >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 = 215 bits (547), Expect = 9e-54, Method: Compositional matrix adjust. Identities = 116/298 (38%), Positives = 185/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI + I+GV HE +++ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGITVGNALRRILLSSLEGYAINTIHIEGVEHEFATVPGVKEDVTNIILNLKQVR 87 Query: 94 LK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNP+ VIC+LD A ++++LT++ Sbjct: 88 FKQIVEEFENEKVSITVENSTEFKAGDIGKYLTGFEVLNPELVICHLDSKATMQIDLTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y VE+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKYAVENYRVEQKTDYEKLVLEITTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++IL +F I E + E+ + + L L K+ +++LS Sbjct: 208 IHPKEALKEAAKILIYHFMLFSDEKITLETSDADGNEEFDEEVLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKKSLTELDDLLESLNLSFGTDISKY 325 >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 = 214 bits (546), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 124/295 (42%), Positives = 180/295 (61%), Gaps = 4/295 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR+ I EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGV HE S++ GV ED+ + Sbjct: 26 DNRSRFILEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVQHEFSTVPGVKEDVAE 85 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILNIK I L D + + K G GVVTAGDI +E+ NP+ + L V Sbjct: 86 IILNIKNIVLSSENDEPVVMYLRKTGAGVVTAGDITPPAGVEIHNPELELATLSEKGKVE 145 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELTV +G GYV A ++ N I I ID++YSP+ KV+Y VE+ R Q D+D+L + Sbjct: 146 IELTVERGRGYVSAMQNKDPNAEISRIPIDSIYSPVLKVTYKVEATRVEQRTDFDRLIVD 205 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 ++T +IT D++A A + L + G+ +N E E+ ++L + AL +E Sbjct: 206 VETKPAITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSATDETLAADLAL--PIEN 263 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L L RS N LR I+ +G+L+ +EAD+L + NFG KS+ EIK L +G+ L Sbjct: 264 LGLQSRSYNALRRRGILSVGELVAHSEADLLDIRNFGLKSIEEIKEKLAGLGMTL 318 >gi|328813975|gb|AEB52103.1| DNA-directed RNA polymerase alpha chain [Lactobacillus fermentum] Length = 248 Score = 214 bits (546), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 111/246 (45%), Positives = 167/246 (67%), Gaps = 2/246 (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 KGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 KG GY A ++T 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 STNCLR 274 S NCL+ Sbjct: 241 SYNCLK 246 >gi|71056870|emb|CAH58990.1| DNA-directed RNA polymerase alpha chain [Enterococcus malodoratus] Length = 231 Score = 214 bits (546), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI +++++LA++IL + L +F+N + K Sbjct: 181 SIIAQEALSLAAKILTEHLDIFVNLTDEAK 210 >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 = 214 bits (546), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 116/286 (40%), Positives = 183/286 (63%), Gaps = 6/286 (2%) 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 DMELTVERHRGYLPAENR--DPVPIGEIPVDAIFTPVHKVNYVVEHTRIGGMTDFDRLLL 193 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE--DINVKSLPFNPALLKKVE 261 I TDG++ D+++ A+++L + +F E ++ D N +P + +E Sbjct: 194 EIWTDGTVKPGDALSYAAQVLVQYSSIIADFNRFDDEQEQVGDANGLVIP-SEIYDMPIE 252 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 +L+LS R+ NCL+ +I +G +++ E +L + N G+KS+ EI+ Sbjct: 253 DLDLSTRTYNCLKRADITKVGQVLEMDEKQLLAVRNLGQKSMDEIR 298 >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 = 214 bits (546), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 119/299 (39%), Positives = 180/299 (60%), Gaps = 12/299 (4%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E +N + EPL RGF TLGN+LRRVL+SS+ G A+ AV++ G +HE S++ GV ED+ Sbjct: 16 ESDNYGKFVIEPLERGFGTTLGNSLRRVLLSSIPGCAVHAVKVQGAIHEFSAVDGVVEDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILNIK + + GD + I +GP VVT DIQ +++ +++ D I ++ A Sbjct: 76 TSIILNIKKLVFSIDGDDDVTMIIDVKGPAVVTGADIQCPSNVTMISNDLEIAHVAEGAH 135 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 ME+ + GY+ A ++ + IG+I D++YSP+ KV+Y E R GQ YD+L+ Sbjct: 136 FYMEMYAHRDRGYMSADQNKKLINTIGVIATDSIYSPVVKVAYATEPTRVGQSAKYDQLT 195 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFE------EPKKEVKEDINVKSLPFNPAL 256 + I TDGS+ +++ALA++IL + L MF+ E E +ED + N L Sbjct: 196 LEITTDGSVQPHEALALAAKILVEHLNMFVELTDMAMNMEVMSETEEDTS------NKVL 249 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 +EEL+LSVRS NCL+ I + +L ++E DM+++ N G+KSL E+K L +GL Sbjct: 250 DMTIEELDLSVRSYNCLKRAGIQTVQELAAKSEDDMIKVRNLGKKSLKEVKEKLVELGL 308 >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 = 214 bits (546), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 125/306 (40%), Positives = 188/306 (61%), Gaps = 11/306 (3%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 EY+ E EN I PL RGF T+GNALRRVL+SSL GAA+ ++++D V HE +SI Sbjct: 13 EYV----ESENYGRFILTPLERGFGTTIGNALRRVLLSSLPGAAVFSIKVDQVYHEFTSI 68 Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 GV ED++ IILN+K + +K+ D + I +GPG V A D+ +E++N D VI Sbjct: 69 PGVREDVSMIILNLKQLVMKIEDDEEYTLQISAKGPGTVKAADLIVPAQVEIVNKDLVIA 128 Query: 136 NLDVDAVVRMELTVSKGHGYVPA---KHHRTE-NDPIGLITIDALYSPIKKVSYTVESAR 191 NL+V A + ME+ V G GYV A K R+ + IG + D++Y+P+ KV+Y VE R Sbjct: 129 NLEVGASLEMEIKVQNGRGYVSADINKQLRSGVSQGIGTVYTDSIYTPVTKVAYHVEPTR 188 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 G+ + YD+L+M + TDGSI + +++LA++IL D L + + + + + + +S Sbjct: 189 VGENVKYDELTMEVTTDGSINPQKALSLAAKILVDHLEIVAGIND-EVMISDSVIKQSTA 247 Query: 252 FNPALLKK--VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 P + +E+L+LSVRS NCL+ I + +L Q+TE +M+R+ N G+KSL E+K Sbjct: 248 EKPNKGHQMMIEDLDLSVRSYNCLKRAGIQTVDELTQKTEDEMMRVRNLGKKSLKEVKDK 307 Query: 310 LGTMGL 315 L MG Sbjct: 308 LIEMGF 313 >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 = 214 bits (546), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 114/272 (41%), Positives = 180/272 (66%), Gaps = 4/272 (1%) Query: 51 LMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIF--K 108 ++SSL G+AI+ V+IDGVLHE SSI GV ED+T+II+N+K + +K + +S + T + Sbjct: 1 MLSSLPGSAISQVKIDGVLHEFSSIPGVKEDVTEIIMNLKSLAIKNTSESDEPKTAYIEF 60 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMELTVSKGHGYVPAKHHRTEND 166 G GVVTA DIQ DIE++NP+ VI L+ D+ + 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 RTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RT DM+++ N GRKSL E+ L +GL L Sbjct: 241 RTPEDMMKVRNLGRKSLEEVLAKLDELGLSLS 272 >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 = 214 bits (546), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 127/298 (42%), Positives = 180/298 (60%), Gaps = 6/298 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL GF T+GNA+RRVL+SSL G AI+AV I G+ HE S I GV ED D+ LN+ Sbjct: 32 FIVEPLRVGFGLTIGNAMRRVLLSSLSGFAISAVGIKGLTHEFSCIPGVREDFADLALNL 91 Query: 90 KGINLK-MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 K + LK +SG + + + G V + I +D EV+N D +ICN+ + ME+ Sbjct: 92 KKVVLKSISGATCGNLHLSVTDGGAVFSNMISPSHDFEVVNGDLLICNVAEGVSLEMEMK 151 Query: 149 VSKGHGYVPAKHHRT-ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 VS G GYV + R E D G + IDA+Y+P++ V++TV+ G +DKL + ++T Sbjct: 152 VSSGFGYVSSVSVRKDEYDLEGAVPIDAIYNPVRAVNFTVKPTSAGSFAGHDKLILYVET 211 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE-DINVKSLPFNPA---LLKKVEEL 263 +G++ + +V AS+IL Q F+N +P+ V V + N A L +++ L Sbjct: 212 NGAMDPKTAVLEASKILSTQARCFLNIADPEHRVHGVPCGVSTSDRNDASDLLSARIDRL 271 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 LS R+ CL GENIVY+ DL+ RTEAD+L+ NFGR+SL E+K L + GL LGMNL Sbjct: 272 YLSARARKCLNGENIVYIRDLVSRTEADLLKAPNFGRRSLEEVKKELFSKGLSLGMNL 329 >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 = 214 bits (546), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 116/298 (38%), Positives = 185/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI + I+GV HE +++ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGITVGNALRRILLSSLEGYAINTIHIEGVEHEFATVPGVKEDVTNIILNLKQVR 87 Query: 94 LK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNP+ VIC+LD A ++++LT++ Sbjct: 88 FKQIVEEFENEKVSITVENSTEFKAGDIGKYLTGFEVLNPELVICHLDSKATMQIDLTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y VE+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPADENREFCTDVNVIPIDSIYTPIRNVKYAVENYRVEQKTDYEKLVLEITTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++IL +F I E + E+ + + L L K+ +++LS Sbjct: 208 IHPKEALKEAAKILIYHFMLFSDEKITLETSDADGNEEFDEEVLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKKSLTELDDLLESLNLSFGTDISKY 325 >gi|328813957|gb|AEB52094.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 255 Score = 214 bits (546), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 111/247 (44%), Positives = 164/247 (66%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E N + EPL RG+ TLGN+LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+ Sbjct: 8 ESTNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDV 67 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILNIK + LKM+ D K + I GP VTA DI D+EVLNP+ IC + Sbjct: 68 TQIILNIKKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGH 127 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +TV KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL+ Sbjct: 128 FHVRMTVKKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLT 187 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + + T+GSI+ ++++LA++IL + L +F+N + K + + + L +EE Sbjct: 188 LDVWTNGSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEE 247 Query: 263 LELSVRS 269 L+LSVRS Sbjct: 248 LDLSVRS 254 >gi|311990454|gb|ADQ26357.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 260 Score = 214 bits (546), Expect = 1e-53, Method: Compositional matrix adjust. 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|71056882|emb|CAH58997.1| DNA-directed RNA polymerase alpha chain [Enterococcus malodoratus] Length = 227 Score = 214 bits (545), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNI Sbjct: 2 FVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILNI 61 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + A LTV Sbjct: 62 KGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVSEGATFHARLTV 121 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TDG Sbjct: 122 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTDG 181 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI +++++LA++IL + L +F+N + K Sbjct: 182 SIIAQEALSLAAKILTEHLDIFVNLTDEAK 211 >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 = 214 bits (545), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 132/333 (39%), Positives = 195/333 (58%), Gaps = 27/333 (8%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P EY V + +R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+IDGVLH Sbjct: 6 RPRLTEYPV----DNSRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVKIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR--GPGVVTAGDIQTVNDIEVL 128 E ++I GV ED++DI+LNIKG L +S DS + V ++ R G G VTAG I+ +E+ Sbjct: 62 EFTTITGVKEDVSDILLNIKG--LAISSDSDEPVVMYLRAEGAGEVTAGTIEPPAGVEIH 119 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYSPIKKVSY 185 NPD I L+ + +E+ V +G GYVP + IG I +D +YSP+ KVSY Sbjct: 120 NPDLHIATLNDQGRLEIEMVVERGRGYVPVSSSTTTNSGTTEIGRIQVDQIYSPVLKVSY 179 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------P 237 VE+ R Q D+DKL++ ++T SI+ ++ A A + L + G+ +N P Sbjct: 180 NVEATRVEQRTDFDKLTIDVETKNSISPRNAFASAGKTLVELFGLARELNVSAEGIEVGP 239 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + E I +P +EEL SVRS NCL+ + I +G+L + TE+D+L + N Sbjct: 240 SPQETEHIAAYGMP--------IEELRFSVRSYNCLKRQEIHTVGELAECTESDLLDIRN 291 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 FG+KS+ E+K L +GL L D+ P +E Sbjct: 292 FGQKSINEVKIKLAGLGLTLKDAPEDFDPTQLE 324 >gi|313292084|gb|ADR51231.1| DNA-directed RNA polymerase alpha chain [Enterococcus malodoratus] Length = 241 Score = 214 bits (545), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 105/217 (48%), Positives = 150/217 (69%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+ + + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ Sbjct: 7 EDRDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDV 66 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILNIKG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + A Sbjct: 67 VQIILNIKGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVSEGAT 126 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 LTV G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+ Sbjct: 127 FHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLT 186 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 M I TDGSI +++++LA++IL + L +F+N + K Sbjct: 187 MEIWTDGSIIAQEALSLAAKILTEHLDIFVNLTDEAK 223 >gi|311990462|gb|ADQ26361.1| RNA polymerase alpha subunit [Lactobacillus plantarum] Length = 252 Score = 214 bits (545), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 114/234 (48%), Positives = 160/234 (68%), Gaps = 6/234 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I I E +N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EFEKPN-IHKI---DENDNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAK--HHRTENDPIGLITIDALYSPIKKVSY 185 LNPD IC + A M +T + G GYV A+ HR ++ PIG++ +D+LYSPI++V+Y Sbjct: 119 LNPDLPICTVADGAHFHMRMTANTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 VE+ R GQ D+DKL++ + T+GSIT ++++L+++IL D L +F+N + K Sbjct: 179 QVENTRVGQRDDFDKLTLDVWTNGSITPSEAISLSAKILTDHLSIFVNLTDEAK 232 >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 = 214 bits (545), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 116/298 (38%), Positives = 185/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT ++I+GV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGITVGNALRRILLSSLEGFAITTIKIEGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDSHK--RVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + + +V+I AGDI + + EVLNP+ VIC+LD + +++++ ++ Sbjct: 88 FKQVVEEFESEKVSITIENSSEFKAGDIGKYLTGFEVLNPELVICHLDSKSTMQIDIAIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y VE+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKYQVENFRVEQKTDYEKLVLEITTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++IL +F I E + E+ + + L L K+ +++LS Sbjct: 208 IHPKEALKEAAKILIYHFMLFSDEKITLESNDVDGNEEFDEEVLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 VRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKKSLTELDDLLESLNLSFGTDISKY 325 >gi|71056880|emb|CAH58996.1| DNA-directed RNA polymerase alpha chain [Enterococcus avium] Length = 235 Score = 214 bits (545), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNI Sbjct: 2 FVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILNI 61 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + A LTV Sbjct: 62 KGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGATFHARLTV 121 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TDG Sbjct: 122 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTDG 181 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI +++++LA++IL + L +F+N + K Sbjct: 182 SIIAQEALSLAAKILTEHLDIFVNLTDEAK 211 >gi|71056878|emb|CAH58995.1| DNA-directed RNA polymerase alpha chain [Enterococcus avium] Length = 231 Score = 214 bits (545), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNI Sbjct: 2 FVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILNI 61 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + A LTV Sbjct: 62 KGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGATFHARLTV 121 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TDG Sbjct: 122 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTDG 181 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI +++++LA++IL + L +F+N + K Sbjct: 182 SIIAQEALSLAAKILTEHLDIFVNLTDEAK 211 >gi|71056912|emb|CAH59015.1| DNA-directed RNA polymerase alpha chain [Enterococcus raffinosus] Length = 235 Score = 214 bits (545), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI +++++LA++IL + L +F+N + K Sbjct: 181 SIIAQEALSLAAKILTEHLDIFVNLTDEAK 210 >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 = 214 bits (545), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 122/325 (37%), Positives = 198/325 (60%), Gaps = 14/325 (4%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 N+Q KP+ I VL + + PL G+ T+GNALRRVL+SSL G AI ++ Sbjct: 5 NFQ---KPDKI---VLQKSTDFEAQFEFRPLEPGYGVTVGNALRRVLLSSLEGYAIVGIK 58 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS---HKRVTIFKRGPGVVTAGDIQT 121 I+G HE +++KG+ ED+T+IILN+K + K ++ ++++ I +G A I+ Sbjct: 59 IEGADHEFATLKGITEDVTEIILNLKQVRFKRIVENEVNNEKIQISIKGKTEFRADMIEK 118 Query: 122 VND-IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +++NP+ +IC LD A + +ELT+ KG GYVPA+ ++ ++ G I ID++++PI Sbjct: 119 ATSAFQIMNPELLICTLDPSAKLDIELTIGKGRGYVPAEENKPKDAVFGYIAIDSIFTPI 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEE 236 K V Y++E+ R Q DY+KL M + TDG+I E++V ASRIL L + I+F+ Sbjct: 179 KNVKYSIENTRVEQKTDYEKLIMEVITDGTIHPEEAVKQASRILIQHLMIITDENISFDT 238 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 E ++ ++ ++L L +E+L+LSVR+ NCL+ I + +L+Q + ++++ Sbjct: 239 KDTEKEDVVDEQTLQLRKILKTPLEDLDLSVRAFNCLKAAKINSLSELVQYEQEELMKFR 298 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNL 321 NFG+KSL EI+ VL GL GM+L Sbjct: 299 NFGQKSLSEIEQVLNERGLHFGMDL 323 >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 = 214 bits (545), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 121/300 (40%), Positives = 181/300 (60%), Gaps = 11/300 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-----DGVLH----EISSIKGVHE 80 A P RGF T+GN LRR+L+SS++G AITAV+ DGV H E S+ GV E Sbjct: 30 FTAYPFERGFGTTIGNTLRRILLSSIQGYAITAVKFTTFNQDGVPHLVTSEYESLPGVRE 89 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 D++DII +K + L++ +S + + +GPG+++ + +EV+N D I + Sbjct: 90 DVSDIIAALKKLQLRLPEESESTTLLIECKGPGILSGASFER-GQVEVINKDMEILTMMD 148 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 DA + ME+ + G GYVPA+ + + IG I +DA +SP+ +V Y +E R GQ DYD Sbjct: 149 DANIEMEVQIDLGRGYVPAEINEKYVEEIGTIPLDASFSPVTRVKYAIEPTRVGQRSDYD 208 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + + TDG+I+ E ++A A++I +D +FINF+E ++I+ + L Sbjct: 209 KLVIEVYTDGTISPESALAEAAKIAKDHFSIFINFDESLINSSDEIDEEEERVRKILNTS 268 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 VEELEL+VRS+NCL+ NI +GDL ++TE ++ + NFG+KSL EIK L L LGM Sbjct: 269 VEELELTVRSSNCLKNANIRTIGDLTKKTEEEIAKTRNFGKKSLSEIKAKLAEWNLSLGM 328 >gi|71056852|emb|CAH58981.1| DNA-directed RNA polymerase alpha chain [Enterococcus gilvus] Length = 232 Score = 214 bits (545), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI +++++LA++IL + L +F+N + K Sbjct: 181 SIIAQEALSLAAKILTEHLDIFVNLTDEAK 210 >gi|71056822|emb|CAH58966.1| DNA-directed RNA polymerase alpha chain [Enterococcus avium] Length = 245 Score = 214 bits (545), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 105/217 (48%), Positives = 150/217 (69%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+ + + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ Sbjct: 4 EDRDYGQFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDV 63 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILNIKG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + A Sbjct: 64 VQIILNIKGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGAT 123 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 LTV G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+ Sbjct: 124 FHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLT 183 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 M I TDGSI +++++LA++IL + L +F+N + K Sbjct: 184 MEIWTDGSIIAQEALSLAAKILTEHLDIFVNLTDEAK 220 >gi|71056884|emb|CAH58998.1| DNA-directed RNA polymerase alpha chain [Enterococcus pseudoavium] Length = 236 Score = 214 bits (545), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNI Sbjct: 2 FVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILNI 61 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + A LTV Sbjct: 62 KGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGATFHARLTV 121 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TDG Sbjct: 122 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTDG 181 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI +++++LA++IL + L +F+N + K Sbjct: 182 SIIAQEALSLAAKILTEHLDIFVNLTDEAK 211 >gi|328814005|gb|AEB52118.1| DNA-directed RNA polymerase alpha chain [Lactobacillus rhamnosus] Length = 250 Score = 214 bits (544), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 110/247 (44%), Positives = 164/247 (66%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E N + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDGVLHE S+I GV ED+ Sbjct: 3 ESTNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDGVLHEFSTIDGVLEDV 62 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILNIK + LKM+ D K + I GP VTA DI D+EVLNP+ IC + Sbjct: 63 TQIILNIKKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGH 122 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +TV KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL+ Sbjct: 123 FHVRMTVKKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLT 182 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + + T+GSI+ ++++LA++IL + L +F+N + K + + + L +EE Sbjct: 183 LDVWTNGSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEE 242 Query: 263 LELSVRS 269 L+LSVRS Sbjct: 243 LDLSVRS 249 >gi|71056830|emb|CAH58970.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] Length = 243 Score = 214 bits (544), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 105/217 (48%), Positives = 151/217 (69%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ Sbjct: 4 EDKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDV 63 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILNIKG+ LKM GD K + I GP VTAGDI +D+E+LN D IC + A Sbjct: 64 AQIILNIKGLALKMYGDEEKTLEIDISGPATVTAGDIIVDSDVEILNKDMYICTVSEGAT 123 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+ Sbjct: 124 FHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLT 183 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 M I TDGSI ++++L+++I+ + L +F+N + K Sbjct: 184 MEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAK 220 >gi|71056828|emb|CAH58969.1| DNA-directed RNA polymerase alpha chain [Enterococcus sulfureus] Length = 234 Score = 214 bits (544), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 105/210 (50%), Positives = 146/210 (69%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILNI Sbjct: 2 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQIILNI 61 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM G+ K + I GP VTAGDI +D+E+LN D IC + A LTV Sbjct: 62 KGLALKMYGEDEKTLEIDIAGPATVTAGDILVDSDVEILNKDMYICTVSEGATFNARLTV 121 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDG Sbjct: 122 RPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHRDDFDKLTMEIWTDG 181 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI D+++LA++I+ + L +F+N + K Sbjct: 182 SIEPLDAMSLAAKIMTEHLDIFVNLTDEAK 211 >gi|71056868|emb|CAH58989.1| DNA-directed RNA polymerase alpha chain [Enterococcus pseudoavium] Length = 229 Score = 214 bits (544), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI +++++LA++IL + L +F+N + K Sbjct: 181 SIIAQEALSLAAKILTEHLDIFVNLTDEAK 210 >gi|71056802|emb|CAH58956.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 234 Score = 214 bits (544), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 105/210 (50%), Positives = 147/210 (70%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNI Sbjct: 2 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNI 61 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM G K + I GP VTAGDI +D+E+LN D IC++ A LTV Sbjct: 62 KGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHARLTV 121 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDG Sbjct: 122 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDG 181 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI ++++L+++I+ + L +F+N + K Sbjct: 182 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAK 211 >gi|71056818|emb|CAH58964.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 232 Score = 214 bits (544), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 105/210 (50%), Positives = 147/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI ++++L+++I+ + L +F+N + K Sbjct: 181 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAK 210 >gi|313292078|gb|ADR51228.1| DNA-directed RNA polymerase alpha chain [Enterococcus durans] Length = 241 Score = 214 bits (544), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 106/217 (48%), Positives = 151/217 (69%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ Sbjct: 7 EEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDV 66 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILNIKG+ LKM G K + I GP VTAGDI +++E+LN D IC++ A Sbjct: 67 TQIILNIKGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGAT 126 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+ Sbjct: 127 FHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLT 186 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 M I TDGSI ++++L+++I+ + L +F+N + K Sbjct: 187 MEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAK 223 >gi|72534409|emb|CAH59041.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 229 Score = 214 bits (544), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 105/210 (50%), Positives = 147/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI ++++L+++I+ + L +F+N + K Sbjct: 181 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAK 210 >gi|71056838|emb|CAH58974.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] Length = 237 Score = 214 bits (544), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILNI Sbjct: 5 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQIILNI 64 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM GD K + I GP VTAGDI +D+E+LN D IC + A LTV Sbjct: 65 KGLALKMYGDEEKTLEIDISGPATVTAGDIIVDSDVEILNKDMYICTVSEGATFHARLTV 124 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDG Sbjct: 125 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDG 184 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI ++++L+++I+ + L +F+N + K Sbjct: 185 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAK 214 >gi|71056800|emb|CAH58955.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] Length = 233 Score = 214 bits (544), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI ++++L+++I+ + L +F+N + K Sbjct: 181 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAK 210 >gi|313292086|gb|ADR51232.1| DNA-directed RNA polymerase alpha chain [Enterococcus gilvus] Length = 241 Score = 214 bits (544), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 105/217 (48%), Positives = 150/217 (69%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+ + + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ Sbjct: 7 EDRDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDV 66 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILNIKG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + A Sbjct: 67 VQIILNIKGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGAT 126 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 LTV G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+ Sbjct: 127 FHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLT 186 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 M I TDGSI +++++LA++IL + L +F+N + K Sbjct: 187 MEIWTDGSIIAQEALSLAAKILTEHLDIFVNLTDEAK 223 >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 = 213 bits (543), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 118/307 (38%), Positives = 193/307 (62%), Gaps = 15/307 (4%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 +++ + E+ + EPL RG+ T+GNALRR+L+SS+ GAA+ +V+IDGV HE+ + G Sbjct: 8 VIVEKRSEDYGRFVIEPLERGYGWTIGNALRRILLSSIEGAAVVSVKIDGVRHELEVLPG 67 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 + E++ ++++N+K + +K+ ++ + I RGP VVTA D ++++++NPD VI L Sbjct: 68 LKEEILEVLMNLKKLVVKIEDNNSHILEIDTRGPKVVTAADFIVPSNVKIVNPDLVIATL 127 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D ME+ V KG GYV A+ ++ +N PIG++ +D+++SP+KKVSYTVE R G+ D Sbjct: 128 VEDMPFHMEVEVKKGKGYVSAEENKDQNYPIGVLVLDSIFSPVKKVSYTVEKTRVGRRTD 187 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPA 255 D+L + I T+GSI+ E++ ASRIL + + F+ P +EVK P N Sbjct: 188 LDRLILEIWTNGSISPEEAFREASRILMEYFRLLNEKEFQLPYEEVK--------PENTY 239 Query: 256 LLKK-----VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L ++ +E+L LS R+ N LR I + DL+ +T +++++ NFG+KSL E++ L Sbjct: 240 LEEEKKGLTLEDLGLSTRAYNSLRHAGIHTIEDLLSKTREELMKIKNFGQKSLQELEEKL 299 Query: 311 GTMGLFL 317 GL L Sbjct: 300 REKGLSL 306 >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 = 213 bits (543), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 125/306 (40%), Positives = 187/306 (61%), Gaps = 8/306 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E E + I EPL RG+ HT+GNALRRVL+SS+ GAAI V+I+GVL E S ++GV E Sbjct: 17 KENEFKGQYIVEPLYRGYGHTVGNALRRVLLSSIPGAAIKGVRINGVLSEFSVMEGVKEA 76 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T+IILNIK I +K +++T+ +GP VTA DI IE++NP+ VIC + D Sbjct: 77 VTEIILNIKEIVVKAETSGERKMTLSVKGPKTVTAADIIPDVGIEIVNPEQVICTITTDR 136 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSYT++ G++ D+DKL Sbjct: 137 ELDMEFLVDTGEGFVVSEDIERKDWPVDYIAVDAIYTPIRKVSYTIQDTMVGRMTDFDKL 196 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINF----EEPKKEV---KEDINVKSLPFNP 254 ++ I+TDGSI D+++ A +L+ F+ E + EV +ED S N Sbjct: 197 TLEIETDGSIEIRDALSYAVELLKLHFDPFLELGNKMENLRAEVEDEEEDSTTHSKDDN- 255 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 L K+EEL+L+VRS NCL+ I + L + + ++L++ N GRKSL EI + +G Sbjct: 256 ILNTKIEELDLTVRSFNCLKKAGIEEVSQLAKLSLNELLKIKNLGRKSLDEILEKMKELG 315 Query: 315 LFLGMN 320 L N Sbjct: 316 YDLTQN 321 >gi|328813961|gb|AEB52096.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 248 Score = 213 bits (543), Expect = 3e-53, Method: Compositional matrix adjust. 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|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 = 213 bits (543), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 118/300 (39%), Positives = 183/300 (61%), Gaps = 9/300 (3%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI ++I GV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGVTIGNALRRILLSSLEGFAINTIRIAGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + + +++V+I AGDI + EVLNPD VIC+LD A ++++LT++ Sbjct: 88 FRQVVEEFENEKVSITVENSTEFKAGDISNYLTGFEVLNPDLVICHLDSKASMQIDLTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + ++ ID++Y+PI+ V Y+VE R Q DYDKL + + TDGS Sbjct: 148 KGRGYVPADENREFCTDVNVLPIDSIYTPIRNVKYSVEPYRVEQKTDYDKLIIEVTTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEE--LE 264 I ++++ A++ L +F I E P +E ++ + + L L K+ + L Sbjct: 208 IPPKEALKEAAKTLIHHFMLFSDEKITLESPDQENNQEFDEEVLHMRQLLKTKLTDATLN 267 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L + L G ++ + Sbjct: 268 LSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKKSLSELDDLLEGLNLSFGTDITKY 327 >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 = 213 bits (543), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 105/210 (50%), Positives = 147/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI ++++L+++I+ + L +F+N + K Sbjct: 181 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAK 210 >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 = 213 bits (543), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 105/210 (50%), Positives = 148/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI ++++LA++I+ + L +F+N + + Sbjct: 181 SIEPLEAMSLAAKIMTEHLDIFVNLTDEAR 210 >gi|72534399|emb|CAH59014.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] Length = 227 Score = 213 bits (543), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILNI Sbjct: 2 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQIILNI 61 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM GD K + I GP VTAGDI +D+E+LN D IC + A LTV Sbjct: 62 KGLALKMYGDEEKTLEIDISGPATVTAGDIIVDSDVEILNKDMYICTVSEGATFHARLTV 121 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDG Sbjct: 122 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDG 181 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI ++++L+++I+ + L +F+N + K Sbjct: 182 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAK 211 >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 = 213 bits (543), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI ++++L+++I+ + L +F+N + K Sbjct: 181 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAK 210 >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 = 213 bits (542), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 108/219 (49%), Positives = 150/219 (68%), Gaps = 10/219 (4%) Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--------TENDPIGLITIDALYSPIKK 182 D +IC L + + M + V+ G GY+P ++ +E D IG I ++ALYSP+ + Sbjct: 1 DLLICTLGQNVELNMTIYVASGKGYLPVTKYKENELLKLMSEQDLIGFIPVNALYSPVNR 60 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI--NFEEPKKE 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|327451569|gb|EGE98223.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL092PA1] Length = 338 Score = 213 bits (542), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 123/308 (39%), Positives = 184/308 (59%), Gaps = 12/308 (3%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV HE S+I+G ED+T+ Sbjct: 16 EFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQHEFSTIEGCVEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+KG+ L D + + K G G + A DI + + NP+ I L+ D Sbjct: 76 IILNLKGLVLSSEEDEPVAMYLRKTGAGEIPAADINPPAGVTIHNPELHIATLNDDGRFE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ R Q D+DKL + Sbjct: 136 MELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEATRVEQRTDFDKLVVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----FNPALLK 258 ++T SI D++A A + L + G+ +N E E I + S P + +L Sbjct: 196 VETKPSILPRDAIASAGKTLVELFGLTRELNVE------AEGIEIGSGPVDEEYAESLGT 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L +GL L Sbjct: 250 PVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEKLTELGLALK 309 Query: 319 MNLPDWPP 326 + P + P Sbjct: 310 DSAPGFDP 317 >gi|161513438|emb|CAP16862.1| DNA-directed RNA polymerase subunit alpha [Pediococcus damnosus] Length = 234 Score = 213 bits (542), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 102/215 (47%), Positives = 150/215 (69%), Gaps = 2/215 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILNI Sbjct: 3 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNI 62 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K ++LK+ D K + I +GP VTAGDIQ +D+E+LNPD IC + LT Sbjct: 63 KKVSLKIESDDEKSLEINVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAVLTA 122 Query: 150 SKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 G GYV A ++ D PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + T Sbjct: 123 DTGRGYVSADENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWT 182 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 DGSI+ ++ +L+++IL + L +F+N + ++ + Sbjct: 183 DGSISPSEATSLSAKILTEHLALFVNLTDEAQDAE 217 >gi|71056814|emb|CAH58962.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 243 Score = 213 bits (542), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 106/218 (48%), Positives = 153/218 (70%), Gaps = 2/218 (0%) Query: 24 EENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +ENR + 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 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +M I TDGSI +++++LA++I+ + L +F+N + K Sbjct: 181 TMEIWTDGSIIPQEALSLAAKIMTEHLDIFVNLTDEAK 218 >gi|71056834|emb|CAH58972.1| DNA-directed RNA polymerase alpha chain [Enterococcus gilvus] Length = 227 Score = 213 bits (542), Expect = 4e-53, Method: Compositional matrix adjust. Identities = 104/207 (50%), Positives = 146/207 (70%) 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 GEDSVALASRILQDQLGMFINFEEPKK 239 +++++LA++IL + L +F+N + K Sbjct: 181 AQEALSLAAKILTEHLDIFVNLTDEAK 207 >gi|71056808|emb|CAH58959.1| DNA-directed RNA polymerase alpha chain [Enterococcus raffinosus] Length = 228 Score = 213 bits (542), Expect = 4e-53, Method: Compositional matrix adjust. Identities = 104/207 (50%), Positives = 146/207 (70%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNIKG+ Sbjct: 2 EPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILNIKGL 61 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LK+ + K + I GP VTAGDI +D+E+LN D IC + A LTV G Sbjct: 62 ALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGATFHARLTVKPG 121 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TDGSI Sbjct: 122 RGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTDGSII 181 Query: 213 GEDSVALASRILQDQLGMFINFEEPKK 239 +++++LA++IL + L +F+N + K Sbjct: 182 AQEALSLAAKILTEHLDIFVNLTDEAK 208 >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 = 213 bits (541), Expect = 4e-53, Method: Compositional matrix adjust. Identities = 123/308 (39%), Positives = 187/308 (60%), Gaps = 8/308 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ EPL GF +TLGN+LRR L+SS+ G+A+T+++I+G LHE +++ GV ED+T Sbjct: 23 EQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGSAVTSIKIEGALHEFTTLPGVKEDVTQ 82 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 I+LNIK I L D + + K G G VT GDI + + NP+H I L+ D + Sbjct: 83 IVLNIKEIVLSSDNDEPVVMYLRKTGEGEVTVGDIMPPAGVVIHNPEHHIATLNKDGKLE 142 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELTV +G GYV A ++ I I +D++YSP+ KVSY VE+ R Q D+D+L + Sbjct: 143 IELTVERGRGYVSASQNKDPEAEISRIPVDSIYSPVLKVSYRVEATRVEQRTDFDRLVVD 202 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 ++T +I D++A A + L + G+ +N + E+ N +L + A+ VE+ Sbjct: 203 VETKKAILPRDAMASAGKTLVELFGLARDLNHDAEGIELGPSGNDAALAEDLAM--SVED 260 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 L+L+ R+ NCL E I +GDL+ R++AD+L + NFG+KS+ EIK L M GM+L Sbjct: 261 LDLTSRALNCLTREGINTVGDLVARSQADLLDIRNFGQKSIDEIKEKLAGM----GMSLK 316 Query: 323 DWPPESIE 330 D P ++E Sbjct: 317 DTPMPAVE 324 >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 = 213 bits (541), Expect = 4e-53, Method: Compositional matrix adjust. Identities = 134/318 (42%), Positives = 189/318 (59%), Gaps = 8/318 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 + E I P+ I Y + E+ + EPL RG+ TLGNALRRVL+SSL G A+TAV+I Sbjct: 3 FLEFITPSKI-YWDESSKTESFGRLYVEPLERGYGITLGNALRRVLLSSLEGGAVTAVKI 61 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVN 123 GV HE ++I+GV ED+++IILN+K I KM DS + FK G G VTA DI+ Sbjct: 62 HGVAHEFTTIEGVIEDVSEIILNLKQIKFKMDEGIDSDFAILEFK-GTGEVTAKDIKVPA 120 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 I+++NPD I +D + +RMEL + KG GYV + + IG I ID +SPIKK Sbjct: 121 GIKIVNPDVHIATVDKEIELRMELKIEKGRGYVMVEEMEPPTE-IGWIPIDTAFSPIKKC 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 ++ VE R G+ +YDKL + + TDGSIT E+++ A+ IL + + +N K EV + Sbjct: 180 TFYVEPTRVGEKTNYDKLILEVTTDGSITPEEALTKATNILIEHFQLLLNPTVRKVEVIK 239 Query: 244 DINVKSLPFN---PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +S+ L +EELE+S R+TN L+ I +GDL++ TE D+ + GR Sbjct: 240 KAEPESIAEKIEADKLSLAIEELEISSRATNTLKKLGIQTIGDLVKMTEEDLKEAKSIGR 299 Query: 301 KSLVEIKGVLGTMGLFLG 318 K+L EIK L +GL L Sbjct: 300 KALKEIKEALAELGLELA 317 >gi|71056886|emb|CAH58999.1| DNA-directed RNA polymerase alpha chain [Enterococcus saccharolyticus] Length = 231 Score = 213 bits (541), Expect = 4e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 146/210 (69%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILNI Sbjct: 2 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQIILNI 61 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM G+ K + I GP VTAGDI +D+E+LN D IC + LTV Sbjct: 62 KGLALKMYGEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVSEGTTFHARLTV 121 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDG Sbjct: 122 RPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDG 181 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI D+++LA++I+ + L +F+N + K Sbjct: 182 SIEPLDAMSLAAKIMTEHLDIFVNLTDEAK 211 >gi|156752143|gb|ABU93822.1| RNA polymerase subunit A [Vibrio sp. 0908] Length = 257 Score = 213 bits (541), Expect = 5e-53, Method: Compositional matrix adjust. Identities = 109/258 (42%), Positives = 175/258 (67%), Gaps = 8/258 (3%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRV 104 ALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G + Sbjct: 3 ALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFI 62 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y Sbjct: 183 ATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHY 239 Query: 281 MGDLIQRTEADMLRMANF 298 +GDL+QRTE ++L+ N Sbjct: 240 IGDLVQRTEVELLKTPNL 257 >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 = 212 bits (540), Expect = 5e-53, Method: Compositional matrix adjust. Identities = 119/300 (39%), Positives = 182/300 (60%), Gaps = 9/300 (3%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AI ++I GV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGVTIGNALRRILLSSLEGFAINTIRIAGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + + +++V+I AGDI + EVLNPD VIC+LD A +++ELT++ Sbjct: 88 FRQVVEEFENEKVSITVENSTEFKAGDISNYLTGFEVLNPDLVICHLDSKASMQIELTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + ++ ID++Y+PI+ V Y+VE R Q DYDKL + + TDGS Sbjct: 148 KGRGYVPADENREFCTDVNVLPIDSIYTPIRNVKYSVEPYRVEQKTDYDKLVIEVTTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEE--LE 264 I +D++ A++ L +F I E +E ++ + + L L K+ + L Sbjct: 208 IHPKDALKEAAKTLIYHFMLFSDEKITLESSDQENNQEFDEEILHMRQLLKTKLTDASLN 267 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L + L G ++ + Sbjct: 268 LSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKKSLSELDDLLEGLNLSFGTDITKY 327 >gi|71056917|emb|CAH59017.1| DNA-directed RNA polymerase alpha chain [Enterococcus columbae] Length = 234 Score = 212 bits (540), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 148/210 (70%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QI+GVLHE S+IKGV ED+ IILN+ Sbjct: 2 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIEGVLHEFSTIKGVREDVAQIILNV 61 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ G K + I GP VVTAGDI +D+E+LN D IC++ A R LTV Sbjct: 62 KGLALKLYGSEEKTLEIDITGPAVVTAGDILVDSDVEILNKDMYICSVSEGATFRARLTV 121 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ +DKL+M I TDG Sbjct: 122 KAGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDVFDKLTMEIWTDG 181 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI D+++LA++I+ + L +F+N + K Sbjct: 182 SIEPLDAMSLAAKIMTEHLDIFVNLTDEAK 211 >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 = 212 bits (540), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI ++++L+++I+ + L +F+N + K Sbjct: 181 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAK 210 >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 = 212 bits (540), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI ++++L+++I+ + L +F+N + K Sbjct: 181 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAK 210 >gi|71056888|emb|CAH59000.1| DNA-directed RNA polymerase alpha chain [Enterococcus mundtii] Length = 238 Score = 212 bits (540), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNI Sbjct: 6 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNI 65 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM G K + I GP VTAGDI +++E+LN D IC++ A LTV Sbjct: 66 KGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHARLTV 125 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDG Sbjct: 126 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDG 185 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI ++++L+++I+ + L +F+N + K Sbjct: 186 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAK 215 >gi|71056840|emb|CAH58975.1| DNA-directed RNA polymerase alpha chain [Enterococcus hirae] Length = 235 Score = 212 bits (540), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNI Sbjct: 6 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNI 65 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM G K + I GP VTAGDI +++E+LN D IC++ A LTV Sbjct: 66 KGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHARLTV 125 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDG Sbjct: 126 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDG 185 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI ++++L+++I+ + L +F+N + K Sbjct: 186 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAK 215 >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 = 212 bits (540), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 119/300 (39%), Positives = 184/300 (61%), Gaps = 9/300 (3%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GN+LRR+L+SSL G AI V+I GV HE S++ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGVTIGNSLRRILLSSLEGYAINTVRIAGVEHEFSTVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNPD VIC+LD A ++++LT++ Sbjct: 88 FKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGFEVLNPDLVICHLDSKASMQIDLTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYV A +R + ++ ID++Y+PI+ V Y VE R Q DYDKL + + TDGS Sbjct: 148 KGRGYVSADENREFCTDVNVLPIDSIYTPIRNVKYAVEPYRVEQKTDYDKLVIEVATDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEE--LE 264 I +D++ A++IL +F I E P +E ++ + + L L K+ + L Sbjct: 208 IHPKDALKEAAKILIYHFMLFSDEKIMLESPDQEGNQEFDEEVLHMRQLLKTKLTDSSLN 267 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL E+ +L ++ L G ++ + Sbjct: 268 LSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKKSLSELDDLLESLNLTFGTDITKY 327 >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 = 212 bits (540), Expect = 6e-53, Method: Compositional matrix adjust. Identities = 103/210 (49%), Positives = 149/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI +++++LA++I+ + L +F+N + K Sbjct: 181 SIIPQEALSLAAKIMTEHLDIFVNLTDEAK 210 >gi|71056894|emb|CAH59004.1| DNA-directed RNA polymerase alpha chain [Enterococcus italicus] Length = 229 Score = 212 bits (539), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 104/209 (49%), Positives = 147/209 (70%) 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 ITGEDSVALASRILQDQLGMFINFEEPKK 239 I D+++LA++I+ + L +F+N + K Sbjct: 181 IEPLDAMSLAAKIMTEHLDIFVNLTDEAK 209 >gi|71056812|emb|CAH58961.1| DNA-directed RNA polymerase alpha chain [Enterococcus hirae] Length = 237 Score = 212 bits (539), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNI Sbjct: 5 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNI 64 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM G K + I GP VTAGDI +++E+LN D IC++ A LTV Sbjct: 65 KGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHARLTV 124 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDG Sbjct: 125 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDG 184 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI ++++L+++I+ + L +F+N + K Sbjct: 185 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAK 214 >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 = 212 bits (539), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 104/207 (50%), Positives = 146/207 (70%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG+ Sbjct: 2 EPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKGL 61 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LKM G K + I GP VTAGDI +D+E+LN D IC++ A LTV G Sbjct: 62 ALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHARLTVKPG 121 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI Sbjct: 122 RGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDGSIE 181 Query: 213 GEDSVALASRILQDQLGMFINFEEPKK 239 ++++L+++I+ + L +F+N + K Sbjct: 182 PLEAMSLSAKIMTEHLDIFVNLTDEAK 208 >gi|72534411|emb|CAH59042.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 224 Score = 212 bits (539), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 104/207 (50%), Positives = 146/207 (70%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG+ Sbjct: 2 EPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKGL 61 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LKM G K + I GP VTAGDI +D+E+LN D IC++ A LTV G Sbjct: 62 ALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHARLTVKPG 121 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI Sbjct: 122 RGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDGSIE 181 Query: 213 GEDSVALASRILQDQLGMFINFEEPKK 239 ++++L+++I+ + L +F+N + K Sbjct: 182 PLEAMSLSAKIMTEHLDIFVNLTDEAK 208 >gi|71056921|emb|CAH59019.1| DNA-directed RNA polymerase alpha chain [Enterococcus durans] Length = 226 Score = 212 bits (539), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI ++++L+++I+ + L +F+N + K Sbjct: 181 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAK 210 >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 = 212 bits (539), Expect = 8e-53, Method: Compositional matrix adjust. Identities = 117/291 (40%), Positives = 172/291 (59%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGV HE +I+GV ED+ +II Sbjct: 18 RSRFTLEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVPHEFRTIEGVKEDVAEII 77 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LNIK I L D + + K GPG V AGDI +E+ NPD + L+ + +E Sbjct: 78 LNIKQIVLSSENDEPVVMYLRKAGPGPVVAGDITPPAGVEIHNPDLHLATLNEKGKLEIE 137 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LTV +G GYV A ++ I I ID++YSP+ KV+Y VE+ R Q D+D+L + ++ Sbjct: 138 LTVERGRGYVSAAQNKDPQAEISRIPIDSIYSPVVKVTYKVEATRVEQRTDFDRLVIDVE 197 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T +IT D++A A + L + G+ E + ++ + L +E L L Sbjct: 198 TKPAITPRDAIASAGKTLVELFGLMRELNEEAEGIEVGPSTTDATLAADLALPIENLNLQ 257 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS N LR I+ +G+L+ +EAD+L + NFG KS+ EIK L T+G+ L Sbjct: 258 SRSYNALRRRGILTVGELVAHSEADLLDIRNFGTKSIEEIKESLATLGMTL 308 >gi|71056923|emb|CAH59020.1| DNA-directed RNA polymerase alpha chain [Enterococcus durans] Length = 226 Score = 212 bits (539), Expect = 8e-53, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI ++++L+++I+ + L +F+N + K Sbjct: 181 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAK 210 >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 = 212 bits (539), Expect = 8e-53, Method: Compositional matrix adjust. Identities = 120/307 (39%), Positives = 186/307 (60%), Gaps = 13/307 (4%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 EY+ E EN + PL RGF T+GNALRRVL+SSL GAA+ ++++DGV HE +SI Sbjct: 13 EYV----ESENYGKFVLSPLERGFGTTIGNALRRVLLSSLPGAAVFSIKVDGVYHEFTSI 68 Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 GV ED++ IIL +K + +K+ D + I +GP +TAGDI +EV+N D I Sbjct: 69 PGVREDVSMIILQLKQLVMKIEDDEVYTLQISAKGPCTITAGDIICPAQVEVINKDLEIA 128 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTEN----DPIGLITIDALYSPIKKVSYTVESAR 191 +L+ D + MEL G GY+ A ++ N IG + D++Y+P++KV+Y VE R Sbjct: 129 HLEKDVTLEMELKAKNGRGYISADLNKQLNQGSSQGIGTVFTDSIYTPVEKVAYNVEPTR 188 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE---PKKEVKEDINVK 248 G+ + YD +++ + TDGSI + ++A+A++IL D L + + EV ++ N + Sbjct: 189 VGEDVKYDAVTLEVWTDGSINPQKAIAMAAKILMDHLDIVAGINDEVLQMDEVLKEGNTE 248 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 ++ +E+L+LSVRS NCL+ I + +L Q+TE +M+R+ N G+KSL E+K Sbjct: 249 QPSKGQQMM--IEDLDLSVRSYNCLKRAGIQTVDELTQKTEDEMMRVRNLGKKSLKEVKD 306 Query: 309 VLGTMGL 315 L +GL Sbjct: 307 KLIELGL 313 >gi|119662309|emb|CAJ33142.1| RNA polymerase alpha subunit [Lactobacillus gasseri] Length = 232 Score = 212 bits (539), Expect = 8e-53, Method: Compositional matrix adjust. Identities = 108/227 (47%), Positives = 155/227 (68%), Gaps = 6/227 (2%) 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 SITGEDSVALASRILQDQLGMFIN------FEEPKKEVKEDINVKSL 250 SIT D+++ A++IL + +F++ F++ E ++D N K L Sbjct: 181 SITPNDALSFAAKILVEHFKVFMSTDMDAQFDDVMVEKEDDKNEKKL 227 >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 = 212 bits (539), Expect = 8e-53, Method: Compositional matrix adjust. Identities = 104/207 (50%), Positives = 146/207 (70%) 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 GEDSVALASRILQDQLGMFINFEEPKK 239 ++++L+++I+ + L +F+N + K Sbjct: 181 PLEAMSLSAKIMTEHLDIFVNLTDEAK 207 >gi|312271196|gb|ADQ57295.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 253 Score = 212 bits (539), Expect = 8e-53, Method: Compositional matrix adjust. Identities = 110/249 (44%), Positives = 158/249 (63%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+ Sbjct: 5 FVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNL 64 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK D K + + GP VTA D++ D++VLNPD IC + + ME+ V Sbjct: 65 KKLELKSFSDERKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMEIAV 124 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDG Sbjct: 125 QNGRGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDG 184 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI D+++ A++IL + +F + + K + + + L +EEL+LSVRS Sbjct: 185 SIKPNDALSFAAKILVEHFKVFESADADTKFSEVMVEKEDDKKEKKLEMTIEELDLSVRS 244 Query: 270 TNCLRGENI 278 NCL+ I Sbjct: 245 YNCLKRAGI 253 >gi|71056846|emb|CAH58978.1| DNA-directed RNA polymerase alpha chain [Enterococcus moraviensis] Length = 225 Score = 211 bits (538), Expect = 9e-53, Method: Compositional matrix adjust. Identities = 102/206 (49%), Positives = 148/206 (71%) 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 EDSVALASRILQDQLGMFINFEEPKK 239 +++++LA++I+ + L +F+N + K Sbjct: 181 QEALSLAAKIMTEHLDIFVNLTDEAK 206 >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 = 211 bits (538), Expect = 9e-53, Method: Compositional matrix adjust. Identities = 123/328 (37%), Positives = 200/328 (60%), Gaps = 16/328 (4%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + +KP+ I + + +N+ + +PL G+ TLGNALRRVL+ SL+G A+T+++I G Sbjct: 5 DFVKPDRI---AMSEFSDNKGIFHLKPLEPGYGITLGNALRRVLLGSLKGFAVTSIRIKG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINL--KMSGDSHKRVTIFKRGPGVVTAGDI-QTVND 124 V +E S+I+GV ED+T+I+LN K I L K+SG + 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 YT+E+ R GQ D++ LS+ I TDGSI + ++ AS+IL +F + E+ K+ +E Sbjct: 182 KYTIENCRVGQKTDFENLSLEIQTDGSICPKSALMEASKILIQYFSIF-SHEKIGKKKQE 240 Query: 244 DINVKSLPFNPALLK-------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 +IN K ++ L+ K+ +++LSVR+ NCL+ +I + DL+ +ML+M Sbjct: 241 EIN-KDKKYDEEFLRMRTLLKSKLSDMDLSVRTKNCLKSASIESIADLVSCNRNNMLKMR 299 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 NFG+KSL E++ + GL GM + ++ Sbjct: 300 NFGKKSLDELESKMKEKGLCFGMEISEY 327 >gi|72534405|emb|CAH59039.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 221 Score = 211 bits (538), Expect = 9e-53, Method: Compositional matrix adjust. Identities = 104/207 (50%), Positives = 146/207 (70%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG+ Sbjct: 2 EPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKGL 61 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LKM G K + I GP VTAGDI +D+E+LN D IC++ A LTV G Sbjct: 62 ALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHARLTVKPG 121 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI Sbjct: 122 RGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDGSIE 181 Query: 213 GEDSVALASRILQDQLGMFINFEEPKK 239 ++++L+++I+ + L +F+N + K Sbjct: 182 PLEAMSLSAKIMTEHLDIFVNLTDEAK 208 >gi|71056890|emb|CAH59001.1| DNA-directed RNA polymerase alpha chain [Enterococcus cecorum] Length = 235 Score = 211 bits (538), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 104/211 (49%), Positives = 148/211 (70%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + I EPL RG+ TLGN+LRR+L+SSL GAAIT++QID V HE S+I GV ED++ IILN Sbjct: 5 MFIVEPLERGYGTTLGNSLRRILLSSLPGAAITSIQIDTVQHEFSTIVGVREDVSQIILN 64 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 IKG+ LK+ G K + I GP VVTAGDI +D+E+LN D IC + A R L Sbjct: 65 IKGLALKLYGSEEKTLEIDITGPAVVTAGDIIVDSDVEILNKDMYICTVSEGATFRARLK 124 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V G GYV A ++TE+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TD Sbjct: 125 VKAGRGYVQADENKTEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTD 184 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK 239 GSI D+++LA++IL + L +F+N + + Sbjct: 185 GSIEPLDAMSLAAKILTEHLDIFVNLTDEAR 215 >gi|71056876|emb|CAH58993.1| DNA-directed RNA polymerase alpha chain [Enterococcus canis] Length = 235 Score = 211 bits (538), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 101/210 (48%), Positives = 146/210 (69%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILNI Sbjct: 2 FVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQIILNI 61 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ K + I GP VTAGDI +D+E+LN D +C + A LTV Sbjct: 62 KGLALKLYAQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDLYLCTVSEGATFHARLTV 121 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++TE+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDG Sbjct: 122 KPGRGYVQADENKTEDMPIGVLPVDSIYTPVRRVNYQVENTRVGNRQDFDKLTMEIWTDG 181 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI +++++L+++IL + L +F+N + K Sbjct: 182 SIIPQEALSLSAKILTEHLDIFVNLTDEAK 211 >gi|328813981|gb|AEB52106.1| DNA-directed RNA polymerase alpha chain [Lactobacillus helveticus] Length = 249 Score = 211 bits (538), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 109/245 (44%), Positives = 157/245 (64%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+ Sbjct: 4 FVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNL 63 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK D K + + GP VTA D++ D++VLNPD IC + + ME+ V Sbjct: 64 KKLELKSFSDERKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMEIAV 123 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDG Sbjct: 124 QNGRGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDG 183 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI D+++ A++IL + +F + + K + + + L +EEL+LSVRS Sbjct: 184 SIKPNDALSFAAKILVEHFKVFESADADTKFSEVMVEKEDDKKEKKLEMTIEELDLSVRS 243 Query: 270 TNCLR 274 NCL+ Sbjct: 244 YNCLK 248 >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 = 211 bits (538), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 120/315 (38%), Positives = 193/315 (61%), Gaps = 6/315 (1%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 E +V+ + ++ L +PL +G+ T+GNALRR+L+SSL G AIT +++ GVLHE S+I Sbjct: 10 EKVVMEKADDFHGLFEFKPLEKGYGVTIGNALRRILLSSLEGYAITGIKVPGVLHEFSTI 69 Query: 76 KGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHV 133 GV ED+T+IILN+K + K D + ++ + + AGDI + + ++LNP+ + Sbjct: 70 PGVREDVTEIILNLKQVRFKKISDVNENKIVVSIKKQASFKAGDIAKFTSAYQILNPELL 129 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 ICN+D ++ +ELT+ KG GY+PA+ ++ G I IDA+++PIK V Y+VE+ R Sbjct: 130 ICNVDSNSNFDIELTLEKGRGYLPAEENKPAEQIFGYIPIDAIFTPIKNVKYSVENTRVE 189 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKS 249 Q DY+KL + I TDGSI ED++ A+ IL +F + FE K E +E ++ + Sbjct: 190 QRTDYEKLILEILTDGSIHPEDALKGAANILIKHFMLFSDQTMTFEAVKAEEEETVDEEF 249 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L L + +L+LSVR+ NCL+ +I +G+L +DM++ NFG+KSL E++ + Sbjct: 250 LHMRKLLKTSLADLDLSVRAYNCLKAADIKTLGELATLDISDMMKFRNFGKKSLNELEQL 309 Query: 310 LGTMGLFLGMNLPDW 324 + L GM+ + Sbjct: 310 IIDKNLSFGMDTAKY 324 >gi|314924147|gb|EFS87978.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL001PA1] Length = 338 Score = 211 bits (538), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 123/308 (39%), Positives = 183/308 (59%), Gaps = 12/308 (3%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV HE S+I+G ED+T+ Sbjct: 16 EFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQHEFSTIEGCVEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IIL ++G L D + + K G G VTA DI + + NP+ I L+ D Sbjct: 76 IILTLRGFVLPSEEDEPVAMYLRKSGAGEVTAADINPPAGVTIHNPELHIATLNDDGRFE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ R Q D+DKL + Sbjct: 136 MELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEATRVEQRTDFDKLVVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----FNPALLK 258 ++T SI D++A A + L + G+ +N E E I + S P + +L Sbjct: 196 VETKPSILPRDAIASAGKTLVELFGLTRELNAE------AEGIEIGSGPVDEEYAESLGT 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L +GL L Sbjct: 250 PVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEKLTELGLALK 309 Query: 319 MNLPDWPP 326 + P + P Sbjct: 310 DSAPGFDP 317 >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 = 211 bits (538), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 122/308 (39%), Positives = 187/308 (60%), Gaps = 8/308 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 + R+ EPL GF +TLGN+LRR L+SS+ G+A+T+++I+G LHE +++ GV ED+T Sbjct: 23 DQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGSAVTSIKIEGALHEFTTLPGVKEDVTQ 82 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 I+LNIK I L D + + K G G VT GDI + + NP+H I L+ D + Sbjct: 83 IVLNIKEIVLSSDNDEPVVMYLRKTGEGEVTVGDIMPPAGVVIHNPEHHIATLNKDGKLE 142 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +ELTV +G GYV A ++ I I +D++YSP+ KVSY VE+ R Q D+D+L + Sbjct: 143 IELTVERGRGYVSASQNKDPEAEISRIPVDSIYSPVLKVSYRVEATRVEQRTDFDRLVVD 202 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 ++T +I D++A A + L + G+ +N + E+ N +L + A+ VE+ Sbjct: 203 VETKKAILPRDAMASAGKTLVELFGLARDLNHDAEGIELGPSGNDAALAEDLAM--SVED 260 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 L+L+ R+ NCL E I +GDL+ R++AD+L + NFG+KS+ EIK L M GM+L Sbjct: 261 LDLTSRALNCLTREGINTVGDLVARSQADLLDIRNFGQKSIDEIKEKLAGM----GMSLK 316 Query: 323 DWPPESIE 330 D P ++E Sbjct: 317 DTPMPAVE 324 >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 = 211 bits (538), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 122/328 (37%), Positives = 198/328 (60%), Gaps = 16/328 (4%) 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 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH-RTENDPIGLITIDALYSPIKKV 183 +VLN D VIC+ + + M T+ +G GYVPA+ + + ND IG I ID++Y+PIK V Sbjct: 122 FQVLNTDVVICHKEKSIPLEMSFTIEEGRGYVPAEENKKNNNDLIGNIPIDSIYTPIKNV 181 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN-------FEE 236 YT+E+ R GQ D++ LS+ I TDGS++ + ++ AS+IL +F + EE Sbjct: 182 KYTIENCRVGQKTDFESLSLEIITDGSMSPKTALMEASQILIKYFSIFSHEKIGKKEHEE 241 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 KE K D L L K+ +++LSVR+ NCL+ +I + DL+ ++ML+M Sbjct: 242 ISKERKYDEEF--LRMRTLLKSKLTDMDLSVRTKNCLKSASIQSVADLVNCNRSNMLKMR 299 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 NFGRKSL E++ + GL+ GM++ ++ Sbjct: 300 NFGRKSLEELESQMKEKGLYFGMDISEY 327 >gi|72534416|emb|CAH59044.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 217 Score = 211 bits (538), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 104/207 (50%), Positives = 146/207 (70%) 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 GEDSVALASRILQDQLGMFINFEEPKK 239 ++++L+++I+ + L +F+N + K Sbjct: 181 PLEAMSLSAKIMTEHLDIFVNLTDEAK 207 >gi|71056806|emb|CAH58958.1| DNA-directed RNA polymerase alpha chain [Enterococcus italicus DSM 15952] Length = 234 Score = 211 bits (538), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 146/210 (69%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNI Sbjct: 5 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVAQIILNI 64 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ G+ K + I GP VTAGDI +D+E+LN D IC + A LTV Sbjct: 65 KGLALKLYGEDEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVSEGATFHARLTV 124 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ ++ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDG Sbjct: 125 KPGRGYVQADENKKDDMPIGVLPVDSIYTPVRRVNYQVENTRVGHRDDFDKLTMEIWTDG 184 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI D+++LA++I+ + L +F+N + K Sbjct: 185 SIEPLDAMSLAAKIMTEHLDIFVNLTDEAK 214 >gi|119663520|emb|CAK22331.1| RNA polymerase alpha subunit [Lactobacillus hammesii] Length = 227 Score = 211 bits (537), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 103/214 (48%), Positives = 151/214 (70%), Gaps = 4/214 (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 TVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 T KG GYV A H+ +N PIG++ +D++Y+PI++V+Y VE+AR GQ DYDKL++ + Sbjct: 121 TADKGRGYVSADEHKAQNTEMPIGVLAVDSIYTPIERVNYQVENARVGQRADYDKLTLDV 180 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 T+GSI +++ALA++IL + L MF++ + K Sbjct: 181 WTNGSINPSEAIALAAKILTEHLAMFVDLTDEAK 214 >gi|317016849|gb|ADU85965.1| DNA-directed RNA polymerase alpha chain [Lactobacillus fabifermentans] Length = 235 Score = 211 bits (537), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 104/212 (49%), Positives = 151/212 (71%), Gaps = 2/212 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+++GV ED+T IILN+ Sbjct: 4 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTVEGVTEDVTAIILNV 63 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ D K + I +GP VTAGDI D+EVLNPD IC + A M +T Sbjct: 64 KKVALKLDSDETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLAICTVADGAHFHMRMTA 123 Query: 150 SKGHGYVPAK--HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + G GYV A+ HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL++ + T Sbjct: 124 NTGRGYVSAEDNKHREDDMPIGVLPVDSLYSPIERVNYQVENTRVGQRDDFDKLTLDVWT 183 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +GSIT ++++L+++IL D L +F+N + K Sbjct: 184 NGSITPSEAISLSAKILTDHLSIFVNLTDEAK 215 >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 = 211 bits (537), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 117/277 (42%), Positives = 175/277 (63%), Gaps = 5/277 (1%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL G+ TLGNALRRVL+SSL GAA+T+++I+GV HE + GV ED+TDI+LNIK + Sbjct: 24 EPLEAGYGQTLGNALRRVLLSSLPGAAVTSIRIEGVQHEFQDVPGVLEDVTDIVLNIKKL 83 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSK 151 L+ + + + G VTA DI + +E++NP+ I +LD D A + MEL V Sbjct: 84 RLRSFSEHPVTMRLEVNGEREVTAADIVAPSTVEIVNPELHIASLDNDNAHLDMELVVET 143 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G YVPA E+ PIG+I +DA+Y+P++KV+YTVE R GQ+ +YDK+ + + TDG+I Sbjct: 144 GRSYVPADSK--EDQPIGVIPVDAIYTPVQKVNYTVEHTRVGQMTNYDKIVLEVTTDGTI 201 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL-KKVEELELSVRST 270 T ++++ ++ +L + N+ E E + SLP + +EEL+LSVR+ Sbjct: 202 TPDEALRQSADVLVRHFTLLANYRASLPE-PEKAPLSSLPIPQKIYDTPIEELDLSVRAY 260 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 NCL+ NI +G ++ E D+L + NFG KSL E++ Sbjct: 261 NCLKRSNITKVGQVLSMNEEDLLGVRNFGEKSLQELR 297 >gi|71056914|emb|CAH59016.1| DNA-directed RNA polymerase alpha chain [Enterococcus cecorum] Length = 229 Score = 211 bits (537), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT++QID V HE S+I GV ED++ IILNI Sbjct: 2 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITSIQIDTVQHEFSTIVGVREDVSQIILNI 61 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ G K + I GP VVTAGDI +D+E+LN D IC + A R L V Sbjct: 62 KGLALKLYGSEEKTLEIDITGPAVVTAGDIIVDSDVEILNKDMYICTVSEGATFRARLKV 121 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++TE+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDG Sbjct: 122 KAGRGYVQADENKTEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDG 181 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI D+++LA++IL + L +F+N + + Sbjct: 182 SIEPLDAMSLAAKILTEHLDIFVNLTDEAR 211 >gi|311990466|gb|ADQ26363.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 257 Score = 211 bits (537), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 112/256 (43%), Positives = 161/256 (62%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + Sbjct: 2 EPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKL 61 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LK D K + + GP VTA D++ D++VLNPD IC + + ME+ V G Sbjct: 62 ELKSLSDERKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMEIAVQNG 121 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI Sbjct: 122 RGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIK 181 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 D+++ A++IL + +F + + K + + + L +EEL+LSVRS NC Sbjct: 182 PNDALSFAAKILVEHFKVFESADADTKFSEVMVEKEDDKKEKKLEMTIEELDLSVRSYNC 241 Query: 273 LRGENIVYMGDLIQRT 288 L+ I + +L T Sbjct: 242 LKRAGINTLQELTDMT 257 >gi|72534397|emb|CAH59002.1| DNA-directed RNA polymerase alpha chain [Enterococcus cecorum] Length = 231 Score = 211 bits (537), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT++QID V HE S+I GV ED++ IILNI Sbjct: 2 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITSIQIDTVQHEFSTIVGVREDVSQIILNI 61 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ G K + I GP VVTAGDI +D+E+LN D IC + A R L V Sbjct: 62 KGLALKLYGSEEKTLEIDITGPAVVTAGDIIVDSDVEILNKDMYICTVSEGATFRARLKV 121 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++TE+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDG Sbjct: 122 KAGRGYVQADENKTEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDG 181 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI D+++LA++IL + L +F+N + + Sbjct: 182 SIEPLDAMSLAAKILTEHLDIFVNLTDEAR 211 >gi|71833746|emb|CAH59013.1| DNA-directed RNA polymerase alpha chain [Enterococcus canintestini] Length = 233 Score = 211 bits (537), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 146/210 (69%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI ++++LA++I+ + L +F+N + K Sbjct: 181 SIMPMEAMSLAAKIMTEHLDIFVNLTDEAK 210 >gi|71056906|emb|CAH59010.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 228 Score = 211 bits (537), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 103/207 (49%), Positives = 148/207 (71%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+I GV ED+T IILNIKG+ Sbjct: 2 EPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIPGVREDVTQIILNIKGL 61 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LK+ + K + I GP VTAGDI +D+E+LN D VIC++ A LTV G Sbjct: 62 ALKLYAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDLVICSVAEGATFHARLTVKPG 121 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDGSI Sbjct: 122 RGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDGSII 181 Query: 213 GEDSVALASRILQDQLGMFINFEEPKK 239 +++++LA++I+ + L +F+N + K Sbjct: 182 PQEALSLAAKIMTEHLDIFVNLTDEAK 208 >gi|71056953|emb|CAH59037.1| DNA-directed RNA polymerase alpha chain [Enterococcus sp. LMG 14595] Length = 224 Score = 211 bits (537), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 103/206 (50%), Positives = 145/206 (70%) 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 EDSVALASRILQDQLGMFINFEEPKK 239 +++++LA++IL + L +F+N + K Sbjct: 181 QEALSLAAKILTEHLDIFVNLTDEAK 206 >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 = 211 bits (536), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 115/291 (39%), Positives = 175/291 (60%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 R+ EPL GF +TLGN+LRR L+SS+ G+A+T+++I+G LHE +++ GV ED+T ++ Sbjct: 18 RSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGSAVTSIKIEGALHEFTTLPGVKEDVTQVV 77 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LNIK I L D + + K G G VT GDI + + NP+H I L+ D + +E Sbjct: 78 LNIKEIVLSSDNDEPVVMYLRKTGEGEVTVGDIMPPAGVVIHNPEHHIATLNKDGKLEIE 137 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LTV +G GYV A ++ I I +D++YSP+ KVSY VE+ R Q D+D+L + ++ Sbjct: 138 LTVERGRGYVSAAQNKDPEAEISRIPVDSIYSPVLKVSYHVEATRVEQRTDFDRLIVDVE 197 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T +I+ D++A A + L + G+ + ++ + L VE+LEL+ Sbjct: 198 TKKAISPRDAMASAGKTLVELFGLARALNADAEGIELGSSNTDSALAEDLAMSVEDLELT 257 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 R+ NCL E I +GDL+ R++AD+L + NFG KS+ EIK L TMG+ L Sbjct: 258 SRALNCLNREGIKTVGDLVARSQADLLDIRNFGHKSIDEIKEKLATMGMSL 308 >gi|328813983|gb|AEB52107.1| DNA-directed RNA polymerase alpha chain [Lactobacillus parabuchneri] Length = 244 Score = 211 bits (536), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 115/243 (47%), Positives = 162/243 (66%), Gaps = 4/243 (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 VRS 269 VRS Sbjct: 241 VRS 243 >gi|71056898|emb|CAH59006.1| DNA-directed RNA polymerase alpha chain [Enterococcus hermanniensis] Length = 234 Score = 211 bits (536), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 103/210 (49%), Positives = 145/210 (69%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDG LHE S+IKGV ED+ IILNI Sbjct: 2 FVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGALHEFSTIKGVREDVVQIILNI 61 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + A LTV Sbjct: 62 KGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGATFHARLTV 121 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+ KV+Y VE+ R G+ D+DKL+M I TDG Sbjct: 122 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVCKVNYQVENTRVGRRDDFDKLTMEIWTDG 181 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI +++++LA++IL + L +F+N + K Sbjct: 182 SIIAQEALSLAAKILTEHLDIFVNLTDEAK 211 >gi|168334324|ref|ZP_02692511.1| DNA-directed RNA polymerase, alpha subunit [Epulopiscium sp. 'N.t. morphotype B'] Length = 319 Score = 211 bits (536), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 117/292 (40%), Positives = 182/292 (62%), Gaps = 4/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN LRR+L+S+L G+A++ V+ +GVLHE S+I GV ED+ +IILN+ Sbjct: 23 FVIEPLERGYGMTLGNGLRRILLSTLPGSAVSNVKFEGVLHEFSTIPGVKEDVLEIILNL 82 Query: 90 KGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM-- 145 KG+ ++ S + K I G GVVTA DI+ +E+LNP+ I LD D ++ Sbjct: 83 KGLCIRDSSATQEPKIAYIEVTGEGVVTAEDIKCPLGVEILNPEMYIATLDGDKNTKLYA 142 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ELT++ G GY + IG+I +DA Y+P+++V++ VE R GQ D+D+L++ + Sbjct: 143 ELTITNGRGYEGISKLKKSELLIGVIPVDASYTPVERVNFKVEDTRVGQQTDFDRLTLEV 202 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T G+I +++++LA+++L + L +FI+ E K + I + L +EEL+L Sbjct: 203 FTKGTIRPDEAISLAAKVLSEHLSIFIDLSEHAKRAEIMITKEDDTKEKTLEMTIEELDL 262 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 SVRS NCL+ I + DL +TE +M+++ N GRKSL E+ L +GL L Sbjct: 263 SVRSFNCLKRAGINNVQDLTNKTEEEMMKVRNLGRKSLEEVFKKLEDLGLSL 314 >gi|124020697|gb|ABM88794.1| DNA-directed RNA polymerase alpha chain [Enterococcus camelliae] Length = 223 Score = 211 bits (536), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 104/210 (49%), Positives = 147/210 (70%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNI Sbjct: 5 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVAQIILNI 64 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ G+ K + I GP VTAGDI +D+E+LN D IC + A LTV Sbjct: 65 KGLALKLYGEDEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVSDGATFHARLTV 124 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ ++ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDG Sbjct: 125 KPGRGYVQADENKKDDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDG 184 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI D+++LA++I+ + L +F+N + K Sbjct: 185 SIEPLDAMSLAAKIMTEHLDIFVNLTDEAK 214 >gi|312386519|gb|ADQ74778.1| RNA polymerase alpha subunit [Lactobacillus sp. MWBPC 1-3-1] Length = 248 Score = 210 bits (535), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 109/245 (44%), Positives = 157/245 (64%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+ Sbjct: 4 FVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNL 63 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK D K + + GP VTA D++ D++VLNPD IC + + MEL V Sbjct: 64 KKLELKSLSDEQKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMELAV 123 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDG Sbjct: 124 KNGRGYVTASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDG 183 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI D+++ A++IL + +F + + + + + + L +EEL+LSVRS Sbjct: 184 SIKPNDALSFAAKILVEHFKVFESADANTQFSEVMVEKEDDKKEKKLEMTIEELDLSVRS 243 Query: 270 TNCLR 274 NCL+ Sbjct: 244 YNCLK 248 >gi|161513430|emb|CAP16858.1| DNA-directed RNA polymerase subunit alpha [Pediococcus parvulus] Length = 224 Score = 210 bits (535), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 101/215 (46%), Positives = 150/215 (69%), Gaps = 2/215 (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 SKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 G GYV A ++ D PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + T Sbjct: 121 DTGRGYVSADENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 DGSI+ ++ +L+++IL + L +F+N + ++ + Sbjct: 181 DGSISPSEATSLSAKILTEHLALFVNLTDEAQDAE 215 >gi|71056904|emb|CAH59009.1| DNA-directed RNA polymerase alpha chain [Enterococcus durans] Length = 226 Score = 210 bits (535), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 103/207 (49%), Positives = 146/207 (70%) 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 GEDSVALASRILQDQLGMFINFEEPKK 239 ++++L+++I+ + L +F+N + K Sbjct: 181 PLEAMSLSAKIMTEHLDIFVNLTDEAK 207 >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 = 210 bits (535), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 118/307 (38%), Positives = 185/307 (60%), Gaps = 10/307 (3%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E E + I EPL RG+ HT+GNALRRVL+SS+ GAAI V+IDGVL E S ++G+ E Sbjct: 17 KESEFKGQYIVEPLYRGYGHTVGNALRRVLLSSIPGAAIKGVRIDGVLSEFSVMEGIKEA 76 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T+I+LNIK I +K +++T+ +GP +VTA DI IE++NP+ VIC + D Sbjct: 77 VTEIVLNIKEIVVKAESTGERKMTLSVKGPKIVTAADIIPDVGIEIVNPEQVICTITTDR 136 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ME V G G+V ++ ++ + I +DA+Y+PI+KVSY+V+ G++ D+DKL Sbjct: 137 ELDMEFLVDTGEGFVVSEEIERKDWAVDYIAVDAIYTPIRKVSYSVQDTMVGRMTDFDKL 196 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA------ 255 ++ I+TDGSI D+++ A +L+ F+ + ++ + + NP Sbjct: 197 TLDIETDGSIEIRDALSYAVELLKLHFDPFLELGNKMENLR--VEAEEEEENPVSHAKDD 254 Query: 256 --LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 L K+EEL+L+VRS NCL+ I + L + + ++L++ N GRKSL EI + + Sbjct: 255 NILNTKIEELDLTVRSFNCLKKAGIEEVSQLAKLSLNELLKIKNLGRKSLDEILEKMKEL 314 Query: 314 GLFLGMN 320 G L N Sbjct: 315 GYDLSQN 321 >gi|71056902|emb|CAH59008.1| DNA-directed RNA polymerase alpha chain [Enterococcus hirae] Length = 224 Score = 210 bits (535), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 103/207 (49%), Positives = 146/207 (70%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG+ Sbjct: 2 EPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKGL 61 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LKM G K + I GP VTAGDI +++E+LN D IC++ A LTV G Sbjct: 62 ALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHARLTVKPG 121 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI Sbjct: 122 RGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDGSIE 181 Query: 213 GEDSVALASRILQDQLGMFINFEEPKK 239 ++++L+++I+ + L +F+N + K Sbjct: 182 PLEAMSLSAKIMTEHLDIFVNLTDEAK 208 >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 = 210 bits (535), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 119/307 (38%), Positives = 184/307 (59%), Gaps = 10/307 (3%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E E + I EPL RG+ HT+GNALRRVL+SS+ GAAI V+IDGVL E S + G+ E Sbjct: 17 KESEFKGQYIVEPLYRGYGHTVGNALRRVLLSSIPGAAIKGVRIDGVLSEFSVMDGIKEA 76 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T+IILNIK I +K +++T+ +GP +VTA DI IE++NP+ VIC + D Sbjct: 77 VTEIILNIKEIVVKAESTGERKMTLSVKGPKIVTAADIIPDVGIEIVNPEQVICTITTDR 136 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ME V G G+V ++ ++ + I +DA+Y+PI+KVSY+V+ G++ D+DKL Sbjct: 137 ELDMEFLVDTGEGFVVSEEIERKDWAVDYIAVDAIYTPIRKVSYSVQDTMVGRMTDFDKL 196 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA------ 255 ++ I+TDGSI D+++ A +L+ F+ + ++ + + NP Sbjct: 197 TLDIETDGSIEIRDALSYAVELLKLHFDPFLELGNKMENLR--VEAEEEEENPVSHAKDD 254 Query: 256 --LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 L K+EEL+L+VRS NCL+ I + L + + ++L++ N GRKSL EI + + Sbjct: 255 NILNTKIEELDLTVRSFNCLKKAGIEEVSQLAKLSLNELLKIKNLGRKSLDEILEKMKEL 314 Query: 314 GLFLGMN 320 G L N Sbjct: 315 GYDLSQN 321 >gi|71056874|emb|CAH58992.1| DNA-directed RNA polymerase alpha chain [Enterococcus ratti] Length = 227 Score = 210 bits (535), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 103/207 (49%), Positives = 146/207 (70%) 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 GEDSVALASRILQDQLGMFINFEEPKK 239 ++++L+++I+ + L +F+N + K Sbjct: 181 PLEAMSLSAKIMTEHLDIFVNLTDEAK 207 >gi|119663518|emb|CAK22330.1| RNA polymerase alpha subunit [Lactobacillus algidus] Length = 230 Score = 210 bits (535), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 101/210 (48%), Positives = 149/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SIT ++++L+++IL + L +F++ + K Sbjct: 181 SITPSEAISLSAKILTEHLTLFVDLTDEAK 210 >gi|71056943|emb|CAH59030.1| DNA-directed RNA polymerase alpha chain [Enterococcus hirae] Length = 225 Score = 210 bits (535), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 103/207 (49%), Positives = 146/207 (70%) 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 GEDSVALASRILQDQLGMFINFEEPKK 239 ++++L+++I+ + L +F+N + K Sbjct: 181 PLEAMSLSAKIMTEHLDIFVNLTDEAK 207 >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 = 210 bits (535), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 118/295 (40%), Positives = 182/295 (61%), Gaps = 6/295 (2%) Query: 18 IVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 I L +E+E+R EPL RG+ +T+GNALRR+L+SS+ G+AI ++IDGVL+E S+I Sbjct: 11 IKLTEEKESRYTAKYTLEPLYRGYGNTIGNALRRILLSSIPGSAIKGLRIDGVLNEFSTI 70 Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 GV E +TDIILN+K I +++ K++ + +GP V+TA DI+ I+++NP+ VI Sbjct: 71 PGVKEAVTDIILNVKEIVVELDEPGEKKMVLSVKGPKVITAADIKPDPGIKIINPEQVIA 130 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 + D + ME V G G+V + TE PIG + +DA+Y+PIK+V+Y+VE G+V Sbjct: 131 TVTTDKEINMEFLVDSGEGFVVSDEIDTEGWPIGYLAVDAIYTPIKRVTYSVEDTMVGRV 190 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK----EDINVKSLP 251 +YDKL + I TDGSI D+++ A +L + F N + + E+ ++ S Sbjct: 191 TNYDKLILEISTDGSIEIHDALSYAVELLILHVKPFTNIGNSMSKFRGNEDENSSLNSET 250 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + K+EEL+ +VRS NCL+ + + DL T ++L++ N GRKSL EI Sbjct: 251 ESNIEDMKIEELDFTVRSYNCLKKAGVNTISDLTSMTYVELLKIKNLGRKSLNEI 305 >gi|71056842|emb|CAH58976.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 215 Score = 210 bits (534), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 103/207 (49%), Positives = 148/207 (71%) 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 GEDSVALASRILQDQLGMFINFEEPKK 239 +++++LA++I+ + L +F+N + K Sbjct: 181 PQEALSLAAKIMTEHLDIFVNLTDEAK 207 >gi|71056798|emb|CAH58954.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] Length = 224 Score = 210 bits (534), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 102/206 (49%), Positives = 145/206 (70%) 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 EDSVALASRILQDQLGMFINFEEPKK 239 ++++L+++I+ + L +F+N + K Sbjct: 181 LEAMSLSAKIMTEHLDIFVNLTDEAK 206 >gi|190411115|gb|ACE78312.1| RpoA [Vibrio parahaemolyticus] Length = 252 Score = 209 bits (533), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 108/255 (42%), Positives = 171/255 (67%), Gaps = 8/255 (3%) Query: 49 RVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIF 107 R+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ Sbjct: 1 RILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLN 60 Query: 108 KRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GD Sbjct: 181 LAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGD 237 Query: 284 LIQRTEADMLRMANF 298 L+QRTE ++L+ N Sbjct: 238 LVQRTEVELLKTPNL 252 >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 = 209 bits (533), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 120/302 (39%), Positives = 196/302 (64%), Gaps = 9/302 (2%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EE N + PL RG+ T+GN++RR+L+SSL G++++ + IDGVLHE S+I GV ED+ Sbjct: 16 EETNYGKFVLYPLERGYGTTIGNSMRRMLLSSLPGSSVSKILIDGVLHEFSTIPGVVEDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFK--RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 ++ILNIKGI++K + + +T+F GP +VTA DI+T IEV NPDH + ++ Sbjct: 76 PELILNIKGIDIKKH--TKEDLTLFLDIEGPKIVTAKDIKTDAQIEVANPDHYLATVNDK 133 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 A + + L V+ G GY A+ ++ + DPIG I ID+ ++P+K V++TVE+ R G+ DYDK Sbjct: 134 ARLFIALDVTDGKGYRVAELNKKDTDPIGAIAIDSSFTPVKSVNFTVENTRVGESTDYDK 193 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKKEVKEDINVKSLPFNPA- 255 L + + TDG+IT +++++ + IL + + F + P+ E +E ++ N Sbjct: 194 LILEVWTDGTITPQEALSEGASILMEDIRFFKDLPGQQFPPEVEEEEVEEIEEEDDNQVE 253 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 L K +EEL+LS+RS NCL+ +G++I+++EA++ + NFG+KSL E+ + ++GL Sbjct: 254 LSKTIEELDLSLRSFNCLKRAGYNTVGEIIEKSEAELKDIKNFGKKSLDEVIDKIHSLGL 313 Query: 316 FL 317 L Sbjct: 314 SL 315 >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 = 209 bits (533), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 122/308 (39%), Positives = 183/308 (59%), Gaps = 12/308 (3%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV HE S+I+G ED+T+ Sbjct: 16 EFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQHEFSTIEGCVEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+KG+ L D + + K G G + A DI + + NP I L+ D Sbjct: 76 IILNLKGLVLSSEEDEPVAMYLRKSGTGEIIAADINPPAGVTIHNPGLHIATLNDDGRFE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MEL V +G GYV + + + IG I +D++YSP+ KV+Y VE+ R Q D+DKL + Sbjct: 136 MELVVERGRGYVSSALNDDPSAEIGRIAVDSIYSPVLKVTYKVEATRVEQRTDFDKLVVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLP----FNPALLK 258 ++T SI D+VA A + L + G+ +N E E I + + P + +L Sbjct: 196 VETKPSILPRDAVASAGKTLVELFGLTRELNAE------AEGIEIGAGPVDEEYAESLST 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L +GL L Sbjct: 250 PVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEKLTELGLALK 309 Query: 319 MNLPDWPP 326 + P + P Sbjct: 310 DSAPGFDP 317 >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 = 209 bits (533), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 107/250 (42%), Positives = 164/250 (65%), Gaps = 8/250 (3%) Query: 87 LNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVR 144 +N+KG+ ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D 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++ + + + + F+P LL+ V+ Sbjct: 121 VIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVD 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|325479152|gb|EGC82249.1| DNA-directed RNA polymerase, alpha subunit [Anaerococcus prevotii ACS-065-V-Col13] Length = 318 Score = 209 bits (533), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 112/300 (37%), Positives = 195/300 (65%), Gaps = 5/300 (1%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EEEN PL RG+ T+GN++RRVL+SSL G++++ + I+GVLHE S+I GV ED+ Sbjct: 16 EEENYGKFALYPLERGYGTTIGNSMRRVLLSSLPGSSVSKILIEGVLHEFSTIDGVVEDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 +I+LNIKG+++ D + + GP +VTA DI+ + +++ NPDH I ++ + Sbjct: 76 PEIVLNIKGLDVTKHTDEDVTLFLDVEGPKIVTAKDIKADSLVDIANPDHYIATVNEKSR 135 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + + + V+ G GY +++++ E+DPIG I ID+ ++P++KV+YTVE+ R G+ DYDKL Sbjct: 136 LFIAMDVTDGKGYRISENNKDESDPIGTIAIDSSFTPVEKVNYTVENTRVGESTDYDKLI 195 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK-----KEVKEDINVKSLPFNPALL 257 + + T+G+I+ +++++L S IL + + +F N + K + ++E+ N + + L Sbjct: 196 LEVWTNGTISPQEALSLGSNILIEDVSLFNNLPDMKFPPEEEIIEEEENNEEEALSEDLS 255 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+LS+RS NCL+ + D+++ +E+++ + NFG+KSL E+ L +GL L Sbjct: 256 MTIEELDLSLRSFNCLKRAGFDKVADIVEVSESELKSIKNFGKKSLTEVMDKLDELGLSL 315 >gi|332144686|dbj|BAK19503.1| RNA polymerase alpha subunit [Lactobacillus camelliae] Length = 228 Score = 209 bits (533), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 103/210 (49%), Positives = 146/210 (69%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI+ ++++LA++IL + L +F+N + K Sbjct: 181 SISPREAISLAAKILTEHLDIFVNLTDSAK 210 >gi|71056896|emb|CAH59005.1| DNA-directed RNA polymerase alpha chain [Enterococcus italicus] Length = 223 Score = 209 bits (533), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 103/207 (49%), Positives = 145/207 (70%) 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 GEDSVALASRILQDQLGMFINFEEPKK 239 D+++LA++I+ + L +F+N + K Sbjct: 181 PLDAMSLAAKIMTEHLDIFVNLTDEAK 207 >gi|328813941|gb|AEB52086.1| DNA-directed RNA polymerase alpha chain [Lactobacillus brevis] Length = 248 Score = 209 bits (532), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 110/248 (44%), Positives = 165/248 (66%), 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 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 I +GP +TAGDI D+++LNPD I + A M +T KG GYV A ++T Sbjct: 61 EINVKGPAQITAGDIVAGADVDILNPDLYIATVADGATFHMRMTADKGRGYVSADENKTR 120 Query: 165 ND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 N 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|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 = 209 bits (532), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 108/237 (45%), Positives = 160/237 (67%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+T IILNIK + LKM+ D Sbjct: 2 TLGNSLRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKMNTDED 61 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + I GP VTA DI D+EVLNP+ IC + + +TV KG GYV A + Sbjct: 62 KNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTVKKGRGYVAADQN 121 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 ++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA+ Sbjct: 122 KSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLAA 181 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENI 278 +IL + L +F+N + K + + + L +EEL+LSVRS NCL+ I Sbjct: 182 KILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEELDLSVRSYNCLKRAGI 238 >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 = 209 bits (532), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 119/297 (40%), Positives = 181/297 (60%), Gaps = 8/297 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 + R+ PL GF +TLGN+LRR L+SS+ GAA+T++ IDGVLHE S+I+GV ED+ Sbjct: 16 DTRSRFTLNPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIHIDGVLHEFSTIEGVKEDVAQ 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+K + + D ++ + K GPG VTA DI +E+ NP+ +I L+ + Sbjct: 76 IILNLKDLVVTSENDEPVQMYLRKAGPGQVTAEDITPPAGVEIHNPELLIATLNEKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 ++LTV +G GYV A+ + + + IG I +D++YSP+ KVSY VE+ R GQ D+DKL + Sbjct: 136 IDLTVERGRGYVSAQQNNSPDYEIGRIPVDSIYSPVVKVSYKVEATRVGQRTDFDKLIVD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF----NPALLKKV 260 ++T S+ D+ A A + L + G+ E +EV E + +K P + L + + Sbjct: 196 VETKPSMAPRDAFASAGKTLVELFGLTT---ELNQEV-EGLELKEAPVVEQQSSDLQRPI 251 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L L RS NCL+ E I +G+L+ R+EAD+L + NFG KS+ ++K L + L L Sbjct: 252 TILNLPARSQNCLQREGIHTIGELVLRSEADLLDIRNFGAKSIEDVKDELAKLDLRL 308 >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 = 209 bits (532), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 116/301 (38%), Positives = 194/301 (64%), Gaps = 8/301 (2%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EE N + PL RG+ T+GN++RR+L+SSL G++++ + IDGVLHE S+I GV ED+ Sbjct: 16 EETNYGKFVLYPLERGYGTTIGNSMRRMLLSSLPGSSVSKILIDGVLHEFSTIPGVVEDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFK--RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 ++ILNIKGI++K + + +T+F GP +VTA DI+T I+V NPDH + ++ Sbjct: 76 PELILNIKGIDIKKH--TKEDITLFLDIEGPKIVTAKDIKTDAQIDVANPDHYLATVNDK 133 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + + L V+ G GY A+ ++ + DPIG I ID+ ++P+K V++TVE+ R G+ DYDK Sbjct: 134 GRLFIALDVTDGKGYRVAEQNKKDTDPIGAIAIDSSFTPVKSVNFTVENTRVGESTDYDK 193 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKKEVKEDINVKSLPFNPAL 256 L + + TDG+IT +++++ + IL + + F + P+ E +E ++ L Sbjct: 194 LILEVWTDGTITPQEALSEGASILMEDIRFFKDLPGQQFPPEDEEEEIEEIEEDNNQMEL 253 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 K +EEL+LS+RS NCL+ +G++I+++E+++ + NFG+KSL E+ + ++GL Sbjct: 254 SKTIEELDLSLRSFNCLKRAGYNTVGEIIEKSESELKDIKNFGKKSLEEVIDKIHSLGLS 313 Query: 317 L 317 L Sbjct: 314 L 314 >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 = 209 bits (532), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 118/309 (38%), Positives = 190/309 (61%), Gaps = 11/309 (3%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KP ++E I +E N + +PL RG+ TLGNALRRVL+SSL GAAI V+I+GV H Sbjct: 8 KPTSVEEI---SQEGNLGRFLIKPLERGYGLTLGNALRRVLLSSLPGAAIVNVKIEGVEH 64 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDS---HKRVTIFKRGPGVVTAGDIQTVNDIEV 127 E S+I+GV+ED+ I+LN+K + + +++ ++ GP V+TAGD +DIEV Sbjct: 65 EFSTIEGVYEDVMGIVLNLKKVVFSVDSQDPQYEQQLELYAEGPAVITAGDFNLADDIEV 124 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYT 186 +N D I L A M +TV +G GYVPA ++ + + +I ID+LY+P+++V Y+ Sbjct: 125 VNKDQHIATLAEGAKFNMTVTVRRGIGYVPADQNKQYSKYELNVIPIDSLYTPVERVIYS 184 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE R D D+L++ I+T+G+I ++++ALAS++L D + ++ E E + Sbjct: 185 VEKTRG----DLDELTIEIETNGAILAKEALALASKMLVDHFQVLVDISEKASEFDFIRD 240 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 ++ P + K+E+L+LSVR N L+ I +G+L++ +E +++R+ + GRKS E+ Sbjct: 241 IEEEPASKKSDTKIEQLDLSVRLFNSLKRSGITTVGELLKLSEEEVMRLRSLGRKSFKEL 300 Query: 307 KGVLGTMGL 315 K L GL Sbjct: 301 KEKLAEHGL 309 >gi|161513428|emb|CAP16857.1| DNA-directed RNA polymerase subunit alpha [Pediococcus argentinicus] Length = 225 Score = 209 bits (532), Expect = 5e-52, Method: Compositional matrix adjust. Identities = 103/215 (47%), Positives = 148/215 (68%), Gaps = 2/215 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQID VLHE S++KGV ED+T IILN+ Sbjct: 2 FVIEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDDVLHEFSTVKGVVEDVTQIILNL 61 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K ++LK+ D K + I +GP VTAGDI +D+ +LNPD IC + A LT Sbjct: 62 KKVSLKIDSDDEKSMEIDVKGPATVTAGDISADSDVTILNPDLAICTVAEGATFHAHLTA 121 Query: 150 SKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GY A + R + PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ I T Sbjct: 122 EKGRGYTSADENKARKADMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDIWT 181 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 DGSIT ++ +L+++IL + L +F+N + K+ + Sbjct: 182 DGSITPSEATSLSAKILTEHLAIFVNLNDQAKDTE 216 >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 = 209 bits (531), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 116/291 (39%), Positives = 171/291 (58%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGV HE +I+GV ED+ +II Sbjct: 18 RSRFTLEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVPHEFRTIEGVKEDVAEII 77 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LNIK I L D + + K GPG V AGDI +E+ NPD + L+ + +E Sbjct: 78 LNIKQIVLSSENDEPVVMYLRKAGPGEVLAGDITPPAGVEIHNPDLHLATLNEKGKLEIE 137 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LTV +G GYV A ++ I I ID++YSP+ KV+Y VE+ R Q D+D+L + ++ Sbjct: 138 LTVERGRGYVSAAQNKDPQAEISRIPIDSIYSPVVKVTYKVEATRVQQRTDFDRLVIDVE 197 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T +IT D++A A + L + G+ E + ++ + L +E L L Sbjct: 198 TKPAITPRDALASAGKTLVELFGLMRELNEEAEGIEVGPSTTDATLAADLALPIENLNLQ 257 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS N LR I+ +G+L+ +EAD+L + NFG KS+ EIK L +G+ L Sbjct: 258 SRSYNALRRRGILTVGELVAHSEADLLDIRNFGTKSIEEIKESLAALGMTL 308 >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 = 209 bits (531), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 117/272 (43%), Positives = 180/272 (66%), Gaps = 5/272 (1%) Query: 51 LMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLK-MS-GDSHKRVTIFK 108 ++SSL G+AI++V+IDGVLHE SSI GV ED+T+II+N+K + ++ MS D K V I Sbjct: 1 MLSSLPGSAISSVKIDGVLHEFSSIPGVKEDVTEIIMNLKSLAIRNMSESDEPKTVYIEF 60 Query: 109 RGPGVVTAGDIQTVN-DIEVLNPDHVICNLD--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 QRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +T DM+++ N GRKSL E+ L + L L Sbjct: 241 NKTPEDMMKVRNLGRKSLEEVLAKLKELNLEL 272 >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 = 209 bits (531), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 127/330 (38%), Positives = 192/330 (58%), Gaps = 17/330 (5%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 EL+KP + + + N ++ EPL RGF +T+G +L +L+ +L G AI A QIDG Sbjct: 5 ELLKPKPVSFTEVAP---NCAHIVLEPLERGFGNTIGVSLSGILLKTLPGCAIDAFQIDG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDI 125 V E S + E + ++I+N+K I + +S +++ K G G V A DI + I Sbjct: 62 VSDENSVKADMVETVFELIMNLKTIAVASESPLNSPVWLSLVKSGEGEVKASDIVLASGI 121 Query: 126 EVLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAKH-----HRTENDPIGLITIDALYSP 179 NPD IC L A + M++ VS G GYVPA ++EN+ I IDA +SP Sbjct: 122 SFPNPDAHICTLKGAKAALSMKIRVSYGRGYVPASSDAHIPAQSENE----ILIDASFSP 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 + +P L++ V++LEL+VRS NCL+ E+I+Y+GDL+QRTE ++L+ N G Sbjct: 238 --RSMAPAAPPMPDPVLMQLVDDLELTVRSANCLKAESIIYIGDLVQRTEVELLKTPNLG 295 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL GL LGM L +WPP ++ Sbjct: 296 KKSLTEIKDVLAQRGLSLGMRLTNWPPPNL 325 >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 = 209 bits (531), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 124/305 (40%), Positives = 180/305 (59%), Gaps = 15/305 (4%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 LG E +NR PL GF H++GNALRRVL+SS+ GAAIT V+ D LHE ++I GV Sbjct: 12 LGDEVDNRQRFAIGPLEPGFGHSIGNALRRVLISSVPGAAITQVRFDDALHEFTTIPGVK 71 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+ DIILN+K I + + V + RGP VTAGD +D+EV+N D I ++ Sbjct: 72 EDVIDIILNLKDIVWRSWSEEPVTVRLDVRGPKEVTAGDFMLPSDVEVINRDLHIASVSE 131 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + ++ V +G GYV A+ ++ IG+I IDA++SP++ V+Y VE R GQ D+D Sbjct: 132 HGRLGLDAVVEQGRGYVSAEGNK-RTTTIGIIAIDAIFSPVRHVNYRVEPVRVGQSTDFD 190 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP------FN 253 ++ + ++TDGS+T ++VA A+R L G+ E+ D+N + Sbjct: 191 QVVLEVETDGSVTPREAVASAARTLTSLFGLV-------AELATDVNALEVAATADDSVR 243 Query: 254 PALLK-KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 PA +EELEL+ R NCL+ +I +GDL++RT D+L + NFG+KSL E+ L Sbjct: 244 PAEYDLPIEELELTERPRNCLKRASINTIGDLVERTPEDLLSITNFGQKSLDEVVERLTQ 303 Query: 313 MGLFL 317 GL L Sbjct: 304 RGLEL 308 >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 = 209 bits (531), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 120/304 (39%), Positives = 181/304 (59%), Gaps = 10/304 (3%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-----DGVLHEISS----IK 76 N A P GF T+GN LRRVL+SS++G AI++V+I DGV H ISS I Sbjct: 26 NYGKFTAYPFEPGFGTTVGNTLRRVLLSSIQGYAISSVRITSYDADGVPHVISSEFETIP 85 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVIC 135 + ED +++ ++K I L++ D + ++ +GPG V + D+ +E+++ D I Sbjct: 86 NISEDTLEVLNSLKQIRLRLPRDVEQETFFYEFKGPGTVKSDDLAKEGQLEIMSKDLEIF 145 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 + A + +E V G GYVPA+ + + +G I +D +++P+ KV Y++E R GQ Sbjct: 146 TMMEGAHLEIEFQVDLGRGYVPAEVNEHYIEIVGTIAMDCIFTPVPKVKYSIEPCRVGQR 205 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 DYDKL + I TDGSIT ED++A A++I +D +F+NF E + ++++ Sbjct: 206 NDYDKLILEIWTDGSITPEDALAEAAKIAKDYFAIFVNFNESEYSGSDELDEGDEKIRQL 265 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 L VEELELSVRS+NCL+ NI +G+L ++TE D+ + NFG+KSL EIK L GL Sbjct: 266 LNTSVEELELSVRSSNCLKNANIRTIGELTKKTEDDITKTRNFGKKSLEEIKAKLEEHGL 325 Query: 316 FLGM 319 LGM Sbjct: 326 TLGM 329 >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 = 209 bits (531), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 117/299 (39%), Positives = 183/299 (61%), Gaps = 1/299 (0%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 R+ I EPL GF +TLGN+LRR L+SS+ GAA+T++ I GV+HE S+I GV ED+T+I+ Sbjct: 18 RSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSINIQGVMHEFSTIPGVKEDVTEIV 77 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+K + + D V ++K G G V A DI+ IE+ N D VI L DAV M+ Sbjct: 78 LNVKRLVISSEIDEPFTVRLYKTGEGEVLAKDIEVPTGIEIGNGDLVIATLAKDAVFDMQ 137 Query: 147 LTVSKGHGYVPAKHHRTENDPI-GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 LT+ +G GYV A+ +R + + G I +D++YSP+ KV+Y VE+ R G+ D+D+L + + Sbjct: 138 LTIERGRGYVSAEQNRNDGMSLAGHIPVDSIYSPVHKVTYRVEATRAGERTDFDRLIIDV 197 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 +T SI D+VA A + L + G+ + V+ ++ + L +E+L L Sbjct: 198 ETKPSILPRDAVASAGKTLCELFGLARELNSQAEGVEFGVDSMIPESDEDLRIPIEDLGL 257 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 SVRS NCL+ E + Y+ +L+ +E ++L + NFG+KS E++ L +G L ++P + Sbjct: 258 SVRSYNCLKREGVNYVSELLGFSEQELLDIRNFGQKSADEVQEKLAELGHSLKGSVPGF 316 >gi|161513424|emb|CAP16855.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus dextrinicus] Length = 222 Score = 209 bits (531), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 100/206 (48%), Positives = 148/206 (71%) 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 EDSVALASRILQDQLGMFINFEEPKK 239 ++++LA++IL D L +FI+ + K Sbjct: 181 REAISLAAKILSDHLNIFIDLSDEAK 206 >gi|71056832|emb|CAH58971.1| DNA-directed RNA polymerase alpha chain [Enterococcus dispar] Length = 226 Score = 209 bits (531), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 102/207 (49%), Positives = 145/207 (70%) 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 GEDSVALASRILQDQLGMFINFEEPKK 239 ++++LA++I+ + L +F+N + K Sbjct: 181 PMEAMSLAAKIMTEHLDIFVNLTDEAK 207 >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 = 209 bits (531), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 124/321 (38%), Positives = 186/321 (57%), Gaps = 18/321 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EPL RG+ TLGNALRRVL+SS+ GA I AV++DGVLHE S+I GV ED+ +++LN+ Sbjct: 20 VVLEPLERGYGTTLGNALRRVLLSSIPGAGIVAVRVDGVLHEFSTIPGVREDVIELLLNL 79 Query: 90 KGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K + +++SG K + + GP VV A DIQ D+E ++P+ VIC LD V M+L Sbjct: 80 KHVPVRVSGPGTDVKVLRLEAEGPKVVRAADIQGDADVEFVDPEAVICTLDEGHRVSMDL 139 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + +G GY P R P+ + IDA++SP+K+V Y V+ R GQ DYD+L + + T Sbjct: 140 YIERGVGYAPIDRPRPSYLPVDALLIDAIFSPVKRVRYEVQDVRSGQRTDYDRLVLEVWT 199 Query: 208 DGSITGEDSVALASRILQDQL-GMFINFEEPKKEVKED----------INVKSLPF---- 252 +G ++ D+VA AS IL G+ + V +++ +P Sbjct: 200 NGVVSFRDAVAEASSILSGYFRGLSTSLWGQSSAVTAGDEDFFEEKDEEDLQEVPAVCGE 259 Query: 253 -NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 + L + +++LELSVRS NCL I +GDL+ R + ++L++ N G+ SL EI+ LG Sbjct: 260 DDSVLSRPIKDLELSVRSENCLLRGGIHRIGDLVSRPKEELLKIRNLGKISLREIEEKLG 319 Query: 312 TMGLFLGMNLPDWPPESIEEL 332 GL L P + E+L Sbjct: 320 KFGLSLKGEEPSGEADQAEDL 340 >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 = 208 bits (530), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 116/291 (39%), Positives = 171/291 (58%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGV HE +I+GV ED+ +II Sbjct: 18 RSRFTLEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVPHEFRTIEGVKEDVAEII 77 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LNIK I L D + + K GPG V AGDI +E+ NPD + L+ + +E Sbjct: 78 LNIKQIVLSSENDEPVVMYLRKAGPGEVLAGDITPPAGVEIHNPDLHLATLNEKGKLEIE 137 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LTV +G GYV A ++ I I ID++YSP+ KV+Y VE+ R Q D+D+L + ++ Sbjct: 138 LTVERGRGYVSAAQNKDPQAEISRIPIDSIYSPVVKVTYKVEATRVEQRTDFDRLVIDVE 197 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T +IT D++A A + L + G+ E + ++ + L +E L L Sbjct: 198 TKPAITPRDALASAGKTLVELFGLMRELNEEAEGIEVGPSTTDATLAADLALPIENLNLQ 257 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RS N LR I+ +G+L+ +EAD+L + NFG KS+ EIK L +G+ L Sbjct: 258 SRSYNALRRRGILTVGELVAHSEADLLDIRNFGTKSIEEIKESLAALGMTL 308 >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 = 208 bits (530), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 115/302 (38%), Positives = 184/302 (60%), Gaps = 10/302 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 +PL G+A T+GNALRR+L+SSL G AI +++IDGV HE ++I GV ED+T+IILN+K I Sbjct: 37 KPLEPGYAKTIGNALRRILLSSLEGYAIASIRIDGVEHEFATIPGVTEDVTNIILNLKKI 96 Query: 93 NLKMSGDS--HKRVTI-FKRGPGVVTAGDIQ-TVNDIEVLNPDHVICNLD--VDAVVRME 146 K D+ + VT+ F V TA D+ + + E+ N D IC+ D V + V++E Sbjct: 97 RFKQKVDNADEEVVTVAFPANKDVFTAEDLNAALGNFEITNLDQHICSFDPQVASNVKIE 156 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 ++KG GYVP+ + E DP+ I ID++Y+PI++V ES R Q DY+KL + + Sbjct: 157 FRINKGRGYVPSDENAREGDPLNTIAIDSIYTPIRRVMPKEESFRVEQKTDYEKLILEVV 216 Query: 207 TDGSITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 TDG+I E ++ A++IL D +F ++ EE E + ++ ++L L ++++ Sbjct: 217 TDGTIEPEMALREAAKILIDLFSLFSDGEMHMEEAGDETGDVMDEETLRIRQMLRQELDS 276 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 LSVR+ NCLR N+ + DL++ ++L+ NFG+K+ E++G L +GL +L Sbjct: 277 FNLSVRARNCLRSNNVFTLADLVKHNRQELLKFRNFGKKTFEELEGFLAEVGLEFATDLS 336 Query: 323 DW 324 + Sbjct: 337 KY 338 >gi|332144664|dbj|BAK19492.1| RNA polymerase alpha subunit [Lactobacillus sp. YIT 12363] Length = 251 Score = 208 bits (530), Expect = 9e-52, Method: Compositional matrix adjust. Identities = 106/246 (43%), Positives = 161/246 (65%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E N + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDGVLHE +++ GV ED+ Sbjct: 6 EGTNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDGVLHEFTTVDGVLEDV 65 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILNIK + LK+ D K V I +GP VTA DI D+EVLNP+ IC + Sbjct: 66 TQIILNIKKLALKLLTDDDKTVEIDVQGPATVTAADIVADGDVEVLNPEQYICTVAEGGH 125 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +T+ KG GYV A ++ ++ PIG++ ID++++PI +V+Y VES R G+ D+DKL+ Sbjct: 126 FHVRMTIKKGRGYVAADQNKVDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLT 185 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + + T+GSI ++++LA++IL + L +F+N + K + + + L +EE Sbjct: 186 LDVWTNGSINPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEE 245 Query: 263 LELSVR 268 L+LSVR Sbjct: 246 LDLSVR 251 >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 = 208 bits (529), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 114/277 (41%), Positives = 175/277 (63%), Gaps = 7/277 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT ++IDGV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGITVGNALRRILLSSLEGFAITTIKIDGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDSHK--RVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + + +V+I AGDI + + EVLNP+ VIC+LD + +++++T++ Sbjct: 88 FKQVVEEFESEKVSITIENSSEFKAGDIGKYLTGFEVLNPELVICHLDSKSTMQIDITIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y VE+ R Q DY+KL + I TDGS Sbjct: 148 KGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKYQVENFRVEQKTDYEKLVLEIATDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I ++++ A++IL +F I E + E+ + + L L K+ +++LS Sbjct: 208 IHPKEALKEAAKILIYHFMLFSDEKITLESNDVDGNEEFDEEVLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KSL Sbjct: 268 VRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKKSL 304 >gi|72534407|emb|CAH59040.1| DNA-directed RNA polymerase alpha chain [Enterococcus gallinarum] Length = 219 Score = 208 bits (529), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 102/203 (50%), Positives = 144/203 (70%) 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 VALASRILQDQLGMFINFEEPKK 239 ++LA++I+ + L +F+N + K Sbjct: 181 MSLAAKIMTEHLDIFVNLTDEAK 203 >gi|119668287|emb|CAK95499.1| RNA polymerase alpha subunit [Lactobacillus brevis] Length = 228 Score = 208 bits (529), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 102/211 (48%), Positives = 150/211 (71%), Gaps = 4/211 (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 KGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 KG GYV A ++T N PIG++ +D++Y+PI++V+Y VE+AR GQ DYDKL++ + T+ Sbjct: 121 KGRGYVSADENKTRNTDMPIGVLAVDSIYTPIERVNYQVENARVGQRADYDKLTLDVWTN 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK 239 GSI +++ALA++IL + L MF++ + K Sbjct: 181 GSINPSEAIALAAKILTEHLAMFVDLTDEAK 211 >gi|161367356|gb|ABX71083.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae O1] Length = 244 Score = 208 bits (529), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 107/246 (43%), Positives = 166/246 (67%), Gaps = 8/246 (3%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS 97 GF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ Sbjct: 1 GFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVA 60 Query: 98 -GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGY 155 G +T+ K G G V AGDI D+E++NP+HVIC+L D 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++ + + + + F+P LL+ V++LEL+VRS NC Sbjct: 181 PEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANC 237 Query: 273 LRGENI 278 L+ E I Sbjct: 238 LKAEAI 243 >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 = 208 bits (529), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 118/304 (38%), Positives = 186/304 (61%), Gaps = 5/304 (1%) Query: 22 QEEENRTLMIA-EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 ++E+N T EPL RG+ +T+GNALRR+L+SS+ G AI ++I+GVL+E S+I+GV E Sbjct: 16 EKEDNYTAKYTLEPLYRGYGNTIGNALRRILLSSIPGTAIKGIKIEGVLNEFSTIEGVKE 75 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 +TDIILN+K I ++ K++T+ +GP V+TA DI + ++NP+ VI + D Sbjct: 76 AVTDIILNVKEIVVEADEPGEKKMTLSVKGPAVITAADIHVEPGLRIINPEQVIMTVTTD 135 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + +E V G G+V + T+ PIG + +DA+Y+PIK+V+Y+VE G+V +YDK Sbjct: 136 RQIDIEFLVDSGEGFVVSDEINTDGWPIGYLAVDAIYTPIKRVNYSVEDTMVGRVTNYDK 195 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK--EDINVKSLPFNPALLK 258 L + I TDGSI +D+++ A +L L F N + + ED ++ N ++ Sbjct: 196 LILEIATDGSIEIKDALSYAVELLTWHLEPFTNIGNSMSKYRDSEDELAEADAENENNIE 255 Query: 259 --KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 K+EEL+ +VRS NCL+ + + DL T ++L++ N G+KSL EI + +G Sbjct: 256 DMKIEELDFTVRSYNCLKKAGVNTISDLTSMTYNELLKIKNLGKKSLNEIIDKMKELGYD 315 Query: 317 LGMN 320 LG N Sbjct: 316 LGDN 319 >gi|256027710|ref|ZP_05441544.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium sp. D11] Length = 326 Score = 208 bits (529), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 113/306 (36%), Positives = 186/306 (60%), Gaps = 7/306 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E ++ I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + GV E Sbjct: 17 KESNYKSQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDGVKEA 76 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ +IC + D Sbjct: 77 VTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQIICTVTTDR 136 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D+DKL Sbjct: 137 TLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTDFDKL 196 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI-NVKSLPFNPALLK-- 258 ++ ++TDGSI D+++ A +L+ L F+ + +++DI + P + ++ Sbjct: 197 TLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEIVDEPMDIQVIDDK 256 Query: 259 ----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + +G Sbjct: 257 SHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKMKDLG 316 Query: 315 LFLGMN 320 L N Sbjct: 317 YDLEKN 322 >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 = 208 bits (529), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 133/348 (38%), Positives = 195/348 (56%), Gaps = 32/348 (9%) Query: 18 IVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 IV+ +E T IAEP RGF HTLGN+LRR++++SL AI V+I+GV HE +I Sbjct: 14 IVVDEETATGTFARFIAEPFERGFGHTLGNSLRRLMLTSLEAPAIIGVRIEGVAHEYMAI 73 Query: 76 KGVHEDLTDIILNIKGINLKM-----SGDSHKRVTIFK------------RGPGVVTAGD 118 G+ ED+T+IILNIKG L+ + ++ + + K +G V GD Sbjct: 74 DGIVEDMTNIILNIKGAKLRKLPMEDTPNARNQRLLTKVLEITQEDIDNGKGQYEVRLGD 133 Query: 119 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYS 178 I EV+NP+H I + V +++L VS G GYVP++ H + I IDA ++ Sbjct: 134 IVEGGIFEVVNPNHHIFTVTVPMQKQVDLRVSFGRGYVPSERHVVNDKSTDEILIDAAFT 193 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF------- 231 P+K V+Y VE+ R GQ D+D+L + + TDG +T ++ AS+I +F Sbjct: 194 PVKLVNYHVENTRVGQDTDFDRLVLEVTTDGRVTPTEAFGFASQIGLKHFEIFKKVQTQM 253 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 ++F+ E+KED + L +++E+ELSVRSTNCL G NI + +L+ E Sbjct: 254 VSFD----EIKEDSDSDDDEIMDKLALRIDEIELSVRSTNCLSGANIETIAELVSIPERR 309 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW--PPESIEELAKKYE 337 ML NFG+KSL EIK L MGL LGM+L + E++ E K+Y+ Sbjct: 310 MLEFRNFGKKSLTEIKAKLQEMGLGLGMDLSRYGITAENVREKIKEYQ 357 >gi|71056804|emb|CAH58957.1| DNA-directed RNA polymerase alpha chain [Enterococcus italicus] Length = 224 Score = 208 bits (529), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 102/206 (49%), Positives = 144/206 (69%) 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 EDSVALASRILQDQLGMFINFEEPKK 239 D+++LA++I+ + L +F+N + K Sbjct: 181 LDAMSLAAKIMTEHLDIFVNLTDEAK 206 >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 = 207 bits (528), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 118/301 (39%), Positives = 191/301 (63%), Gaps = 5/301 (1%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 EEE+ PL RG+ T+GN++RRVL+SSL G++++ + I+GVLHE S+I GV ED Sbjct: 15 NEEEHYGKFALYPLERGYGTTIGNSMRRVLLSSLPGSSVSKILIEGVLHEFSTIDGVVED 74 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + +I+LNIKG+++ D + + GP +VTA DI+ + +E+ NPDH I ++ + Sbjct: 75 VPEIVLNIKGLDVTKHTDEDVTLFLDIEGPKIVTAKDIKEDSSVEIANPDHYIATVNEKS 134 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + + + V+ G GY ++ ++ E+DPIG I ID+ ++P+KKV++TVE+ R G+ DYDKL Sbjct: 135 RLFIAMDVTDGKGYRISEENKKESDPIGAIAIDSSFTPVKKVNFTVENTRVGESTDYDKL 194 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFI-----NFEEPKKEVKEDINVKSLPFNPAL 256 M + T+G+IT ++++A S IL D F F +EV+E++N + N L Sbjct: 195 IMEVWTNGTITPQEALAEGSSILIDNFSFFTELPNQQFPPEVEEVEEEVNDEEENLNEDL 254 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +EE++LS+RS NCL+ + D+I+ TE+++ + NFG+KSL E+ L +GL Sbjct: 255 AMTIEEMDLSLRSFNCLKRAGFNRVSDIIEVTESELKAIKNFGKKSLTEVIEKLDELGLS 314 Query: 317 L 317 L Sbjct: 315 L 315 >gi|161513440|emb|CAP16863.1| DNA-directed RNA polymerase subunit alpha [Pediococcus inopinatus] Length = 229 Score = 207 bits (528), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 101/210 (48%), Positives = 147/210 (70%), Gaps = 2/210 (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 YVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 YV A ++ D PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ Sbjct: 121 YVSADENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSIS 180 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVK 242 ++ +L+++IL + L +F+N + K+ + Sbjct: 181 PSEATSLSAKILTEHLALFVNLTDEAKDAE 210 >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 = 207 bits (528), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 113/306 (36%), Positives = 186/306 (60%), Gaps = 7/306 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E ++ I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + GV E Sbjct: 33 KESNYKSQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDGVKEA 92 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ +IC + D Sbjct: 93 VTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQIICTVTTDR 152 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D+DKL Sbjct: 153 TLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTDFDKL 212 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI-NVKSLPFNPALLK-- 258 ++ ++TDGSI D+++ A +L+ L F+ + +++DI + P + ++ Sbjct: 213 TLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEIVDEPMDIQVIDDK 272 Query: 259 ----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + +G Sbjct: 273 SHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKMKDLG 332 Query: 315 LFLGMN 320 L N Sbjct: 333 YDLEKN 338 >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 = 207 bits (528), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 119/291 (40%), Positives = 179/291 (61%), Gaps = 12/291 (4%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG T+GNALRRVL+S+L G A+TAV+I GV HE S++ GV ED+ +I+LN+K + Sbjct: 47 PLERGQGITVGNALRRVLLSNLEGTAVTAVRIAGVTHEFSTVPGVREDVMEILLNMKELV 106 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ S + + +GPG VTA +Q +D+EV+NP H I L A++ ME + +GH Sbjct: 107 LRSSSPETQVGRLVAQGPGEVTAEKLQLPSDVEVINPRHHIATLAEGAILEMEFMIGRGH 166 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY + ++ I + ID+++ P++KV+Y VE+AR GQ L+ D+L + I T+GS+T Sbjct: 167 GYRAVDYSDSKAMAIDFLQIDSVFMPVRKVNYAVEAARVGQFLEKDRLVLEIWTNGSLTP 226 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP--FNPALLKKVEELELSVRSTN 271 +++++ A+RIL +G+F P +EV D V P N +EEL+LSVR+ N Sbjct: 227 QEALSQAARIL---VGLFA----PLQEVSFDAPVPPKPDEDNQKNQIPIEELQLSVRAYN 279 Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 CL+ I + DL+ TE D+L + NFG+KS E+ L G+ LP Sbjct: 280 CLKRAQINTVADLLLYTEEDLLEIKNFGQKSAEEVVQALKAR---FGLTLP 327 >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 = 207 bits (528), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 120/301 (39%), Positives = 181/301 (60%), Gaps = 11/301 (3%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-----DGVLHEISS----IKGVHEDL 82 A P RG+ T+GN LRR+L+SS++G AI+AV+I G H +SS I GV ED Sbjct: 32 AYPFERGYGVTIGNTLRRILLSSIQGYAISAVRITWYDDQGTAHVLSSEYEQIPGVVEDT 91 Query: 83 TDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 ++ N+K + +++ + K V + +GP VT D + V+ +EV+N D + L DA Sbjct: 92 LELFANLKLLRVQLPDEMEQKTVMVEFKGPKEVTGADFE-VDQLEVMNKDFRVMTLMEDA 150 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 ME+ V G GYVPA+ + + +G I +DALYSPI++V + VE+ R G DYDKL Sbjct: 151 HFEMEMQVDLGRGYVPAEVQKNYIEVVGTIPLDALYSPIQRVRFDVENTRVGHRSDYDKL 210 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + + TDGSI+ ED++ A+++ ++ +FINF+E ++ + L +E Sbjct: 211 ILEVWTDGSISPEDALGEAAKLAKEHFTVFINFDEDAISHVRQLDHEEEQIRRLLETPIE 270 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 ELELSVRS+NCL+ NI +GDL+ ++E ++ + NFG+KSL+EIK L L LGM Sbjct: 271 ELELSVRSSNCLKNANIRTIGDLVSKSEEELSKTRNFGKKSLLEIKEKLKEWNLSLGMRD 330 Query: 322 P 322 P Sbjct: 331 P 331 >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 = 207 bits (528), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 113/300 (37%), Positives = 187/300 (62%), Gaps = 5/300 (1%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EEEN PL RG+ T+GN++RRVL+SSL G++++ + I+GVLHE S+I GV ED+ Sbjct: 16 EEENYGKFALYPLERGYGTTIGNSMRRVLLSSLPGSSVSKILIEGVLHEFSTIDGVVEDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 +I+LNIKG+++ D + + GP +VTA DI+ + +++ NPDH I ++ + Sbjct: 76 PEIVLNIKGLDVTKHVDEDVTLFLDIEGPKIVTAKDIKADSSVDIANPDHYIATVNEKSR 135 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + + + V+ G GY + ++ E+DPIG I ID+ ++P++KV++TVE+ R G+ DYDKL Sbjct: 136 LFIAMDVTDGKGYRVSDDNKKESDPIGAIAIDSSFTPVEKVNFTVENTRVGESTDYDKLV 195 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF-----INFEEPKKEVKEDINVKSLPFNPALL 257 M + T+G+IT ++++A S IL + F F +E + + + + L Sbjct: 196 MEVWTNGTITPQEALAEGSSILIENFSFFNELPNQQFPPEVEEEEIEEVEEEDSLSEDLA 255 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+LS+RS NCL+ +GD+I+ +E+++ + NFG+KSL E+ L +GL L Sbjct: 256 MTIEELDLSLRSFNCLKRAGFDRVGDIIKVSESELKTIKNFGKKSLTEVIEKLDELGLSL 315 >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 = 207 bits (527), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 117/302 (38%), Positives = 185/302 (61%), Gaps = 5/302 (1%) Query: 22 QEEENRTLMIA-EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 ++E+N T EPL RG+ +T+GNALRR+L+SS+ G AI ++I+GVL+E S+I+GV E Sbjct: 16 EKEDNYTAKYTLEPLYRGYGNTIGNALRRILLSSIPGTAIKGIKIEGVLNEFSTIEGVKE 75 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 +TDIILN+K I ++ K++T+ +GP V+TA DI ++++NP+ VI + D Sbjct: 76 AVTDIILNVKEIVVESDEPGEKKMTLSVKGPAVITAADIHVEPGLKIINPEQVIMTVTTD 135 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + +E V G G+V + T+ PIG + +DA+Y+PIK+V+Y+VE G+V +YDK Sbjct: 136 KQIDIEFLVDSGEGFVVSDEINTDGWPIGYLAVDAIYTPIKRVNYSVEDTMVGRVTNYDK 195 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK--EDINVKSLPFNPALLK 258 L + I TDGSI +D+++ A +L L F N + + ED + N ++ Sbjct: 196 LILEIATDGSIEIKDALSYAVELLTWHLEPFTNIGNSMSKYRDSEDELTVTAEENENNIE 255 Query: 259 --KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 K+EEL+ +VRS NCL+ + + DL T ++L++ N G+KSL EI + +G Sbjct: 256 DMKIEELDFTVRSYNCLKKAGVNTISDLTSMTYNELLKIKNLGKKSLNEIIDKMKELGYD 315 Query: 317 LG 318 LG Sbjct: 316 LG 317 >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 = 207 bits (527), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 114/276 (41%), Positives = 173/276 (62%), Gaps = 7/276 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GN+LRR+L+SSL G +I V+I GV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGVTIGNSLRRILLSSLEGFSINTVRIAGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNPD VIC+LD A ++++LT++ Sbjct: 88 FKQVVEEFENEKVSITVENTTEFKAGDIGKYLTGFEVLNPDLVICHLDAKASLQIDLTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y+VE R Q DYDKL + + TDGS Sbjct: 148 KGRGYVPADENREFCTDVNVIPIDSIYTPIRNVRYSVEPYRVEQKTDYDKLVIDVTTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I+ +D++ A++IL +F I E + E+ + + L L K+ ++ LS Sbjct: 208 ISPKDALKEAAKILIYHFMLFSDEKIAVENQDVDTNEEFDEEVLHMRQLLKTKLVDMNLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KS Sbjct: 268 VRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKKS 303 >gi|283945397|dbj|BAI66454.1| RNA polymerase alpha subunit [Lactobacillus similis] Length = 248 Score = 207 bits (527), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 105/221 (47%), Positives = 154/221 (69%), Gaps = 3/221 (1%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E ++ + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+++GV ED Sbjct: 9 EESDDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTVEGVVED 68 Query: 82 LTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 +T IILN K I+LK+ G D + + I +GP VTAGDI +D+ VLNPD I + Sbjct: 69 VTQIILNTKKISLKLEGPDDEIESMEIDVKGPAQVTAGDITADSDVTVLNPDLYIATVAE 128 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 A M +T +KG GYV A ++ + D PIG++ ID++Y+PI++V+Y VE+ R GQ DY Sbjct: 129 GATFHMRMTANKGRGYVSADRNKAKEDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDY 188 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 DKL++ + TD SIT +S++LA++IL + L MF++ + K Sbjct: 189 DKLTLDVWTDSSITPSESISLAAKILTEHLAMFVDLTDEAK 229 >gi|283945395|dbj|BAI66453.1| RNA polymerase alpha subunit [Lactobacillus odoratitofui] Length = 247 Score = 207 bits (527), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 105/221 (47%), Positives = 154/221 (69%), Gaps = 3/221 (1%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E ++ + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED Sbjct: 8 EESDDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVED 67 Query: 82 LTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 +T IILN K I+LK+ G D + + I +GP VTAGDI +D+ +LNPD I + Sbjct: 68 VTQIILNTKKISLKLEGPDDEIESMEIDVKGPAQVTAGDITADSDVTILNPDLYIATVAE 127 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 A M +T +KG GYV A ++ + D PIG++ ID++Y+PI++V+Y VE+ R GQ DY Sbjct: 128 GATFHMRMTANKGRGYVSADRNKAKEDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDY 187 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 DKL++ + TD SIT +S++LA++IL + L MF++ + K Sbjct: 188 DKLTLDVWTDSSITPSESISLAAKILTEHLAMFVDLTDEAK 228 >gi|323925214|gb|ADY11800.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 240 Score = 207 bits (527), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 103/239 (43%), Positives = 161/239 (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 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 I +++++L+++IL D L +F++ E E + + + L K +EE++ SVR+ Sbjct: 181 IVSDEALSLSAKILTDHLNLFVDLSEVASEAETLVVKDEVKTERVLDKIIEEMDFSVRA 239 >gi|86438808|emb|CAJ43369.1| RNA polymerase alpha subunit [Lactobacillus casei] Length = 233 Score = 207 bits (527), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 100/210 (47%), Positives = 149/210 (70%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDGVLHE S+I GV ED+T IILNI Sbjct: 2 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDGVLHEFSTIDGVLEDVTQIILNI 61 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LKM+ D K + I GP VTA DI T D+EVLNP+ IC + + +TV Sbjct: 62 KKLALKMNTDEDKNIEIDVNGPAKVTAADIVTDPDVEVLNPEQYICTVADGGHFHVRMTV 121 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+G Sbjct: 122 KKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNG 181 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI+ ++++LA++IL + L +F+N + K Sbjct: 182 SISPREAISLAAKILTEHLDIFVNLTDEAK 211 >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 = 207 bits (527), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 114/276 (41%), Positives = 173/276 (62%), Gaps = 7/276 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GN+LRR+L+SSL G +I V+I GV HE SS+ GV ED+T+IILN+K + Sbjct: 28 PLEPGFGVTIGNSLRRILLSSLEGFSINTVRIAGVEHEFSSVPGVKEDVTNIILNLKQVR 87 Query: 94 LKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++V+I AGDI + + EVLNPD VIC+LD A ++++LT++ Sbjct: 88 FKQVVEEFENEKVSITVENTTEFKAGDIGKYLTGFEVLNPDLVICHLDAKASLQIDLTIN 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA +R + +I ID++Y+PI+ V Y+VE R Q DYDKL + + TDGS Sbjct: 148 KGRGYVPADENREFCTDVNVIPIDSIYTPIRNVRYSVEPYRVEQKTDYDKLIIDVTTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I+ +D++ A++IL +F I E + E+ + + L L K+ ++ LS Sbjct: 208 ISPKDALKEAAKILIYHFMLFSDEKIAVENQDVDTNEEFDEEVLHMRQLLKTKLVDMNLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 VR+ NCL+ ++ +GDL+Q + D+L+ NFG+KS Sbjct: 268 VRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKKS 303 >gi|328813959|gb|AEB52095.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 231 Score = 207 bits (526), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 100/210 (47%), Positives = 149/210 (70%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDGVLHE S+I GV ED+T IILNI Sbjct: 2 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDGVLHEFSTIDGVLEDVTQIILNI 61 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LKM+ D K + I GP VTA DI T D+EVLNP+ IC + + +TV Sbjct: 62 KKLALKMNTDEDKNIEIDVNGPAKVTAADIVTDPDVEVLNPEQYICTVADGGHFHVRMTV 121 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+G Sbjct: 122 KKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNG 181 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI+ ++++LA++IL + L +F+N + K Sbjct: 182 SISPREAISLAAKILTEHLDIFVNLTDEAK 211 >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 = 207 bits (526), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 113/306 (36%), Positives = 186/306 (60%), Gaps = 7/306 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E ++ I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + GV E Sbjct: 23 KESNYKSQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDGVKEA 82 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ +IC + D Sbjct: 83 VTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQIICTVTTDR 142 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D+DKL Sbjct: 143 TLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTDFDKL 202 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI-NVKSLPFNPALLK-- 258 ++ ++TDGSI D+++ A +L+ L F+ + +++DI + P + ++ Sbjct: 203 TLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEMVDEPMDIQVIDDK 262 Query: 259 ----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + +G Sbjct: 263 SHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKMKDLG 322 Query: 315 LFLGMN 320 L N Sbjct: 323 YDLEKN 328 >gi|332176606|gb|AEE12296.1| DNA-directed RNA polymerase subunit alpha [Porphyromonas asaccharolytica DSM 20707] Length = 330 Score = 207 bits (526), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 116/299 (38%), Positives = 184/299 (61%), Gaps = 7/299 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 +PL G+A T+GNALRR+L+SSL G AI +++I+GV HE ++I GV ED+T IILN+K I Sbjct: 27 KPLEPGYAMTIGNALRRILLSSLEGYAIASIRIEGVEHEFATIPGVLEDVTHIILNLKQI 86 Query: 93 NLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + + + +T+ G AGD+ Q + +V NPD VICNL DA +EL + Sbjct: 87 RFKAAVEDPQEETITLHVTGRNTFQAGDLNQVLTSYKVQNPDLVICNLAEDADFTIELRI 146 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GYV ++ +R E+DP+ + ID +Y+PI+KV+ T E+ R Q DY+KL + I+TDG Sbjct: 147 NKGRGYVVSEENRREDDPVNTLPIDGIYTPIRKVNQTTEAYRVDQRTDYEKLVLEIETDG 206 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKED----INVKSLPFNPALLKKVEELEL 265 +I +++ A+ IL +F + E + +E+ ++ +++ L+ + +L Sbjct: 207 TIHPREALRQAATILISHFALFTDKEFEVELPEEEPDQLLDNQTMKVRTQLMTDLATTDL 266 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 SVR+ NCL+ I + DL+ R ++L++ NFG+KSLVEI+ L L M+L + Sbjct: 267 SVRALNCLKAAGISTIADLLSRDRDELLKIKNFGKKSLVEIEQFLADQDLDFDMDLTPY 325 >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 = 207 bits (526), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 119/291 (40%), Positives = 178/291 (61%), Gaps = 4/291 (1%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GNALRRVL+SSL GAAIT+VQI+G HE ++ GV ED+TDIILNIK I Sbjct: 46 PLAPGYGLTIGNALRRVLLSSLEGAAITSVQIEGARHEFMALPGVKEDVTDIILNIKRIR 105 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV-DAVVRMELTVSKG 152 ++ D + + GP VVTA DI+ D+++++ D I LD DA + M+LTV KG Sbjct: 106 VRSYSDRPVTLRLEATGPKVVTAADIRPHADVDIVSLDQPIATLDSEDATLSMQLTVQKG 165 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYVPA+ + IG I +DA+YSP+ KV+Y VE R GQ DYD L + I TDG+I Sbjct: 166 RGYVPAESQ--DFFEIGRIPVDAIYSPVTKVNYVVERTRVGQRTDYDNLIIEIWTDGTIA 223 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 ++++ A+ IL Q + + + ++ +++ + ++EL LS R+ N Sbjct: 224 PGEALSQAASILVGQFQIIAAYANAETSFGIELPTETMSVPEVDNRSIDELGLSARTLNS 283 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 L+ +I +G ++ +T+ D+L + NFG KSL E++ L G +L +LP+ Sbjct: 284 LKRAHITTVGQVLSKTKDDLLSIRNFGDKSLHELEAKLKEFG-YLPSDLPE 333 >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 = 207 bits (526), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 113/306 (36%), Positives = 186/306 (60%), Gaps = 7/306 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E ++ I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + GV E Sbjct: 33 KESNYKSQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDGVKEA 92 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ +IC + D Sbjct: 93 VTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQIICTVTTDR 152 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D+DKL Sbjct: 153 TLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTDFDKL 212 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI-NVKSLPFNPALLK-- 258 ++ ++TDGSI D+++ A +L+ L F+ + +++DI + P + ++ Sbjct: 213 TLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEMVDEPMDIQVIDDK 272 Query: 259 ----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + +G Sbjct: 273 SHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKMKDLG 332 Query: 315 LFLGMN 320 L N Sbjct: 333 YDLEKN 338 >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 = 207 bits (526), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 121/319 (37%), Positives = 200/319 (62%), Gaps = 15/319 (4%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M+++N + +I+ + EY G+ + EPL RG+ T+GN+LRR+L+SS+ GAA+ Sbjct: 1 MLEENVRVIIEKRSDEY---GR-------FVIEPLERGYGWTIGNSLRRILLSSIEGAAV 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 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI--NFEEPK 238 KKVSYTVE R G+ D D+L + I T+ S+T E++ ASRIL + + F+ P Sbjct: 171 KKVSYTVEKTRVGRRTDLDRLIIEIWTNKSVTPEEAFREASRILMEYFKLLSEREFQLPH 230 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +EV ++I SL L +E+L LS R+ N LR I + DL+ ++ D++++ NF Sbjct: 231 EEVGQEIT--SLEEEKKGL-TLEDLGLSTRAYNSLRHAGIHTIEDLLSKSREDLMKIKNF 287 Query: 299 GRKSLVEIKGVLGTMGLFL 317 G+KSL E++ L GL L Sbjct: 288 GQKSLQELEEKLREKGLSL 306 >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 = 207 bits (526), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 114/306 (37%), Positives = 185/306 (60%), Gaps = 7/306 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + GV E Sbjct: 23 KESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDGVKEA 82 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ VIC + D Sbjct: 83 VTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQVICTVTTDR 142 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D+DKL Sbjct: 143 TLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTDFDKL 202 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI-NVKSLPFNPALLK-- 258 ++ ++TDGSI D+++ A +L+ L F+ + +++DI + P + ++ Sbjct: 203 TLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEIIEEPMDIQVIDDK 262 Query: 259 ----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + +G Sbjct: 263 SHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKMKDLG 322 Query: 315 LFLGMN 320 L N Sbjct: 323 YDLEKN 328 >gi|72534403|emb|CAH59034.1| DNA-directed RNA polymerase alpha chain [Enterococcus sp. LMG 13603] Length = 226 Score = 206 bits (525), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 101/203 (49%), Positives = 143/203 (70%) 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 VALASRILQDQLGMFINFEEPKK 239 ++LA++IL + L +F+N + K Sbjct: 181 LSLAAKILTEHLDIFVNLTDEAK 203 >gi|119662385|emb|CAJ33181.1| RNA polymerase alpha subunit [Lactobacillus zeae] Length = 227 Score = 206 bits (525), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 100/210 (47%), Positives = 149/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI+ ++++LA++IL + L +F+N + K Sbjct: 181 SISPREAISLAAKILTEHLDIFVNLTDEAK 210 >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 = 206 bits (525), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 114/306 (37%), Positives = 185/306 (60%), Gaps = 7/306 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + GV E Sbjct: 33 KESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDGVKEA 92 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ VIC + D Sbjct: 93 VTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQVICTVTTDR 152 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D+DKL Sbjct: 153 TLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTDFDKL 212 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI-NVKSLPFNPALLK-- 258 ++ ++TDGSI D+++ A +L+ L F+ + +++DI + P + ++ Sbjct: 213 TLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEIIEEPMDIQVVDDK 272 Query: 259 ----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + +G Sbjct: 273 SHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKMKDLG 332 Query: 315 LFLGMN 320 L N Sbjct: 333 YDLEKN 338 >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 = 206 bits (525), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 114/306 (37%), Positives = 185/306 (60%), Gaps = 7/306 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + GV E Sbjct: 23 KESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDGVKEA 82 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ VIC + D Sbjct: 83 VTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQVICTVTTDR 142 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D+DKL Sbjct: 143 TLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTDFDKL 202 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI-NVKSLPFNPALLK-- 258 ++ ++TDGSI D+++ A +L+ L F+ + +++DI + P + ++ Sbjct: 203 TLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEIIEEPMDIQVVDDK 262 Query: 259 ----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + +G Sbjct: 263 SHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKMKDLG 322 Query: 315 LFLGMN 320 L N Sbjct: 323 YDLEKN 328 >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 = 206 bits (525), Expect = 3e-51, Method: Compositional matrix adjust. Identities = 103/239 (43%), Positives = 161/239 (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 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 I +++++L+++IL D L +F++ E E + + + L K +EE++ SVR+ Sbjct: 181 IVSDEALSLSAKILTDHLNLFVDLSEVAAEAETLVVKDEVKTERVLDKIIEEMDFSVRA 239 >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 = 206 bits (525), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 103/239 (43%), Positives = 161/239 (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 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 I +++++L+++IL D L +F++ E E + + + L K +EE++ SVR+ Sbjct: 181 IVSDEALSLSAKILTDHLNLFVDLSEVAAEAETLVVKDEVKTERVLDKIIEEMDFSVRT 239 >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 = 206 bits (524), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 120/304 (39%), Positives = 187/304 (61%), Gaps = 22/304 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL G AIT+++IDGVLHE S+I+GV ED+++IILN+ Sbjct: 23 FVCEPLDRGYGITLGNSLRRVLLSSLDGVAITSIKIDGVLHEFSTIQGVREDVSEIILNL 82 Query: 90 KGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K + L+ + D + +++ G TA D+ +DIE+LNP+ + LD DA + M Sbjct: 83 KQLRLRFTRDDVNELDISVDVNGECEFTAKDLDVNSDIEILNPELHLATLDADAHIYMTC 142 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + +G GY+P+ ++ E D IG+I ID+++SP+ + Y V + R G +DYD L++ + T Sbjct: 143 HIERGKGYIPSTKNKKETDMIGVIPIDSIFSPVMRTKYEVGNIRVGNEMDYDSLTLEVKT 202 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL-PFNPALLK-------- 258 DGSI E++VA A+ I+ L F +K + + ++L PF + Sbjct: 203 DGSIAAENAVAKAASIMVSYLDYF------QKIASDPVANEALAPFTTPEGEEPEVEEGP 256 Query: 259 -----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 K++ L+LSVR++NCL+ NI +GDL++RTE D+ ++ N G+KS+ EI L Sbjct: 257 ELSQVKIDVLDLSVRASNCLKRANIYTLGDLVERTEEDLSKIRNLGKKSVDEIIEKLKDY 316 Query: 314 GLFL 317 G L Sbjct: 317 GFDL 320 >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 = 206 bits (524), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 118/314 (37%), Positives = 184/314 (58%), Gaps = 24/314 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E E + + EPL RG+ HTLGNALRRVL+SS+ GAAI ++I+GVL E S + GV E Sbjct: 17 RESEFKGQFVVEPLYRGYGHTLGNALRRVLLSSIPGAAIKGIRIEGVLSEFSVMDGVKEA 76 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T+IILN+K I +K +++T+ +GP VVTA DI +E++NPD IC + D Sbjct: 77 VTEIILNVKEIVVKSETAGERKMTLSVKGPKVVTAADIIPDIGLEIINPDQEICTITTDR 136 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + +E V G G+V ++ + + I +DA+Y+PI+KVSY ++ G++ D+DKL Sbjct: 137 ELDIEFLVDTGEGFVVSEEIERDGWAVDYIAVDAIYTPIRKVSYDIQDTMVGRMTDFDKL 196 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINF---------------EEPKKEVKEDIN 246 +++++TDGSI D+++ A +L+ L F+ E +K+DIN Sbjct: 197 TLSVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRVEVEEEVENQSSSIKDDIN 256 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + K+EEL+L+VRS NCL+ I +G L + + ++L++ N GRKSL EI Sbjct: 257 LNI---------KIEELDLTVRSFNCLKKAGIEEVGQLSKLSMNELLKIKNLGRKSLDEI 307 Query: 307 KGVLGTMGLFLGMN 320 + +G L N Sbjct: 308 LEKMKELGYDLAQN 321 >gi|161513432|emb|CAP16859.1| DNA-directed RNA polymerase subunit alpha [Pediococcus parvulus] Length = 224 Score = 206 bits (524), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 99/208 (47%), Positives = 146/208 (70%), Gaps = 2/208 (0%) Query: 37 RGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILNIK ++LK+ Sbjct: 2 RGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNIKKVSLKI 61 Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 D K + I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV Sbjct: 62 ESDDEKSLEINVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAVLTADTGRGYV 121 Query: 157 PAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A ++ D PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ Sbjct: 122 SADENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSISPS 181 Query: 215 DSVALASRILQDQLGMFINFEEPKKEVK 242 ++ +L+++IL + L +F+N + ++ + Sbjct: 182 EATSLSAKILTEHLALFVNLTDEAQDAE 209 >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 = 206 bits (524), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 115/299 (38%), Positives = 184/299 (61%), Gaps = 7/299 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 +PL G+A T+GNALRR+L+SSL G AI +++I+GV HE ++I GV ED+T IILN+K I Sbjct: 27 KPLEPGYAMTIGNALRRILLSSLEGYAIASIRIEGVEHEFATIPGVLEDVTHIILNLKQI 86 Query: 93 NLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + + + +T+ G AGD+ Q + +V NPD VICNL DA +E+ + Sbjct: 87 RFKAAVEDPQEETITLHVTGRNTFQAGDLNQVLTSYKVQNPDLVICNLAEDADFTIEIRI 146 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GYV ++ +R E+DP+ + ID +Y+PI+KV+ T E+ R Q DY+KL + I+TDG Sbjct: 147 NKGRGYVVSEENRREDDPVNTLPIDGIYTPIRKVNQTTEAYRVDQRTDYEKLVLEIETDG 206 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKED----INVKSLPFNPALLKKVEELEL 265 +I +++ A+ IL +F + E + +E+ ++ +++ L+ + +L Sbjct: 207 TIHPREALRQAATILISHFALFTDKEFEVELPEEEPDQLLDNQTMKVRTQLMTDLATTDL 266 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 SVR+ NCL+ I + DL+ R ++L++ NFG+KSLVEI+ L L M+L + Sbjct: 267 SVRALNCLKAAGISTIADLLSRDRDELLKIKNFGKKSLVEIEQFLADQDLDFDMDLTPY 325 >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 = 206 bits (524), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 108/294 (36%), Positives = 186/294 (63%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 EE+ EPL RGFA T+GN+LRRVL+SSL G A+TA++ID V+HE S++KGV ED+T Sbjct: 15 EEDYGKFALEPLERGFATTVGNSLRRVLLSSLPGVAVTAIKIDKVMHEFSTVKGVKEDVT 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 +++L +K +++ M + + I +G +TAGDI +E++N D I L DA + Sbjct: 75 ELMLTLKELSMNMDSNGEAILRIDAQGECEITAGDIICPAGVEMVNKDLHIATLSEDADL 134 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +ME+ ++KG GYV + ++ + PIG+I +D++Y+P+KKV++T+E + Y++L + Sbjct: 135 KMEIYINKGRGYVSSDTNKQKGLPIGVIPMDSIYTPVKKVNFTIEEVNVSEDEQYERLVL 194 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 I T ++ +D++++A++I + L +FI+ + ++ + + L +EEL Sbjct: 195 DIWTKKTVNPKDALSIAAKIFTEHLSLFIDLTDSVNAMEIMVEKEQDEKEKVLEMTIEEL 254 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +LSVRS NCL+ +I + +L +TE +M+++ N G+KSL E+ L +G L Sbjct: 255 DLSVRSYNCLKRASINTVQELTSKTEDEMMKVRNLGKKSLEEVIHKLHELGFTL 308 >gi|108792409|emb|CAJ33153.1| RNA polymerase alpha subunit [Lactobacillus murinus] Length = 222 Score = 206 bits (524), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 102/209 (48%), Positives = 148/209 (70%), Gaps = 2/209 (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 HGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 GYV A + + E+ PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T+GS Sbjct: 121 RGYVSATENKAKAEDMPIGVLPIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWTNGS 180 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKK 239 IT ++++L+++IL + L +F++ + K Sbjct: 181 ITPSEAISLSAKILTEHLTLFVDLTDEAK 209 >gi|311990458|gb|ADQ26359.1| RNA polymerase alpha subunit [Lactobacillus fermentum] Length = 242 Score = 206 bits (524), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 108/241 (44%), Positives = 163/241 (67%), Gaps = 2/241 (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 KGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 KG GY A ++T 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 S 269 S Sbjct: 241 S 241 >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 = 206 bits (524), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 120/298 (40%), Positives = 187/298 (62%), Gaps = 9/298 (3%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EE+ + + L +G A LGN+LRR+L+SS+ G+A++ V++D V HE SSI GV ED+ Sbjct: 16 EEQGYARFVCDSLAKGEATVLGNSLRRILLSSMPGSAVSEVKLDSVYHEFSSIPGVKEDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-V 139 ++II+N+K + L+ +G + V + G GVV A DI+ +++E++NPD V+ +L Sbjct: 76 SEIIMNLKNLALRYTGSGEEPVMAYVDYMGEGVVKASDIKVSSEVEIMNPDLVLAHLSGK 135 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 DA + ME+ VSKG GY A + IG+I +DA+YSP+KKV+ VE +G + Sbjct: 136 DAKIYMEMKVSKGKGYDGANTRDHSDLAIGVIAVDAIYSPVKKVNVFVE--EQGNT---E 190 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 +L + + TD ++ E++V+LA+RILQ L +F++ + KE + + + L K Sbjct: 191 RLILDVTTDRTMMPEEAVSLAARILQTHLQLFMHMDTSAKEQGAAVANQEAGRDE-LNKS 249 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 ++ELELSVRS NCL+ I + DL +T D++++ N GRKSL EI L +MGLFL Sbjct: 250 IDELELSVRSYNCLKRAGINTVEDLCAKTMDDLMKVRNMGRKSLDEILNKLESMGLFL 307 >gi|323925205|gb|ADY11797.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 240 Score = 206 bits (524), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 103/239 (43%), Positives = 161/239 (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 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 I +++++L+++IL D L +F++ E E + + + L K +EE++ SVR+ Sbjct: 181 IVSDEALSLSAKILTDHLNLFVDLSEVAAEAETLVVKDEVKTERVLDKIIEEMDFSVRA 239 >gi|190411125|gb|ACE78317.1| RpoA [Vibrio parahaemolyticus] Length = 244 Score = 206 bits (524), Expect = 4e-51, Method: Compositional matrix adjust. Identities = 107/247 (43%), Positives = 167/247 (67%), Gaps = 8/247 (3%) Query: 47 LRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVT 105 LRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T Sbjct: 1 LRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFIT 60 Query: 106 IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+ Sbjct: 181 TILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYI 237 Query: 282 GDLIQRT 288 GDL+QRT Sbjct: 238 GDLVQRT 244 >gi|302584003|gb|ADL57236.1| RNA polymerase A [Paralactobacillus selangorensis] Length = 222 Score = 206 bits (523), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 99/206 (48%), Positives = 145/206 (70%) 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 EDSVALASRILQDQLGMFINFEEPKK 239 ++++LA++IL + L +F+N + K Sbjct: 181 REAISLAAKILTEHLAIFVNLTDEAK 206 >gi|168805077|gb|ACA28617.1| DNA-directed RNA polymerase subunit alpha [Thiomonas arsenivorans] Length = 228 Score = 206 bits (523), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 100/228 (43%), Positives = 154/228 (67%), 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 LDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSYTVESAREG 193 L + M++ V KG GYVP R ++ IG 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|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 = 206 bits (523), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 116/295 (39%), Positives = 181/295 (61%), Gaps = 20/295 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG T+GNALRRVL+S+L G A+TAV+I GV HE S++ GV ED+ +I+LN+K + Sbjct: 45 PLERGQGITVGNALRRVLLSNLEGTAVTAVRIAGVTHEFSTVPGVREDVMEILLNMKELV 104 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + + + +GPG VTA +Q +++EV+NP H I L A++ ME + +G Sbjct: 105 LRSNAPDTQVGRLVAQGPGEVTAEKLQLPSEVEVINPRHHIATLAEGAILEMEFMIGRGR 164 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY + +++ I + ID+++ P++KV+YTVE+AR GQ L+ D+L + I T+GS+T Sbjct: 165 GYRAVDYSDSKSMAIDFLQIDSVFMPVRKVNYTVEAARVGQSLEKDRLILEIWTNGSLTP 224 Query: 214 EDSVALASRILQDQLGMFINFEE------PKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +++++ A+RIL +G+F +E P+ ED +P +EEL+LSV Sbjct: 225 QEALSQAARIL---VGLFSPLQEVSFDTPPEPRQAEDNQKNQIP--------IEELQLSV 273 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ NCL+ I + DL+ TE D+L + NFG+KS E+ L LG+ LP Sbjct: 274 RAYNCLKRAQINTVADLLVYTEEDLLEIKNFGQKSAEEVVQALKNR---LGLTLP 325 >gi|328814001|gb|AEB52116.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 232 Score = 206 bits (523), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 108/231 (46%), Positives = 156/231 (67%), Gaps = 2/231 (0%) Query: 37 RGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILN+K I LK+ Sbjct: 2 RGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVTEDVTAIILNVKKIALKL 61 Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 D K + I +GP VTAGDI D+EVLNPD IC + A M +T + G GYV Sbjct: 62 ESDETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLPICTVADGAHFHMRMTANTGRGYV 121 Query: 157 PAK--HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A+ HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL++ + T+GSIT Sbjct: 122 SAEDNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDKLTLDVWTNGSITPS 181 Query: 215 DSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 ++++L+++IL D L +F+N + K + + L +EEL+L Sbjct: 182 EAISLSAKILTDHLSIFVNLTDEAKNTDVMVEKEETHKEKMLEMTIEELDL 232 >gi|119662337|emb|CAJ33157.1| RNA polymerase alpha subunit [Lactobacillus paracasei subsp. tolerans] Length = 230 Score = 205 bits (522), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 100/210 (47%), Positives = 148/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI+ ++++LA++IL + L +F+N + K Sbjct: 181 SISPREAISLAAKILTEHLDIFVNLTDEAK 210 >gi|71056951|emb|CAH59036.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] Length = 219 Score = 205 bits (522), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 100/203 (49%), Positives = 143/203 (70%) 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 VALASRILQDQLGMFINFEEPKK 239 ++L+++I+ + L +F+N + K Sbjct: 181 MSLSAKIMTEHLDIFVNLTDEAK 203 >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 = 205 bits (522), Expect = 7e-51, Method: Compositional matrix adjust. Identities = 114/307 (37%), Positives = 189/307 (61%), Gaps = 4/307 (1%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 NIE + + +E+ + PL RG+ T+GN++RRVL+SSL G++++ + IDGVLHE S Sbjct: 8 NIEILDINEEDHYGKFALY-PLERGYGTTIGNSMRRVLLSSLPGSSVSKILIDGVLHEFS 66 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 I GV ED+ +IILNIKG+N+K D + + GP +VTA DI+ +E+ NPDH Sbjct: 67 IIDGVVEDVPEIILNIKGLNVKKHSDEDVTLFLEIEGPKIVTAKDIKEDALVEIANPDHY 126 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 I ++ + + + + V+ G+GY + ++ + DPIG I ID+ ++P++KV+YTVE+ R G Sbjct: 127 IATVNDKSKLLIAMDVTNGNGYRISDDNKDDKDPIGTIAIDSSFTPVEKVNYTVENTRVG 186 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-- 251 + D+DKL + + T+G++T ++++A IL ++ F + K +E + L Sbjct: 187 ESTDFDKLIIEVWTNGTVTPQEALAEGLSILMNKFAFFKELPDKKFPPEEIETTEELAAD 246 Query: 252 -FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 N L + +EEL+LS+RS NCL+ + D+I+ EA++ + NFG+KSL E+ + Sbjct: 247 DVNEDLERTIEELDLSLRSFNCLKRAGFNTVADIIKVPEAELKIIKNFGKKSLTEVIDKI 306 Query: 311 GTMGLFL 317 +G L Sbjct: 307 HDLGFTL 313 >gi|323925187|gb|ADY11791.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] Length = 240 Score = 205 bits (521), Expect = 8e-51, Method: Compositional matrix adjust. Identities = 103/239 (43%), Positives = 160/239 (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 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 I +++++L+++IL D L +F + E E + + + L K +EE++ SVR+ Sbjct: 181 IVSDEALSLSAKILTDHLNLFXDLSEVAAEAETLVVKDEVKTERVLDKIIEEMDFSVRA 239 >gi|119668363|emb|CAK95475.1| RNA polymerase alpha subunit [Lactobacillus rhamnosus] Length = 228 Score = 205 bits (521), Expect = 9e-51, Method: Compositional matrix adjust. Identities = 99/210 (47%), Positives = 148/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI+ ++++LA++IL + L +F+N + K Sbjct: 181 SISPREAISLAAKILTEHLDIFVNLTDEAK 210 >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 = 205 bits (521), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 113/283 (39%), Positives = 179/283 (63%), Gaps = 6/283 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ HTLGNALRRVL+SS+ GAAI ++I+GVL E S + GV E +T+IILN+ Sbjct: 25 FVVEPLYRGYGHTLGNALRRVLLSSIPGAAIKGIRIEGVLSEFSVMDGVKEAVTEIILNV 84 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I +K +++T+ +GP VVTA DI +E++NP+ IC + D + +E V Sbjct: 85 KEIVVKSETAGERKMTLSVKGPKVVTAADIIPDIGLEIINPEQEICTITTDRSLDIEFLV 144 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G G+V ++ + + I +DA+Y+PI+KVSY ++ G++ D+DKL+++++TDG Sbjct: 145 DTGEGFVVSEEIERDGWVVDYIAVDAIYTPIRKVSYEIQDTMVGRMTDFDKLTLSVETDG 204 Query: 210 SITGEDSVALASRILQDQLGMFI----NFEEPKKEVKEDI--NVKSLPFNPALLKKVEEL 263 SI D+++ A +L+ L F+ E + EV+E++ S+ + L K+EEL Sbjct: 205 SIEIRDALSYAVELLKLHLDPFLEIGNKMENLRLEVEEEMENQSSSMKDDINLNIKIEEL 264 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 +L+VRS NCL+ I +G L + + ++L++ N GRKSL EI Sbjct: 265 DLTVRSFNCLKKAGIEEVGQLSKLSMNELLKIKNLGRKSLDEI 307 >gi|332144698|dbj|BAK19509.1| RNA polymerase alpha subunit [Lactobacillus sunkii] Length = 235 Score = 205 bits (521), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 108/214 (50%), Positives = 149/214 (69%), Gaps = 4/214 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EPL RG+ TLGN+LRR L+SSL GAA+T++QID VLHE S+IKGV ED+T IILN+ Sbjct: 3 VVVEPLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQIILNV 62 Query: 90 KGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K I+LK+ G D + + I GP VTAGDIQ +D+ VLNPD I + A M L Sbjct: 63 KKISLKLDGPEDEEENLEIDVIGPADVTAGDIQADSDVTVLNPDLHIATVAEGATFHMRL 122 Query: 148 TVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 T +KG GYV A R+ PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ I Sbjct: 123 TANKGRGYVSAVENKKRSSEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDI 182 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 TDGSIT ++V+LA++IL + L MF++ + K Sbjct: 183 WTDGSITPSEAVSLAAKILTEHLEMFVDLTDEAK 216 >gi|23013214|ref|ZP_00053138.1| COG0202: DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Magnetospirillum magnetotacticum MS-1] Length = 159 Score = 204 bits (520), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 99/152 (65%), Positives = 125/152 (82%), Gaps = 1/152 (0%) Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+ R GQV DYDKL+MT++T+G++T +D+VALA+RILQDQL +FINFEEP V+E+ Sbjct: 7 VENTRVGQVTDYDKLNMTVETNGAVTPDDAVALAARILQDQLQLFINFEEPTAVVEEE-K 65 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 LPFN LL+KV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+MLR NFGRKSL EI Sbjct: 66 KDELPFNKNLLRKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEMLRTPNFGRKSLNEI 125 Query: 307 KGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 K VL MGL LGM + +WPPE+IEELAKK E+ Sbjct: 126 KEVLAQMGLHLGMEIANWPPENIEELAKKLEE 157 >gi|119662349|emb|CAJ33163.1| RNA polymerase alpha subunit [Lactobacillus rhamnosus] Length = 223 Score = 204 bits (520), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 99/210 (47%), Positives = 148/210 (70%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI+ ++++LA++IL + L +F+N + K Sbjct: 181 SISPREAISLAAKILTEHLDIFVNLTDEAK 210 >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 = 204 bits (520), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 112/306 (36%), Positives = 185/306 (60%), Gaps = 7/306 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + GV E Sbjct: 17 KESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDGVKEA 76 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T+IILN+K I +K +R+++ +GP VV A DI +E++NP+ +IC + D Sbjct: 77 VTEIILNVKEIVVKAESSGERRMSLSIKGPKVVKAADIVADIGLEIVNPEQIICTVTTDR 136 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D+DKL Sbjct: 137 TLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTDFDKL 196 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI-NVKSLPFNPALLK-- 258 ++ ++TDGSI D+++ A +L+ L F+ + +++DI + P + ++ Sbjct: 197 TLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEMIEEPMDIQVIDDK 256 Query: 259 ----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + +G Sbjct: 257 SHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKMKDLG 316 Query: 315 LFLGMN 320 L N Sbjct: 317 YDLEKN 322 >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 = 204 bits (519), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 103/232 (44%), Positives = 153/232 (65%), Gaps = 7/232 (3%) Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK--- 159 +T+ K G G V AGDI D+E++NP+HVIC+L D A + M + V +G GYVPA Sbjct: 15 ITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKVERGRGYVPASARI 74 Query: 160 HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T+G++ E+++ Sbjct: 75 HTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRR 134 Query: 220 ASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIV 279 A+ IL +QL F++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Sbjct: 135 AATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIH 191 Query: 280 YMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 192 YIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 243 >gi|119668291|emb|CAK95501.1| RNA polymerase alpha subunit [Lactobacillus collinoides] Length = 209 Score = 204 bits (519), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 104/207 (50%), Positives = 148/207 (71%), Gaps = 3/207 (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 KGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYV A ++ + D PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TD Sbjct: 121 KGRGYVSADRNKAKEDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDS 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEE 236 SIT +S++LA++IL + L MF++ + Sbjct: 181 SITPSESISLAAKILTEHLAMFVDLTD 207 >gi|190411123|gb|ACE78316.1| RpoA [Vibrio parahaemolyticus] Length = 243 Score = 204 bits (519), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 106/246 (43%), Positives = 166/246 (67%), Gaps = 8/246 (3%) Query: 47 LRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVT 105 LRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T Sbjct: 1 LRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFIT 60 Query: 106 IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+ Sbjct: 181 TILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYI 237 Query: 282 GDLIQR 287 GDL+QR Sbjct: 238 GDLVQR 243 >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 = 204 bits (519), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 110/261 (42%), Positives = 169/261 (64%), Gaps = 22/261 (8%) 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 LQDQLGMFINF-----------EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 L FI+F ++P+K+V++ +++ +EEL+LSVRS NC Sbjct: 181 LIKYFQKFISFTGEYKSSDIFVDKPEKKVEKPLDM-----------TIEELDLSVRSYNC 229 Query: 273 LRGENIVYMGDLIQRTEADML 293 L+ I + +L Q+TE +M+ Sbjct: 230 LKRAGINTVQELTQKTEEEMM 250 >gi|332144692|dbj|BAK19506.1| RNA polymerase alpha subunit [Lactobacillus otakiensis] Length = 233 Score = 204 bits (519), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 108/213 (50%), Positives = 147/213 (69%), Gaps = 4/213 (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 TDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 TDGSIT ++V+LA++IL + L MF++ + K Sbjct: 181 TDGSITPSEAVSLAAKILTEHLEMFVDLTDEAK 213 >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 = 204 bits (519), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 113/308 (36%), Positives = 175/308 (56%), Gaps = 20/308 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + +PL RG+ TLGN+LRR+L+SSL G AIT+++IDG+LHE ++I GV ED+++IILN+ Sbjct: 23 FVCKPLDRGYGITLGNSLRRILLSSLEGVAITSIKIDGILHEFTTIPGVREDVSEIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFK--RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K + +K + I G TA D+ +DIE+LNP I LD DA +RM+ Sbjct: 83 KQVRMKFHKEDQMEADIIVDISGECDFTAADLNVNSDIEILNPTLHIATLDEDAHIRMQC 142 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + +G GYVP+ ++ + D IG+I ID+++SPI + Y V + R G +DYD L+M + T Sbjct: 143 HIERGKGYVPSTKNKKDTDVIGVIPIDSIFSPILRAKYEVGNVRVGNEMDYDSLTMEVLT 202 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVK------------------EDINVKS 249 DGS+T ED++A ++ IL L P + ++ E Sbjct: 203 DGSLTAEDAMAESASILSSYLEKIKQLAAPGRNLQQGKFTEDELGAGANGANAEGAGADG 262 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + ++ L+LSVR++NCL+ NI + +LI T++D+ ++ N G KS+ EI Sbjct: 263 TDMGEGGDESIDTLQLSVRASNCLKRANIYTIKELISHTKSDLGKIRNLGSKSVEEIIEK 322 Query: 310 LGTMGLFL 317 L G L Sbjct: 323 LSQFGYKL 330 >gi|71056826|emb|CAH58968.1| DNA-directed RNA polymerase alpha chain [Tetragenococcus solitarius] Length = 226 Score = 204 bits (519), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 100/210 (47%), Positives = 145/210 (69%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNI Sbjct: 5 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVAQIILNI 64 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ + K++ I GP +TAGDI +D+E+LN D IC + L+V Sbjct: 65 KGLALKLYSEEEKKLEIDITGPATITAGDIIVDSDVEILNKDMYICTVAEGTRFHARLSV 124 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GY A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ DYDKL+M + TDG Sbjct: 125 QPGRGYDQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDYDKLTMELWTDG 184 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI D+++L+++IL + L +F+N + K Sbjct: 185 SIEPLDALSLSAKILTEHLEIFVNMTDEAK 214 >gi|161513422|emb|CAP16854.1| DNA-directed RNA polymerase subunit alpha [Pediococcus damnosus] Length = 222 Score = 204 bits (518), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 100/206 (48%), Positives = 144/206 (69%), Gaps = 2/206 (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 KHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ D PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSIT ++ Sbjct: 121 DENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSITPSEA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVK 242 +L+++IL + L +F+N + K+ + Sbjct: 181 TSLSAKILTEHLALFVNLTDEAKDAE 206 >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 = 204 bits (518), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 124/318 (38%), Positives = 187/318 (58%), Gaps = 12/318 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E I P+ I + EE+ T ++ EPL RGF T+GN+LRRVL+SS+ G AITAV+I Sbjct: 4 EFIYPDKIFW-----EEKTDTYGRLVVEPLERGFGTTVGNSLRRVLLSSISGTAITAVKI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIF-KRGPGVVTAGDIQTVND 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 IEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 +E+LNPD I + D + + +E+ V +G GYVP + + +G I +DA +SP+KKV Sbjct: 119 VEILNPDQYIATITDPNKELNIEIRVERGRGYVPVEEMEAIGE-VGWILVDADFSPVKKV 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + V++ R G+ Y++L++ I T+G T + + A IL+ + N K V + Sbjct: 178 GFRVDNVRVGKKSTYERLTLEIFTNGIKTPDQCMQEAIEILKKHYELLENIFTEKPTVPQ 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + V L +L +EEL++S R+ N L+ I +GDL++ TE ++ N GRK+L Sbjct: 238 KVAVDELAEKLSL--SIEELDISQRALNSLKRIGITTIGDLVRMTEDELKSTKNIGRKAL 295 Query: 304 VEIKGVLGTMGLFLGMNL 321 EIK L +GL LGMN+ Sbjct: 296 AEIKEALHKLGLELGMNI 313 >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 = 204 bits (518), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 100/203 (49%), Positives = 143/203 (70%) 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 VALASRILQDQLGMFINFEEPKK 239 ++L+++I+ + L +F+N + K Sbjct: 181 MSLSAKIMTEHLDIFVNLTDEAK 203 >gi|119662351|emb|CAJ33164.1| RNA polymerase alpha subunit [Lactobacillus ruminis] Length = 203 Score = 204 bits (518), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 100/203 (49%), Positives = 146/203 (71%), Gaps = 2/203 (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 GYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GYV A ++ + D PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T+GSI Sbjct: 121 GYVSANENKAKADDMPIGVLAIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINF 234 T ++++L+++IL + L +F+N Sbjct: 181 TPSEAISLSAKILTEHLALFVNL 203 >gi|332144694|dbj|BAK19507.1| RNA polymerase alpha subunit [Lactobacillus parafarraginis] Length = 236 Score = 204 bits (518), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 108/213 (50%), Positives = 148/213 (69%), Gaps = 4/213 (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 TDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 TDGSIT ++V+LA++IL + L MF++ + K Sbjct: 181 TDGSITPSEAVSLAAKILTEHLEMFVDLTDEAK 213 >gi|150036782|emb|CAM98034.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. dextranicum] Length = 248 Score = 204 bits (518), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 105/247 (42%), Positives = 158/247 (63%), Gaps = 2/247 (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 SKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GY A ++ D 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 RSTNCLR 274 RS NCL+ Sbjct: 241 RSYNCLK 247 >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 = 204 bits (518), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 110/261 (42%), Positives = 168/261 (64%), Gaps = 22/261 (8%) 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 LQDQLGMFINF-----------EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 L FI+F ++P+K+V++ +++ +EEL+LSVRS NC Sbjct: 181 LIKYFQKFISFTGEYKSSDIFVDKPEKKVEKPLDM-----------TIEELDLSVRSYNC 229 Query: 273 LRGENIVYMGDLIQRTEADML 293 L+ I + +L Q+TE +M+ Sbjct: 230 LKRAGINTVQELTQKTEEEMM 250 >gi|119668289|emb|CAK95500.1| RNA polymerase alpha subunit [Lactobacillus buchneri] Length = 227 Score = 204 bits (518), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 108/211 (51%), Positives = 147/211 (69%), Gaps = 4/211 (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 GSITGEDSVALASRILQDQLGMFINFEEPKK 239 GSIT ++V+LA++IL + L MF++ + K Sbjct: 181 GSITPSEAVSLAAKILTEHLEMFVDLTDEAK 211 >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 = 204 bits (518), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 121/309 (39%), Positives = 178/309 (57%), Gaps = 20/309 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EPL RG+ TLGNALRRVL+SS+ GA+I+AV+I+GVLHE S++ GV ED+ ++++N+ Sbjct: 31 IVLEPLERGYGITLGNALRRVLLSSIPGASISAVRIEGVLHEFSTVPGVREDVIELLVNL 90 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L+ K + + GP VTA DIQ D+E ++P+ VIC L+ + M+L V Sbjct: 91 KHVPLRCYNAELKTLHLEVEGPKTVTAADIQPDADVEYVDPEAVICTLEAGHRISMDLYV 150 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY R P+ + IDA++SP K+V Y V+ R GQ DYD+L + + T+G Sbjct: 151 EQGIGYAAIDRPRPAYLPVDALLIDAVFSPAKRVKYEVQDVRMGQRTDYDRLVLEVWTNG 210 Query: 210 SITGEDSVALASRILQDQLGMFINF------------EEPKKEVKEDINVKSLP------ 251 +T +++VA AS IL+ N E+ E + + P Sbjct: 211 VVTPKEAVAKASAILEGYFRSLTNVLSSRPSQGGALPEDAISSEGEGVPAEGDPAEEPVR 270 Query: 252 -FNPALLKK-VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 F ALL + V +LELSVRS NCL + +GDL+ R D+L++ N G+ SL EI+ Sbjct: 271 FFENALLARPVRDLELSVRSENCLLRGGVHVIGDLVGRAREDLLKIRNLGKISLKEIEEK 330 Query: 310 LGTMGLFLG 318 L GL LG Sbjct: 331 LEKFGLSLG 339 >gi|119662335|emb|CAJ33156.1| RNA polymerase alpha subunit [Lactobacillus paracasei subsp. paracasei] Length = 213 Score = 204 bits (518), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 100/210 (47%), Positives = 148/210 (70%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+T IILNIK + Sbjct: 2 EPLERGYGTTLGNSLRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDVTQIILNIKKL 61 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LKM+ D K + I GP VTA DI D+EVLNP+ IC + + +TV KG Sbjct: 62 ALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTVKKG 121 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+GSI+ Sbjct: 122 RGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSIS 181 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVK 242 ++++LA++IL + L +F+N + K + Sbjct: 182 PREAISLAAKILTEHLDIFVNLTDEAKNAE 211 >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 = 203 bits (517), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 110/261 (42%), Positives = 168/261 (64%), Gaps = 22/261 (8%) 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 LQDQLGMFINF-----------EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 L FI+F ++P+K+V++ +++ +EEL+LSVRS NC Sbjct: 181 LIKYFQKFISFTGEYKSSDIFVDKPEKKVEKPLDM-----------TIEELDLSVRSYNC 229 Query: 273 LRGENIVYMGDLIQRTEADML 293 L+ I + +L Q+TE +M+ Sbjct: 230 LKRAGINTVQELTQKTEEEMM 250 >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 = 203 bits (517), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 126/322 (39%), Positives = 186/322 (57%), Gaps = 27/322 (8%) Query: 10 IKPNNIEYIVLGQEEENR--TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 I P N+ I +E++N T I P+ RG+A T+GN+LRRVL+SS+ AIT ++I G Sbjct: 14 IMPKNLR-IEEEREDDNSYFTRFILSPMERGYATTIGNSLRRVLLSSIPSMAITRLKIPG 72 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 HE I GV ED+ +IILN K + LK + ++T+ GPGV+TAGDI+T + Sbjct: 73 KYHEYDVIDGVKEDILEIILNFKKVQLKPALEFSDAVKLTLETAGPGVITAGDIKTPTGV 132 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EV+NP I L+ D+V+ +EL G G+VP E+D + +I ID ++SP+ KV++ Sbjct: 133 EVVNPSQYIATLNTDSVIYIELFAEIGRGFVPVSEMEIEHD-VEMIYIDGIFSPVLKVNF 191 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN-FEEPKKEVK-- 242 E+ R G+ DYDKL + + T SIT D++ A+ IL +F N +P + + Sbjct: 192 QTENVRVGKRTDYDKLILDVWTKKSITPSDALLRATDILIRHFEVFSNGLGKPGQGLTSS 251 Query: 243 ------------------EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDL 284 E V+ N KKVEEL+LSVRS NCL+ + I +GDL Sbjct: 252 ALKQEEEEIISEEAEVTVETPQVEEQDSNSLGAKKVEELDLSVRSLNCLKRDKINTIGDL 311 Query: 285 IQRTEADMLRMANFGRKSLVEI 306 + ++EAD+LR+ NFG KS++E+ Sbjct: 312 LDKSEADLLRIRNFGEKSMLEV 333 >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 = 203 bits (517), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 113/298 (37%), Positives = 176/298 (59%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GN LRR+L+SSL G AIT ++I GV HE ++I GV ED+T+IILN+K + Sbjct: 28 PLEPGYGITIGNPLRRILLSSLEGFAITGIKIHGVEHEFATIPGVIEDVTEIILNLKQVR 87 Query: 94 LKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K + +++T+ G AGDI + + EVLN + VIC++D +ME+T+ Sbjct: 88 FKRKVEDVEDEKLTVLINGQEAFKAGDINKFLTGFEVLNTELVICHMDPSVNFQMEITIQ 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVP+ + G I IDA+Y+PI+ V Y +E+ R DY+KL I+TDGS Sbjct: 148 KGRGYVPSTENMPAEAEAGFIPIDAIYTPIRNVKYEIENYRVEGKTDYEKLLFEIETDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 I D++ A++IL +F I+ E K E+ + + L L K+ +++LS Sbjct: 208 IAPTDALKEAAKILIHHFMLFSDEKISLESEDKYGNEEFDEEVLHMRQLLKTKLVDMDLS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ + +G+L + + D+L+ NFG+KSL E++ +L L GM++ + Sbjct: 268 VRALNCLKAAEVETLGELCRFNKNDLLKFRNFGKKSLTELEALLENNNLEFGMDVTKY 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 = 203 bits (517), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 116/314 (36%), Positives = 184/314 (58%), Gaps = 24/314 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E E + + EPL RG+ HTLGNALRRVL+SS+ GAAI ++I+GVL E S + GV E Sbjct: 17 RESEFKGQFVVEPLYRGYGHTLGNALRRVLLSSIPGAAIKGIRIEGVLSEFSVMDGVKEA 76 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T+IILN+K I +K +++T+ +GP VVTA DI +E++NP+ IC + D Sbjct: 77 VTEIILNVKEIVVKSETAGERKMTLSVKGPKVVTAADIIPDIGLEIINPEQEICTITTDR 136 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + +E V G G+V ++ + + I +DA+Y+PI+KVSY ++ G++ D+DKL Sbjct: 137 ELDIEFLVDTGEGFVVSEEIERDGWAVDYIAVDAIYTPIRKVSYDIQDTMVGRMTDFDKL 196 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINF---------------EEPKKEVKEDIN 246 +++++TDGSI D+++ A +L+ L F+ E +++DIN Sbjct: 197 TLSVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRVEVEEEVENQSSSIRDDIN 256 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + K+EEL+L+VRS NCL+ I +G L + + ++L++ N GRKSL EI Sbjct: 257 LNI---------KIEELDLTVRSFNCLKKAGIEEVGQLSKLSMNELLKIKNLGRKSLDEI 307 Query: 307 KGVLGTMGLFLGMN 320 + +G L N Sbjct: 308 LEKMKELGYDLAQN 321 >gi|119662849|emb|CAJ33217.1| RNA polymerase alpha subunit [Lactobacillus suebicus] Length = 219 Score = 203 bits (516), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 101/205 (49%), Positives = 149/205 (72%), Gaps = 2/205 (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 PAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A ++ D PIG++ ID++Y+PI++V+Y VE+AR GQ DYDKL++ + TDGSIT Sbjct: 121 SADDNKARMDDLPIGVLPIDSIYTPIERVNYNVENARVGQRNDYDKLTLDVWTDGSITPS 180 Query: 215 DSVALASRILQDQLGMFINFEEPKK 239 +S++LA++IL + L MF++ + K Sbjct: 181 ESISLAAKILTEHLSMFVDLTDTAK 205 >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 = 203 bits (516), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 115/298 (38%), Positives = 186/298 (62%), Gaps = 7/298 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G+ T+GN+LRRVL+SSL G AIT+++I+GV +E + + GV ED+T+IIL +K + Sbjct: 28 PLESGYGITIGNSLRRVLLSSLEGYAITSIKIEGVSNEFAVVPGVVEDVTNIILKLKQVR 87 Query: 94 LK-MSGD-SHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 K ++ D ++RV + A DI + ++ EV+N D +I +LD A + +ELT+ Sbjct: 88 FKRINKDFEYERVVLTISETDKFKADDISKRLSGFEVVNSDFIIAHLDKSANLNIELTIR 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVP++ + ++D + I ID++++PI V Y VES R Q DY+KL++ I TDGS Sbjct: 148 KGRGYVPSEENYRDSDDVNQIAIDSVFTPIVNVKYNVESFRVEQKTDYEKLTIEIMTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 + + ++ AS IL L +F I E+ + E +D + L L K+ ++ELS Sbjct: 208 VCPKIALKSASDILIQHLELFSEGRIRLEKDEIETVKDFDEDVLRIRQLLKSKLSDMELS 267 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 VR+ NCL+ E I + DL++ ++D+++ NFG+KSLVE+ +L + L GM++ + Sbjct: 268 VRALNCLKAEAIETLEDLVKYQKSDLMKFRNFGKKSLVELDELLAKLNLTFGMDIEKY 325 >gi|332144696|dbj|BAK19508.1| RNA polymerase alpha subunit [Lactobacillus rapi] Length = 230 Score = 203 bits (516), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 107/214 (50%), Positives = 149/214 (69%), Gaps = 4/214 (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 DTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 TDGSIT ++V+LA++IL + L MF++ + K Sbjct: 181 WTDGSITPSEAVSLAAKILTEHLEMFVDLTDEAK 214 >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 = 203 bits (516), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 126/332 (37%), Positives = 186/332 (56%), Gaps = 22/332 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 IAEPL RG HTLGNALRR L+ L AI + + GVLHE +I+GV ED+T+IILN+ Sbjct: 35 FIAEPLERGMGHTLGNALRRALLIGLEAPAIISFAMTGVLHEYMAIEGVIEDVTNIILNL 94 Query: 90 KGINLK---MSGDSHKRVTIFKRGPGVVTAGDIQTVN--------------DIEVLNPDH 132 KG LK M S R T + + A D+ N D E +NPD Sbjct: 95 KGALLKKYPMQDSSLGRTTQVLKASISIDASDLAAANGQKEVTLQDLLQEGDFEAVNPDQ 154 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 VI + + + L ++ G GY P++ E+ + I +DA +SP+ V+Y VE R Sbjct: 155 VIFTVTQPIQLEVVLRIAFGRGYTPSERIVLEDKGVYEIVLDAAFSPVTLVNYFVEDTRV 214 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 GQ D+D+L + ++TDG +T ++++A +++IL +F N +E K +E I+++ Sbjct: 215 GQDTDFDRLVLIVETDGRVTPKEALAFSTQILTKHFSIFENMDEKKIVFEEAISIEKENK 274 Query: 253 NPALLK---KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L K + E+ELSVRSTNCL NI +G+L+ E +L+ NFG+KSL EIK Sbjct: 275 DDILHKLILGINEIELSVRSTNCLSNANIETIGELVIMPEPRLLQFRNFGKKSLCEIKNK 334 Query: 310 LGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 L M L LGM+L + ++++E K Y +K Sbjct: 335 LKEMKLELGMDLTQFGVGLDNVKEKMKWYAEK 366 >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 = 203 bits (516), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 126/332 (37%), Positives = 186/332 (56%), Gaps = 22/332 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 IAEPL RG HTLGNALRR L+ L AI + + GVLHE +I+GV ED+T+IILN+ Sbjct: 35 FIAEPLERGMGHTLGNALRRALLIGLEAPAIISFAMTGVLHEYMAIEGVIEDVTNIILNL 94 Query: 90 KGINLK---MSGDSHKRVTIFKRGPGVVTAGDIQTVN--------------DIEVLNPDH 132 KG LK M S R T + + A D+ N D E +NPD Sbjct: 95 KGALLKKYPMQDSSLGRTTQVLKASISIDASDLAAANGQKEVTLQDLLQEGDFEAVNPDQ 154 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 VI + + + L ++ G GY P++ E+ + I +DA +SP+ V+Y VE R Sbjct: 155 VIFTVTQPIQLEVVLRIAFGRGYTPSERIVLEDKGVYEIVLDAAFSPVTLVNYFVEDTRV 214 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 GQ D+D+L + ++TDG +T ++++A +++IL +F N +E K +E I+++ Sbjct: 215 GQDTDFDRLVLIVETDGRVTPKEALAFSTQILTKHFSIFENMDEKKIVFEEAISIEKENK 274 Query: 253 NPALLK---KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L K + E+ELSVRSTNCL NI +G+L+ E +L+ NFG+KSL EIK Sbjct: 275 DDILHKLILGINEIELSVRSTNCLSNANIETIGELVIMPEPRLLQFRNFGKKSLCEIKNK 334 Query: 310 LGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 L M L LGM+L + ++++E K Y +K Sbjct: 335 LKEMKLELGMDLTQFGVGLDNVKEKMKWYAEK 366 >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 = 202 bits (515), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 112/292 (38%), Positives = 177/292 (60%), Gaps = 4/292 (1%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 A P RG+ HT+GN+LRR+L+SSL GAAIT+V+I G HE + +KGV ED+ I+LN+K Sbjct: 28 AGPFERGYGHTIGNSLRRILLSSLEGAAITSVKIAGAFHEFAVLKGVKEDVAQIVLNLKR 87 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 I +K+ + +++ + + G VTA DI+ +E++NP+ I N+D + MEL S Sbjct: 88 IKVKLHSEGPEKLYLKVKKAGTVTAKDIEANASVEIMNPEQEIANIDNGTTLEMELEASL 147 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GYV A+ ++ G I +D+L+SPI KV+Y VE+ R Q L+YDKL + I TDGS+ Sbjct: 148 GKGYVLAEEMKSNGYSSGTIILDSLFSPIIKVNYEVENTRVEQTLNYDKLIIEIWTDGSV 207 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTN 271 + +D++ ++ IL+ L +F + +EV D + + L K V +++SV++ Sbjct: 208 SPKDALMRSAEILRKILVIFTDNAFKTEEVSADKEEQ----DGILGKPVSIMDISVKTLK 263 Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 L+ I + DL++ E D+L N ++S EIK + +GL LGM + D Sbjct: 264 SLKSAGIETVEDLVKIKEEDLLNFNNLSKRSCEEIKNRVKELGLSLGMKIED 315 >gi|332181991|gb|AEE17679.1| DNA-directed RNA polymerase subunit alpha [Treponema brennaborense DSM 12168] Length = 350 Score = 202 bits (515), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 130/335 (38%), Positives = 197/335 (58%), Gaps = 23/335 (6%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M +KN + KP I + L N A P GF T+GN LRRVL+SS++G A Sbjct: 1 MARKNLLKGFKKPKGITFEQL-DSNPNYGKFTAYPFETGFGTTVGNTLRRVLLSSIQGYA 59 Query: 60 ITAVQI-----DGVLHEISS----IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK-R 109 IT+V+I D V H ISS 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 GPGTITSNDF-SREGLEILSKDMLVFTMMENAHLEFEVQVDLGRGYTPAEVNEHYIEIVG 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 MFINFEEPK----KEVKE-DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDL 284 +F+NF + + E+ E D ++ L P V+ELELSVRS+NCL+ NI +G+L Sbjct: 239 IFVNFNDSEIGHDGELDEGDERIRQLLNTP-----VDELELSVRSSNCLKNANIRTIGEL 293 Query: 285 IQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 ++TE D+ + NFG+KSL EIK L L LGM Sbjct: 294 TKKTEDDIAKTRNFGKKSLTEIKEKLLEWNLNLGM 328 >gi|295111400|emb|CBL28150.1| DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type [Synergistetes bacterium SGP1] Length = 333 Score = 202 bits (515), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 121/323 (37%), Positives = 191/323 (59%), Gaps = 19/323 (5%) Query: 8 ELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E+++P VL EE T + EPL RG+ TLGNALRRVL+SS+RGAAIT+V+I Sbjct: 6 EILRP------VLKLEENTPTYGRLYLEPLERGYGMTLGNALRRVLLSSIRGAAITSVRI 59 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGVLHE S++ GV ED+ +I++N+K I ++ + V++ G+VTAGDI +I Sbjct: 60 DGVLHEFSTVPGVREDVMEILMNLKHIPVRSKSKEVRVVSLDVERAGLVTAGDIPENGEI 119 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E ++P+ IC ++ A + MEL + +G GY+ A+ R P+ + DA++SP+ +V+Y Sbjct: 120 EFIDPNAKICTMEEGAHLSMELYIEQGTGYLSAERPRPAYLPVDALLTDAIFSPVLRVNY 179 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF---INFEEPKK--- 239 VE+AR GQ D+++L+M + T+G I + +V A++I++ + P Sbjct: 180 GVEAARVGQRTDFERLAMDVWTNGIIAPDAAVGEAAQIIEKCFSYIVASVGQAGPDGVGG 239 Query: 240 -----EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 ++ D + L + V ELELS+RS NCL + +GDL+Q++ D+L+ Sbjct: 240 GAYDIDLGADRRIGPAGNEELLARPVRELELSIRSENCLLRGGVQTIGDLLQKSREDLLK 299 Query: 295 MANFGRKSLVEIKGVLGTMGLFL 317 + N G+ SL EI+ L + GL L Sbjct: 300 IRNLGKISLTEIEEKLESAGLKL 322 >gi|291514968|emb|CBK64178.1| DNA-directed RNA polymerase subunit alpha [Alistipes shahii WAL 8301] Length = 317 Score = 202 bits (515), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 117/302 (38%), Positives = 185/302 (61%), Gaps = 15/302 (4%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT V++ GV HE ++I GV ED+ +IILN+K + Sbjct: 15 PLEPGFGMTVGNALRRILLSSLEGYAITTVKVAGVDHEFAAIPGVMEDMLNIILNLKQVR 74 Query: 94 LKMSGDSH--KRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + D+ ++V+I G +TAG I ++ +VLNPD VIC+L ++M LT+ Sbjct: 75 FIRTVDNQDAEKVSINVAGVTELTAGYISNYLSFFKVLNPDLVICHLAPGTKMQMTLTIG 134 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ + G + ID++++PIK V Y++E+ R Q DY+KL++ I TDGS Sbjct: 135 KGRGYVPAEENAPAESEFGTLPIDSIFTPIKNVKYSIENYRVEQKTDYEKLNLEITTDGS 194 Query: 211 ITGEDSVALASRILQDQLGMF------INFEEPK--KEVKEDINVKSLPFNPALLKKVEE 262 I ++++ A++IL +F +N E+ +E ED+ L L K+ + Sbjct: 195 IHPKEALKEAAKILIQHFMLFSDEKITVNMEDTNGAEEFDEDV----LHMRQLLKTKLSD 250 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 +LSVR+ NCL+ ++ +GDL++ D+L+ NFG+KSL E+ +L ++ L GM++ Sbjct: 251 QDLSVRALNCLKAADVDTVGDLVKLNRNDLLKFRNFGKKSLTELDELLTSLNLKFGMDVS 310 Query: 323 DW 324 + Sbjct: 311 IY 312 >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 = 202 bits (515), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 126/332 (37%), Positives = 186/332 (56%), Gaps = 22/332 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 IAEPL RG HTLGNALRR L+ L AI + + GVLHE +I+GV ED+T+IILN+ Sbjct: 52 FIAEPLERGMGHTLGNALRRALLIGLEAPAIISFAMTGVLHEYMAIEGVIEDVTNIILNL 111 Query: 90 KGINLK---MSGDSHKRVTIFKRGPGVVTAGDIQTVN--------------DIEVLNPDH 132 KG LK M S R T + + A D+ N D E +NPD Sbjct: 112 KGALLKKYPMQDSSLGRTTQVLKASISIDASDLAAANGQKEVTLQDLLQEGDFEAVNPDQ 171 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 VI + + + L ++ G GY P++ E+ + I +DA +SP+ V+Y VE R Sbjct: 172 VIFTVTQPIQLEVVLRIAFGRGYTPSERIVLEDKGVYEIVLDAAFSPVTLVNYFVEDTRV 231 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 GQ D+D+L + ++TDG +T ++++A +++IL +F N +E K +E I+++ Sbjct: 232 GQDTDFDRLVLIVETDGRVTPKEALAFSTQILTKHFSIFENMDEKKIVFEEAISIEKENK 291 Query: 253 NPALLK---KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L K + E+ELSVRSTNCL NI +G+L+ E +L+ NFG+KSL EIK Sbjct: 292 DDILHKLILGINEIELSVRSTNCLSNANIETIGELVIMPEPRLLQFRNFGKKSLCEIKNK 351 Query: 310 LGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 L M L LGM+L + ++++E K Y +K Sbjct: 352 LKEMKLELGMDLTQFGVGLDNVKEKMKWYAEK 383 >gi|269302410|gb|ACZ32510.1| DNA-directed RNA polymerase, alpha subunit [Chlamydophila pneumoniae LPCoLN] Length = 374 Score = 202 bits (515), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 126/332 (37%), Positives = 186/332 (56%), Gaps = 22/332 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 IAEPL RG HTLGNALRR L+ L AI + + GVLHE +I+GV ED+T+IILN+ Sbjct: 35 FIAEPLERGMGHTLGNALRRALLIGLEAPAIISFAMTGVLHEYMAIEGVIEDVTNIILNL 94 Query: 90 KGINLK---MSGDSHKRVTIFKRGPGVVTAGDIQTVN--------------DIEVLNPDH 132 KG LK M S R T + + A D+ N D E +NPD Sbjct: 95 KGALLKKYPMQDSSLGRTTQVLKASISIDASDLAAANGQKEVTLQDLLQEGDFEAVNPDQ 154 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 VI + + + L ++ G GY P++ E+ + I +DA +SP+ V+Y VE R Sbjct: 155 VIFTVTQPIQLEVVLRIAFGRGYTPSERIVLEDKGVYEIILDAAFSPVTLVNYFVEDTRV 214 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 GQ D+D+L + ++TDG +T ++++A +++IL +F N +E K +E I+++ Sbjct: 215 GQDTDFDRLVLIVETDGRVTPKEALAFSTQILTKHFSIFENMDEKKIVFEEAISIEKENK 274 Query: 253 NPALLK---KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L K + E+ELSVRSTNCL NI +G+L+ E +L+ NFG+KSL EIK Sbjct: 275 DDILHKLILGINEIELSVRSTNCLSNANIETIGELVIMPEPRLLQFRNFGKKSLCEIKNK 334 Query: 310 LGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 L M L LGM+L + ++++E K Y +K Sbjct: 335 LKEMKLELGMDLTQFGVGLDNVKEKMKWYAEK 366 >gi|289803215|ref|ZP_06533844.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 222 Score = 202 bits (515), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 103/222 (46%), Positives = 150/222 (67%), Gaps = 9/222 (4%) 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 GMFINFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 F++ + ++ EVKE+ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QR Sbjct: 122 EAFVDLRDVRQPEVKEE----KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQR 177 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 TE ++L+ N G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 178 TEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASI 219 >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 = 202 bits (514), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 112/306 (36%), Positives = 185/306 (60%), Gaps = 7/306 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + GV E Sbjct: 17 KESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDGVKEA 76 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T+IILN+K I +K +R+++ +GP VV A DI +E++NP+ VIC + D Sbjct: 77 VTEIILNVKEIVVKAESSGERRMSLSIKGPKVVKAADIVADIGLEIVNPEQVICTVTTDR 136 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + +E V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D+DKL Sbjct: 137 TLDIEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTDFDKL 196 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI-NVKSLPFNPALLK-- 258 ++ ++TDGSI D+++ A +L+ L F+ + +++DI + P + ++ Sbjct: 197 TLNVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRDDIEEMIEEPMDIQVIDDK 256 Query: 259 ----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + +G Sbjct: 257 SHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKMKDLG 316 Query: 315 LFLGMN 320 L N Sbjct: 317 YDLEKN 322 >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 = 202 bits (514), Expect = 6e-50, Method: Compositional matrix adjust. Identities = 111/315 (35%), Positives = 189/315 (60%), Gaps = 6/315 (1%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 E + + + ++ L +PL +G+ T+GNALRR+L+SSL G AIT ++I GVLHE S++ Sbjct: 10 EKVAMEKADDFHGLFTFKPLEKGYGVTVGNALRRILLSSLEGYAITGIKIPGVLHEFSAV 69 Query: 76 KGVHEDLTDIILNIKGINLK-MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHV 133 +GV ED++++ILN+K + K ++ + ++ I + AGDI + E+LNPD + Sbjct: 70 EGVVEDVSELILNLKMVRFKKIAETADNKINISLKNTKEFKAGDINKFTTAFEILNPDLL 129 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 IC++D +ELT+ KG GYV ++ + + I ID++++PIK V Y+VE+ R Sbjct: 130 ICHMDESINFEIELTIEKGRGYVSSEENTLVDQVADYIAIDSIFTPIKNVKYSVENTRVE 189 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKS 249 Q DY++L + I+TDGSI E ++ A+ IL +F + + + E ++ + Sbjct: 190 QKTDYEQLVLDIETDGSIHPEVALKGAANILIKHFMLFSDQNMVLDAGGSDEPEAVDEEM 249 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L L + +L+LSVR+ NCL+ ++ +GDL+ +DM++ NFG+KSL E++ + Sbjct: 250 LHMRKLLKTALNDLDLSVRAYNCLKAADVKTLGDLVALEISDMMKFRNFGKKSLAELEQL 309 Query: 310 LGTMGLFLGMNLPDW 324 + GL GM+L + Sbjct: 310 VADKGLTFGMDLSKY 324 >gi|71056937|emb|CAH59027.1| DNA-directed RNA polymerase alpha chain [Enterococcus malodoratus] Length = 221 Score = 202 bits (514), Expect = 6e-50, Method: Compositional matrix adjust. Identities = 99/201 (49%), Positives = 141/201 (70%) 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 LASRILQDQLGMFINFEEPKK 239 LA++IL + L +F+N + K Sbjct: 181 LAAKILTEHLDIFVNLTDEAK 201 >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 = 202 bits (514), Expect = 6e-50, Method: Compositional matrix adjust. Identities = 112/306 (36%), Positives = 185/306 (60%), Gaps = 7/306 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + GV E Sbjct: 33 KESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDGVKEA 92 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T+IILN+K I +K +R+++ +GP VV A DI +E++NP+ VIC + D Sbjct: 93 VTEIILNVKEIVVKAESSGERRMSLSIKGPKVVKAADIVADIGLEIVNPEQVICTVTTDR 152 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + +E V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D+DKL Sbjct: 153 TLDIEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTDFDKL 212 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI-NVKSLPFNPALLK-- 258 ++ ++TDGSI D+++ A +L+ L F+ + +++DI + P + ++ Sbjct: 213 TLNVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRDDIEEMIEEPMDIQVIDDK 272 Query: 259 ----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + +G Sbjct: 273 SHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKMKDLG 332 Query: 315 LFLGMN 320 L N Sbjct: 333 YDLEKN 338 >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 = 202 bits (514), Expect = 6e-50, Method: Compositional matrix adjust. Identities = 112/306 (36%), Positives = 185/306 (60%), Gaps = 7/306 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + GV E Sbjct: 33 KESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDGVKEA 92 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T+IILN+K I +K +R+++ +GP VV A DI +E++NP+ VIC + D Sbjct: 93 VTEIILNVKEIVVKAESSGERRMSLSIKGPKVVKAADIVADIGLEIVNPEQVICTVTTDR 152 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + +E V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D+DKL Sbjct: 153 ALDIEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTDFDKL 212 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI-NVKSLPFNPALLK-- 258 ++ ++TDGSI D+++ A +L+ L F+ + +++DI + P + ++ Sbjct: 213 TLNVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRDDIEEMIEEPMDIQVIDDK 272 Query: 259 ----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + +G Sbjct: 273 SHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKMKDLG 332 Query: 315 LFLGMN 320 L N Sbjct: 333 YDLEKN 338 >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 = 202 bits (513), Expect = 7e-50, Method: Compositional matrix adjust. Identities = 102/221 (46%), Positives = 146/221 (66%), Gaps = 4/221 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDGVLH Sbjct: 3 KPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLH 58 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++VLNP Sbjct: 59 EFSTVPGVREDVTKIILNLKKLELKSLSDEQKVIELDVEGPATVTADDLKVDADVQVLNP 118 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D IC + + MEL V G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES Sbjct: 119 DQYICTIAEGGHLHMELAVKNGRGYVTASDNKSDDMPIGVIPVDSLFSPIKKVNYQVEST 178 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 R G+ D+DKL+ I TDGSI D+++ A++IL + +F Sbjct: 179 RVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEHFKVF 219 >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 = 202 bits (513), Expect = 7e-50, Method: Compositional matrix adjust. Identities = 102/221 (46%), Positives = 146/221 (66%), Gaps = 4/221 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDGVLH Sbjct: 3 KPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLH 58 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++VLNP Sbjct: 59 EFSTVPGVREDVTKIILNLKKLELKSLSDEQKVIELDVEGPATVTADDLKVDADVQVLNP 118 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D IC + + MEL V G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES Sbjct: 119 DQYICTIAEGGHLHMELAVKNGRGYVTASDNKSDDMPIGVIPVDSLFSPIKKVNYQVEST 178 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 R G+ D+DKL+ I TDGSI D+++ A++IL + +F Sbjct: 179 RVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEHFKVF 219 >gi|108792407|emb|CAJ33136.1| RNA polymerase alpha subunit [Lactobacillus acidipiscis] Length = 224 Score = 202 bits (513), Expect = 7e-50, Method: Compositional matrix adjust. Identities = 102/208 (49%), Positives = 148/208 (71%), Gaps = 2/208 (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 GYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GYV A + +TE+ PIG++ ID++Y+PI++V+Y VE R GQ D+DKL++ + T+GSI Sbjct: 121 GYVSANENKAKTEDMPIGVLAIDSIYTPIERVNYQVEKTRVGQKSDFDKLTLDVWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKK 239 T ++++L+++IL + L +F++ + K Sbjct: 181 TPSEAISLSAKILTEHLTLFVDLTDEAK 208 >gi|332144690|dbj|BAK19505.1| RNA polymerase alpha subunit [Lactobacillus kisonensis] Length = 232 Score = 202 bits (513), Expect = 8e-50, Method: Compositional matrix adjust. Identities = 107/211 (50%), Positives = 147/211 (69%), Gaps = 4/211 (1%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR L+SSL GAA+T++QID VLHE S+IKGV ED+T IILN+K I Sbjct: 2 EPLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQIILNVKKI 61 Query: 93 NLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 +LK+ G D + + I GP VTAGDIQ +D+ VLNPD I + A M LT + Sbjct: 62 SLKLDGPEDEEENLEIDVIGPADVTAGDIQGDSDVTVLNPDLHIATVADGATFHMRLTAN 121 Query: 151 KGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 KG GYV A R+ PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ + TD Sbjct: 122 KGRGYVSAVENKKRSSEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDVWTD 181 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKK 239 GSIT ++V+LA++IL + L MF++ + K Sbjct: 182 GSITPSEAVSLAAKILTEHLEMFVDLTDEAK 212 >gi|153799478|gb|ABS50514.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 240 Score = 202 bits (513), Expect = 8e-50, Method: Compositional matrix adjust. Identities = 102/221 (46%), Positives = 146/221 (66%), Gaps = 4/221 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDGVLH Sbjct: 3 KPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLH 58 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++VLNP Sbjct: 59 EFSTVPGVREDVTKIILNLKKLELKSLSDEQKVIELDVEGPATVTADDLKVDADVQVLNP 118 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D IC + + MEL V G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES Sbjct: 119 DQYICTIAEGGHLHMELAVKNGRGYVTASDNKSDDMPIGVIPVDSLFSPIKKVNYQVEST 178 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 R G+ D+DKL+ I TDGSI D+++ A++IL + +F Sbjct: 179 RVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEHFKVF 219 >gi|153799484|gb|ABS50517.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 240 Score = 202 bits (513), Expect = 8e-50, Method: Compositional matrix adjust. Identities = 102/221 (46%), Positives = 146/221 (66%), Gaps = 4/221 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDGVLH Sbjct: 3 KPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLH 58 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++VLNP Sbjct: 59 EFSTVPGVREDVTKIILNLKKLELKSLSDEQKVIELDVEGPATVTADDLKVDADVQVLNP 118 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D IC + + MEL V G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES Sbjct: 119 DQYICTIAEGGHLHMELAVKNGRGYVTASDNKSDDMPIGVIPVDSLFSPIKKVNYQVEST 178 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 R G+ D+DKL+ I TDGSI D+++ A++IL + +F Sbjct: 179 RVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEHFKVF 219 >gi|153799470|gb|ABS50510.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 240 Score = 202 bits (513), Expect = 9e-50, Method: Compositional matrix adjust. Identities = 102/221 (46%), Positives = 146/221 (66%), Gaps = 4/221 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDGVLH Sbjct: 3 KPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLH 58 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++VLNP Sbjct: 59 EFSTVPGVREDVTKIILNLKKLELKSLSDEQKVIELDVEGPATVTADDLKVDADVQVLNP 118 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D IC + + MEL V G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES Sbjct: 119 DQYICTIAEGGHLHMELAVKNGRGYVTASDNKSDDMPIGVIPVDSLFSPIKKVNYQVEST 178 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 R G+ D+DKL+ I TDGSI D+++ A++IL + +F Sbjct: 179 RVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEHFKVF 219 >gi|161513442|emb|CAP16864.1| DNA-directed RNA polymerase subunit alpha [Pediococcus inopinatus] Length = 223 Score = 201 bits (512), Expect = 9e-50, Method: Compositional matrix adjust. Identities = 98/206 (47%), Positives = 144/206 (69%), Gaps = 2/206 (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 KHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ D PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ ++ Sbjct: 121 DENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSISPSEA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVK 242 +L+++IL + L +F+N + K+ + Sbjct: 181 TSLSAKILTEHLALFVNLTDEAKDAE 206 >gi|332144682|dbj|BAK19501.1| RNA polymerase alpha subunit [Lactobacillus buchneri] Length = 226 Score = 201 bits (512), Expect = 9e-50, Method: Compositional matrix adjust. Identities = 107/210 (50%), Positives = 146/210 (69%), Gaps = 4/210 (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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SIT ++V+LA++IL + L MF++ + K Sbjct: 181 SITPSEAVSLAAKILTEHLEMFVDLTDEAK 210 >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 = 201 bits (512), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 119/293 (40%), Positives = 184/293 (62%), Gaps = 17/293 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE S+I G+ ED+TDIILN+ Sbjct: 23 FVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHEFSTIPGIREDVTDIILNL 82 Query: 90 KGINLKMSGDSHKRVTI---FKRGPGVVTAGDI--QTVNDIEVLNPDHVICNLDVDAVVR 144 K + +K+ D+ + + F++ GV+TA D+ Q ++EVLNP+ VI +D A + Sbjct: 83 KQLCIKLEEDAEWPLEVHFDFQKD-GVLTAADLAEQFPPEVEVLNPELVIATMDETAHLV 141 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V R G +D+DKL++ Sbjct: 142 MDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEVSDVRVGNEMDFDKLTLE 201 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK-EDINVKSLPFNPALLK----- 258 + TDGSIT D+VA ++ I+ LG F V+ +D N++ +P Sbjct: 202 VWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSTSVVELDDQNLEGDVVDPTPQDVQEDD 261 Query: 259 -----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 ++ELELSVR+ NCL+ I + DL+ +T D+ ++ N G+KS+ EI Sbjct: 262 GPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGKVRNLGKKSIDEI 314 >gi|161511719|emb|CAP16870.1| DNA-directed RNA polymerase subunit alpha [Pediococcus acidilactici] Length = 235 Score = 201 bits (512), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 109/235 (46%), Positives = 151/235 (64%), 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 GYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 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|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 = 201 bits (511), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 119/293 (40%), Positives = 184/293 (62%), Gaps = 17/293 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE S+I G+ ED+TDIILN+ Sbjct: 23 FVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHEFSTIPGIREDVTDIILNL 82 Query: 90 KGINLKMSGDSHKRVTI---FKRGPGVVTAGDI--QTVNDIEVLNPDHVICNLDVDAVVR 144 K + +K+ D+ + + F++ GV+TA D+ Q ++EVLNP+ VI +D A + Sbjct: 83 KQLCIKLEEDAEWPLEVHFDFQKD-GVLTAADLAEQFPPEVEVLNPELVIATMDETAHLV 141 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V R G +D+DKL++ Sbjct: 142 MDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEVSDVRVGNEMDFDKLTLE 201 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK-EDINVKSLPFNPALLK----- 258 + TDGSIT D+VA ++ I+ LG F V+ +D N++ +P Sbjct: 202 VWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSTSVVELDDQNLEGDVVDPTPQDVQEDD 261 Query: 259 -----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 ++ELELSVR+ NCL+ I + DL+ +T D+ ++ N G+KS+ EI Sbjct: 262 GPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGKVRNLGKKSIDEI 314 >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 = 201 bits (511), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 105/232 (45%), Positives = 152/232 (65%), Gaps = 6/232 (2%) Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 +++ K G GVVTA DI+ +D+E++NP HVI +L + M++ V +G GYVP + Sbjct: 1 MSLRKEGEGVVTAADIELPHDVEIINPGHVIASLSAGGKLDMQIKVEQGRGYVPGNVRKF 60 Query: 164 ENDP---IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 ++ IG + +DA ++P+++VSY VESAR Q D DKL M I+T+G I+ E+++ + Sbjct: 61 GDESSKVIGRVVLDASFAPVRRVSYAVESARVEQRTDLDKLVMNIETNGVISPEEAIRQS 120 Query: 221 SRILQDQLGMFINFEEPKKEVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIV 279 +RIL DQL +F E E + P +P LL+ V++LEL+VRS NCL+ ENI Sbjct: 121 ARILVDQLSVFAALE--GTESAAEAAAARAPQIDPILLRPVDDLELTVRSANCLKAENIY 178 Query: 280 YMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 Y+GDLIQRTE ++L+ N GRKSL EIK VL + GL LGM L +WPP +E+ Sbjct: 179 YIGDLIQRTENELLKTPNLGRKSLNEIKEVLASRGLTLGMKLENWPPAGLEK 230 >gi|295809866|emb|CBL85109.1| alpha subunit of RNA polymerase [Vibrio tapetis] Length = 247 Score = 201 bits (511), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 105/248 (42%), Positives = 164/248 (66%), Gaps = 8/248 (3%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVT 115 G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +K++ G +T+ K G G V Sbjct: 3 GCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVKVAEGKDEVFITLNKSGSGPVV 62 Query: 116 AGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLI 171 AGDI D+E+ NP+HVIC+L D +A + M + V +G GYVPA H + PIG + Sbjct: 63 AGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASSRIHTEEDERPIGRL 122 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ ++ IL +QL F Sbjct: 123 LVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRSATILAEQLDAF 182 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 ++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE + Sbjct: 183 VDLRDIRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVE 239 Query: 292 MLRMANFG 299 +L+ N G Sbjct: 240 LLKTPNLG 247 >gi|332144684|dbj|BAK19502.1| RNA polymerase alpha subunit [Lactobacillus diolivorans] Length = 216 Score = 201 bits (511), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 107/210 (50%), Positives = 146/210 (69%), Gaps = 4/210 (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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SIT ++V+LA++IL + L MF++ + K Sbjct: 181 SITPSEAVSLAAKILTEHLEMFVDLTDEAK 210 >gi|313158337|gb|EFR57739.1| DNA-directed RNA polymerase, alpha subunit [Alistipes sp. HGB5] Length = 330 Score = 201 bits (511), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 117/302 (38%), Positives = 184/302 (60%), Gaps = 15/302 (4%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT V++ GV HE ++I GV ED+ IILN+K + Sbjct: 28 PLEPGFGMTVGNALRRILLSSLEGYAITTVKVAGVDHEFAAIPGVMEDMLKIILNLKQVR 87 Query: 94 LKMSGDSH--KRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + D+ ++V+I G +TAG I ++ +VLNPD VIC+L ++M LT+ Sbjct: 88 FIRTVDNQDAEKVSINVAGVTELTAGYISNYLSFFKVLNPDLVICHLAPGTKMQMTLTIG 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ + G + ID++++PIK V Y++E+ R Q DY+KL++ I TDGS Sbjct: 148 KGRGYVPAEENTPAECEFGTLPIDSIFTPIKNVKYSIENYRVEQKTDYEKLNLEITTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF------INFEEPK--KEVKEDINVKSLPFNPALLKKVEE 262 I ++++ A++IL +F +N E+ +E ED+ L L K+ + Sbjct: 208 IHPKEALKEAAKILIQHFMLFSDEKITVNMEDTNGAEEFDEDV----LHMRQLLKTKLSD 263 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 +LSVR+ NCL+ ++ +GDL++ D+L+ NFG+KSL E+ +L ++ L GM++ Sbjct: 264 QDLSVRALNCLKAADVDTVGDLVKLNRNDLLKFRNFGKKSLTELDELLTSLNLKFGMDVS 323 Query: 323 DW 324 + Sbjct: 324 IY 325 >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 = 201 bits (511), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 114/297 (38%), Positives = 181/297 (60%), Gaps = 12/297 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG TLGNALRRVL+S+L G A+TAV+I GV HE +++KG+ ED+ DI+LN+ Sbjct: 23 FVLEPLERGQGTTLGNALRRVLLSNLEGTAVTAVRITGVNHEFATMKGIREDVLDILLNM 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L+ + + +GP VTA D++ +++V++P H I L D + ME + Sbjct: 83 KELVLRSYTSDIQIGRLAVQGPKRVTAADLELPTEVQVVHPRHYIATLAEDGQLEMEFQI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY + + I ++IDA++ P++KV++TVES R ++ D+L++ I T G Sbjct: 143 ERGKGYRAIERGSEDGAAIDYLSIDAIFMPVRKVNWTVESERSAANVEQDRLTLEIWTSG 202 Query: 210 SITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDIN-VKSLPFNPALLKKVEELELS 266 S++ +++++ A++IL DQL I FE P + + N V +P +EEL+LS Sbjct: 203 SLSPQEALSQAAKILVDQLRPLQEITFEPPAEPQRSAPNTVGQVP--------IEELQLS 254 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE-IKGVLGTMGLFLGMNLP 322 VR+ NCL+ I + DL++ TE D+L + NFG+KS E I+ + MGL L + P Sbjct: 255 VRAYNCLKRAQINTVADLLEYTEEDLLEIKNFGQKSAEEVIEALQDKMGLSLPKDKP 311 >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 = 201 bits (511), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 114/299 (38%), Positives = 185/299 (61%), Gaps = 7/299 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 +PL G+A T+GNALRR+L+SSL G AI +++I+GV HE ++I GV ED+T IILN+K I Sbjct: 14 KPLEPGYAMTIGNALRRILLSSLEGYAIASIRIEGVEHEFATIPGVLEDVTHIILNLKQI 73 Query: 93 NLKMSGD--SHKRVTIFKRGPGVVTAGDIQTV-NDIEVLNPDHVICNLDVDAVVRMELTV 149 + + + + +T+ G AGD+ V +V NPD VICNL DA +E+ + Sbjct: 74 RFRATVEDPQEETITLHVTGRNSFKAGDLNKVLTSYKVQNPDLVICNLAEDADFTIEIRI 133 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GYV ++ +R E+DP+ + ID +Y+PI+KV+ T E+ R Q DY+KL + I+TDG Sbjct: 134 NKGRGYVVSEENRREDDPVNTLPIDGIYTPIRKVNQTTEAYRVDQRTDYEKLVLEIETDG 193 Query: 210 SITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 +I +++ A++IL +F + E P++E ++ ++ + + L+ + +L Sbjct: 194 TIHPREALREAAKILISHFALFTDKEFEVELPEEEPEQLLDNQMMKVRSQLMTDLATTDL 253 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 SVR+ NCL+ I + DL+ R ++L++ NFG+KSLVE++ L L M+L + Sbjct: 254 SVRALNCLKAAGISTIADLLSRDREELLKIKNFGKKSLVELEQFLTDQKLDFDMDLSPY 312 >gi|328813949|gb|AEB52090.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 241 Score = 201 bits (511), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 103/229 (44%), Positives = 155/229 (67%) 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 DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLR 274 + L +F+N + K + + + L +EEL+LSVRS NCL+ Sbjct: 181 EHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEELDLSVRSYNCLK 229 >gi|117575075|emb|CAJ84777.1| RNA polymerase alpha subunit [Lactobacillus amylotrophicus] Length = 225 Score = 201 bits (511), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 97/200 (48%), Positives = 142/200 (71%) 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 EDSVALASRILQDQLGMFIN 233 D+++ ++IL + L +F+N Sbjct: 181 NDALSFGAKILTEHLNVFMN 200 >gi|329565863|gb|AEB92268.1| DNA-directed RNA polymerase alpha subunit [Thermoanaerobacter thermohydrosulfuricus] Length = 250 Score = 201 bits (511), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 109/261 (41%), Positives = 167/261 (63%), Gaps = 22/261 (8%) 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 LQDQLGMFINF-----------EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 L FI+F ++P+K+V++ +++ +EEL+L VRS NC Sbjct: 181 LIKYFQKFISFTGEYKSSDIFVDKPEKKVEKPLDM-----------TIEELDLFVRSYNC 229 Query: 273 LRGENIVYMGDLIQRTEADML 293 L+ I + +L Q+TE +M+ Sbjct: 230 LKRAGINTVQELTQKTEEEMM 250 >gi|161513426|emb|CAP16856.1| DNA-directed RNA polymerase subunit alpha [Pediococcus parvulus] Length = 223 Score = 201 bits (511), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 97/206 (47%), Positives = 144/206 (69%), Gaps = 2/206 (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 KHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ D PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ ++ Sbjct: 121 DENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSISPSEA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVK 242 +L+++IL + L +F+N + ++ + Sbjct: 181 TSLSAKILTEHLALFVNLTDEAQDAE 206 >gi|329565843|gb|AEB92258.1| DNA-directed RNA polymerase alpha subunit [Thermoanaerobacter thermohydrosulfuricus] Length = 250 Score = 201 bits (510), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 110/261 (42%), Positives = 167/261 (63%), Gaps = 22/261 (8%) 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 LQDQLGMFINF-----------EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 L FI+F ++P+K+V++ +++ +EEL+LSVRS NC Sbjct: 181 LIKYFQKFISFTGEYKSSDIFVDKPEKKVEKPLDM-----------TIEELDLSVRSYNC 229 Query: 273 LRGENIVYMGDLIQRTEADML 293 L+ I + +L Q+TE +M+ Sbjct: 230 LKRAGINTVQELTQKTEEEMM 250 >gi|119662841|emb|CAJ33213.1| RNA polymerase alpha subunit [Lactobacillus fructivorans KCTC 3543] Length = 220 Score = 201 bits (510), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 102/202 (50%), Positives = 148/202 (73%), Gaps = 4/202 (1%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRRVL++SL GAA+T++QIDGVLHE S++KGV ED+T IILN+K INLK++ D + Sbjct: 3 TLGNSLRRVLLASLPGAAVTSIQIDGVLHEFSTVKGVVEDVTQIILNVKKINLKINSDDN 62 Query: 102 --KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 K ++I GP VTAGDI T +D+E+LNPD I + A M +T +KG GYV A+ Sbjct: 63 ETKSMSINVTGPADVTAGDIVTDSDVEILNPDLHIATVADGATFHMNMTANKGRGYVSAE 122 Query: 160 HHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 ++ +ND PIG++ +D++Y+PI++V+Y VE AR GQ DYDKL++ + T+GSIT D++ Sbjct: 123 ENKAKNDGMPIGVLPVDSIYTPIERVNYQVEDARVGQRDDYDKLTLDVWTNGSITPSDAI 182 Query: 218 ALASRILQDQLGMFINFEEPKK 239 +LA++IL +FI+ + K Sbjct: 183 SLAAKILNQHFQLFIDLTDRAK 204 >gi|71056933|emb|CAH59025.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 221 Score = 200 bits (509), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 98/201 (48%), Positives = 143/201 (71%) 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 LASRILQDQLGMFINFEEPKK 239 LA++I+ + L +F+N + K Sbjct: 181 LAAKIMTEHLDIFVNLTDEAK 201 >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 = 200 bits (509), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 116/291 (39%), Positives = 172/291 (59%), Gaps = 12/291 (4%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG T+GNALRRVL+S+L G AITAV+I GV HE ++I+GV ED+ +I+LN+K Sbjct: 27 PLDRGQGITVGNALRRVLLSNLEGTAITAVRIAGVNHEFATIEGVREDVLEIMLNLKEAV 86 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK + + +GP VT G +++EV+N + I L A + ME + KG Sbjct: 87 LKSHTYQKQIGRLLVQGPATVTVGHFDLPSEVEVVNKNQYIATLSPGATLEMECQIEKGT 146 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY HR ++ + + IDA++ P++KV+YTVE AR+G L+ D+L++ I T GS+T Sbjct: 147 GYRAVDRHRDDSAALDFLQIDAIFMPVRKVNYTVEDARDGGSLEKDRLTLEIWTSGSLTP 206 Query: 214 EDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTN 271 +++++ A+ IL D G IN E + ++DI +P +EEL+LSVR+ N Sbjct: 207 QEAISQAAAILVDLFGALKDINLESITSDQRDDI-------DPTSQIPIEELQLSVRAYN 259 Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 CL+ I + DL TE D+L + NFG+KS E+ L LG+ LP Sbjct: 260 CLKRAQINSVADLRDYTEEDLLEIKNFGQKSAEEVIEALQNR---LGITLP 307 >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 = 200 bits (509), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 117/321 (36%), Positives = 191/321 (59%), Gaps = 10/321 (3%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +PN + Y+V E + R PL G+ T+GNALRRVL+SSL G AIT+++I V+H Sbjct: 8 RPNQV-YMVEATEFKGRFEF--APLEPGYGITIGNALRRVLLSSLEGYAITSLKISEVVH 64 Query: 71 EISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEV 127 E +I V +D+T+IILN+K + K ++ + ++I V+ A D++ + + +V Sbjct: 65 EFDTIPNVIDDVTNIILNLKQVRFKHIAGAETSESISITVSNKEVLKAKDLEEGMANFKV 124 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPDHVIC++D A MEL + KG GY+PA ++ + IG I IDA+++PI V Y+V Sbjct: 125 LNPDHVICSMDKSAEFTMELKIEKGRGYLPADENKNVSKEIGWIGIDAIFTPIVNVMYSV 184 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEVKE 243 E R Q DY+KL + I TDGS+ + ++ A++IL +F I E + + Sbjct: 185 EDERVEQKTDYNKLILEIQTDGSVHPKQALKEAAKILIQHFMLFTDEKITLEIEDIDDND 244 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L L ++ +L+LSVR+ NCL+ N+ +GDL + + ++L+ NFG+KSL Sbjct: 245 EFDEDFLKKRQLLKTQLTDLDLSVRALNCLKSANLETLGDLARIPKPELLKFRNFGKKSL 304 Query: 304 VEIKGVLGTMGLFLGMNLPDW 324 E++ L ++ L G+++ + Sbjct: 305 TELEQKLESLNLHFGIDIAKY 325 >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 = 200 bits (508), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 119/293 (40%), Positives = 181/293 (61%), Gaps = 12/293 (4%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL G+ T+GNALRR+L+ SL G AI V+I V HE S+I+GV ED+T+I+LN+K + Sbjct: 24 EPLEPGYGITIGNALRRILLRSLPGTAIVRVRIADVWHEFSTIEGVREDVTEIVLNLKRV 83 Query: 93 NLKMSGDSHK--RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV-DAVVRMELTV 149 LK +S + R +++ +G GVV AGDI D+EV+NP+HVI LD DA + M+L + Sbjct: 84 RLKALTESFREGRASLYAQGEGVVRAGDIDWPGDVEVVNPEHVIATLDNDDARLEMDLVI 143 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 ++G GY PA+ E IG I +DA+++PI+KV+Y VE R GQ+ DYD+L + I TDG Sbjct: 144 ARGRGYQPAETQ--EIYTIGEIPVDAIFTPIEKVNYVVEHTRVGQMTDYDRLIIEIITDG 201 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL--KKVEELELSV 267 +I D+++ A++IL D + +F E +E+ + P+++ + + EL LS Sbjct: 202 TIEPADALSEAAQILVDHARLIADFNREPSEPEEEEDK-----TPSIVDNRPLAELGLSP 256 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 R N LR I +G ++ + +L + NFG +SL E++ L G L M+ Sbjct: 257 RVLNALRSRQIERVGQVLSLPQEQLLSIRNFGPRSLQELRERLAEHGYTLAMD 309 >gi|71056900|emb|CAH59007.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 219 Score = 200 bits (508), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 98/201 (48%), Positives = 143/201 (71%) 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 LASRILQDQLGMFINFEEPKK 239 LA++I+ + L +F+N + K Sbjct: 181 LAAKIMTEHLDIFVNLTDEAK 201 >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 = 200 bits (508), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 122/299 (40%), Positives = 177/299 (59%), Gaps = 6/299 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 EN + EPL RG+ TLGNALRRVL+SSL AITAV+I GV HE +++KGV ED+++ Sbjct: 22 ENFGKLYVEPLERGYGITLGNALRRVLLSSLPSGAITAVKIVGVPHEFTTVKGVIEDVSE 81 Query: 85 IILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 IILN+K I LK+ + + I + GPG V A DI+ IE++NPD IC L + + Sbjct: 82 IILNLKQIRLKIDENIERDFAILEVEGPGKVFAKDIKAPPGIEIVNPDEYICTLSENVKL 141 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +ME + +G GY + N+ IG I ID +SPIK+ ++ VE R G DYD+L + Sbjct: 142 QMEFRIERGRGYKTVEELEDINE-IGWILIDTSFSPIKRCTFFVEPVRVGDKTDYDRLIL 200 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV-KEDINVKSLPFN---PALLKK 259 I+TDG+IT ++++ ++ IL + + K +V K+ + K+ L Sbjct: 201 EIETDGTITPDEALEKSANILIEHFTLLQKPTVRKAQVIKKTVAPKTEELKIEEDKLSLA 260 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 ++ELE+S R+ N LR I +GDL++ +E D+ + GRKSL EIK L MGL L Sbjct: 261 IDELEISSRAINTLRKLGINTIGDLVKLSEDDLKEAKSIGRKSLKEIKDALADMGLELA 319 >gi|161513436|emb|CAP16861.1| DNA-directed RNA polymerase subunit alpha [Pediococcus inopinatus] Length = 214 Score = 200 bits (508), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 98/203 (48%), Positives = 143/203 (70%), Gaps = 2/203 (0%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILNIK ++LK+ D Sbjct: 3 TLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNIKKVSLKIESDDE 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A + Sbjct: 63 KSLEIDVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAILTADTGRGYVSADEN 122 Query: 162 RTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 + D PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ ++ +L Sbjct: 123 KARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSISPSEATSL 182 Query: 220 ASRILQDQLGMFINFEEPKKEVK 242 +++IL + L +F+N + K+ + Sbjct: 183 SAKILTEHLALFVNLTDEAKDAE 205 >gi|71056866|emb|CAH58988.1| DNA-directed RNA polymerase alpha chain [Enterococcus hermanniensis] Length = 214 Score = 200 bits (508), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 98/201 (48%), Positives = 140/201 (69%) 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 LASRILQDQLGMFINFEEPKK 239 LA++IL + L +F+N + K Sbjct: 181 LAAKILTEHLDIFVNLTDEAK 201 >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 = 200 bits (508), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 116/302 (38%), Positives = 184/302 (60%), Gaps = 15/302 (4%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNALRR+L+SSL G AIT V++ GV HE ++I GV E + DIILN+K + Sbjct: 28 PLEPGFGMTVGNALRRILLSSLEGYAITTVKVAGVDHEFAAIPGVMEGMIDIILNLKQVR 87 Query: 94 LKMSGDSH--KRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + D+ ++V++ G +TAG I ++ +VLNP+ VIC+L +++ LT+ Sbjct: 88 FIRTVDNQDAEKVSVNVAGVTELTAGYISNYLSFFKVLNPELVICHLAPGTKMQLTLTIG 147 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVPA+ + + G + ID++++PIK V Y++E+ R Q DY+KL++ I TDGS Sbjct: 148 KGRGYVPAEENTPADCEFGTLPIDSIFTPIKNVKYSIENYRVEQKTDYEKLNLEITTDGS 207 Query: 211 ITGEDSVALASRILQDQLGMF------INFEEPK--KEVKEDINVKSLPFNPALLKKVEE 262 I D++ A++IL +F +N E+ +E EDI L L K+ + Sbjct: 208 IHPTDALKEAAKILIQHFMLFSDEKITVNMEDTNGAEEFDEDI----LHMRQLLKTKLSD 263 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 +LSVR+ NCL+ ++ +GDL++ D+L+ NFG+KSL E+ +L ++ L GM++ Sbjct: 264 QDLSVRALNCLKAADVDTVGDLVKLNRNDLLKFRNFGKKSLTELDELLASLNLKFGMDVS 323 Query: 323 DW 324 + Sbjct: 324 IY 325 >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 = 200 bits (508), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 95/207 (45%), Positives = 146/207 (70%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ T+GNALRR+L+SSL G A+ A++IDGVLHE S+I GV ED+T+IIL + Sbjct: 23 FVIEPLERGYGITIGNALRRILLSSLPGVAVNAIKIDGVLHEFSTIPGVKEDVTEIILTL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K ++ + G+ + + I +GP +T DI D+E+L+ D I LD +A + ME+ V Sbjct: 83 KELSATIDGEGSRTLKIEAQGPCSITGADIICSPDVEILSKDLAIATLDDNAKLNMEIFV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYV A+ ++TEN PIG++ +D++Y+P++KVSY VE+ R GQ DYDKL + + T+G Sbjct: 143 DKGRGYVSAEENKTENVPIGVLPVDSIYTPVEKVSYHVENTRVGQKTDYDKLVLEVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEE 236 SI ++ ++LA+++L + L +FI+ E Sbjct: 203 SINPQEGISLAAKVLVEHLNLFIDLTE 229 >gi|161511749|emb|CAP16885.1| DNA-directed RNA polymerase subunit alpha [Pediococcus parvulus] Length = 214 Score = 200 bits (508), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 97/203 (47%), Positives = 143/203 (70%), Gaps = 2/203 (0%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILNIK ++LK+ D Sbjct: 3 TLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNIKKVSLKIESDDE 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A + Sbjct: 63 KSLEINVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAVLTADTGRGYVSADEN 122 Query: 162 RTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 + D PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ ++ +L Sbjct: 123 KARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSISPSEATSL 182 Query: 220 ASRILQDQLGMFINFEEPKKEVK 242 +++IL + L +F+N + ++ + Sbjct: 183 SAKILTEHLALFVNLTDEAQDAE 205 >gi|328813985|gb|AEB52108.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 228 Score = 200 bits (508), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 106/226 (46%), Positives = 153/226 (67%), Gaps = 2/226 (0%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILN+K I LK+ D Sbjct: 3 TLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVTEDVTAIILNVKKIALKLESDET 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK-- 159 K + I +GP VTAGDI D+EVLNPD IC + A M +T + G GYV A+ Sbjct: 63 KTLEIDVKGPANVTAGDIIGDADVEVLNPDLPICTVADGAHFHMRMTANTGRGYVSAEDN 122 Query: 160 HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL++ + T+GSIT ++++L Sbjct: 123 KHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDKLTLDVWTNGSITPSEAISL 182 Query: 220 ASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 +++IL D L +F+N + K + + L +EEL+L Sbjct: 183 SAKILTDHLSIFVNLTDEAKNTDVMVEKEETHKEKMLEMTIEELDL 228 >gi|119668353|emb|CAK95471.1| RNA polymerase alpha subunit [Lactobacillus plantarum] Length = 219 Score = 200 bits (508), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 101/203 (49%), Positives = 145/203 (71%), Gaps = 2/203 (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 K--HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 + HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL++ + T+GSIT ++ Sbjct: 121 EDNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDKLTLDVWTNGSITPSEA 180 Query: 217 VALASRILQDQLGMFINFEEPKK 239 ++L+++IL D L +F+N + K Sbjct: 181 ISLSAKILTDHLSIFVNLTDEAK 203 >gi|332144666|dbj|BAK19493.1| RNA polymerase alpha subunit [Lactobacillus sp. YIT 12364] Length = 239 Score = 199 bits (507), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 110/239 (46%), Positives = 160/239 (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 KGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 KG GYV A + R+ + 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|161513434|emb|CAP16860.1| DNA-directed RNA polymerase subunit alpha [Pediococcus cellicola] Length = 214 Score = 199 bits (507), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 97/203 (47%), Positives = 143/203 (70%), Gaps = 2/203 (0%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILNIK ++LK+ D Sbjct: 3 TLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNIKKVSLKIENDEE 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A + Sbjct: 63 KSLEINVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAVLTADTGRGYVSADEN 122 Query: 162 RTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 + D PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ ++ +L Sbjct: 123 KARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSISPSEATSL 182 Query: 220 ASRILQDQLGMFINFEEPKKEVK 242 +++IL + L +F+N + + ++ Sbjct: 183 SAKILTEHLALFVNLTDEAQRLR 205 >gi|119662343|emb|CAJ33160.1| RNA polymerase alpha subunit [Lactobacillus plantarum] Length = 204 Score = 199 bits (507), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 101/203 (49%), Positives = 145/203 (71%), Gaps = 2/203 (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 K--HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 + HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL++ + T+GSIT ++ Sbjct: 121 EDNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDKLTLDVWTNGSITPSEA 180 Query: 217 VALASRILQDQLGMFINFEEPKK 239 ++L+++IL D L +F+N + K Sbjct: 181 ISLSAKILTDHLSIFVNLTDEAK 203 >gi|71056856|emb|CAH58983.1| DNA-directed RNA polymerase alpha chain [Enterococcus villorum] Length = 219 Score = 199 bits (507), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 98/198 (49%), Positives = 140/198 (70%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG+ LKM G Sbjct: 3 TLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKGLALKMYGQEE 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + I GP VTAGDI +++E+LN D IC++ A LTV G GYV A + Sbjct: 63 KTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHARLTVKPGRGYVQADEN 122 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 + E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI ++++L++ Sbjct: 123 KKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHCEDFDKLTMEIWTDGSIEPLEAMSLSA 182 Query: 222 RILQDQLGMFINFEEPKK 239 +I+ + L +F+N + K Sbjct: 183 KIMTEHLDIFVNLTDEAK 200 >gi|119662395|emb|CAJ33187.1| RNA polymerase alpha subunit [Lactobacillus aviarius subsp. aviarius] Length = 231 Score = 199 bits (507), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 100/212 (47%), Positives = 146/212 (68%), Gaps = 2/212 (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 SKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +KG GYV A ++ + D PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T Sbjct: 121 NKGRGYVSATENKAKADDMPIGVLAIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +GSIT ++++L+++IL + L +F+N + K Sbjct: 181 NGSITPSEAISLSAKILTEHLSIFVNLTDEAK 212 >gi|119662325|emb|CAJ33150.1| RNA polymerase alpha subunit [Lactobacillus intestinalis] Length = 211 Score = 199 bits (506), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 96/202 (47%), Positives = 138/202 (68%) 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 SITGEDSVALASRILQDQLGMF 231 SI D+++ A++IL + +F Sbjct: 181 SIKPNDALSFAAKILVEHFKVF 202 >gi|119662313|emb|CAJ33144.1| RNA polymerase alpha subunit [Lactobacillus hilgardii] Length = 227 Score = 199 bits (506), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 106/214 (49%), Positives = 148/214 (69%), Gaps = 4/214 (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 DTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 T+GSIT ++V+LA++IL + L MF++ + K Sbjct: 181 WTNGSITPSEAVSLAAKILTEHLEMFVDLTDEAK 214 >gi|119668359|emb|CAK95474.1| RNA polymerase alpha subunit [Lactobacillus reuteri] Length = 221 Score = 199 bits (506), Expect = 5e-49, Method: Compositional matrix adjust. Identities = 99/211 (46%), Positives = 150/211 (71%), Gaps = 2/211 (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 GYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY+ A ++ D IG++ ID++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+ Sbjct: 121 GYLSANDNKARMDDLAIGVLPIDSIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSL 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVK 242 T ++V+L ++IL + L MF++ E + + Sbjct: 181 TPTEAVSLGAKILTEHLAMFVDLTETAQNAQ 211 >gi|119662353|emb|CAJ33165.1| RNA polymerase alpha subunit [Lactobacillus saerimneri] Length = 213 Score = 199 bits (506), Expect = 5e-49, Method: Compositional matrix adjust. Identities = 100/209 (47%), Positives = 143/209 (68%), Gaps = 2/209 (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 SKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + G GYV AK ++ D PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T Sbjct: 121 NTGRGYVSAKENKEMADDMPIGVLPIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEE 236 + SIT ++V+L++++L + L +F+N E Sbjct: 181 NKSITPSEAVSLSAKVLTEHLSLFVNLTE 209 >gi|71056864|emb|CAH58987.1| DNA-directed RNA polymerase alpha chain [Enterococcus canis] Length = 217 Score = 199 bits (506), Expect = 5e-49, Method: Compositional matrix adjust. Identities = 96/201 (47%), Positives = 140/201 (69%) 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 LASRILQDQLGMFINFEEPKK 239 L+++IL + L +F+N + K Sbjct: 181 LSAKILTEHLDIFVNLTDEAK 201 >gi|119668369|emb|CAK95477.1| RNA polymerase alpha subunit [Lactobacillus ruminis] Length = 201 Score = 199 bits (506), Expect = 5e-49, Method: Compositional matrix adjust. Identities = 99/201 (49%), Positives = 144/201 (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 SKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +KG GYV A ++ + D 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|71056939|emb|CAH59028.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 220 Score = 199 bits (506), Expect = 5e-49, Method: Compositional matrix adjust. Identities = 98/198 (49%), Positives = 142/198 (71%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+I GV ED+T IILNIKG+ LK+ + Sbjct: 3 TLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIPGVREDVTQIILNIKGLALKLYAEEE 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + I GP VTAGDI +D+E+LN D VIC++ A LTV G GYV A + Sbjct: 63 KTLEIDITGPATVTAGDIIVDSDVEILNKDLVICSVAEGATFHARLTVKPGRGYVQADEN 122 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 + E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDGSI +++++LA+ Sbjct: 123 KKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDGSIIPQEALSLAA 182 Query: 222 RILQDQLGMFINFEEPKK 239 +I+ + L +F+N + K Sbjct: 183 KIMTEHLDIFVNLTDEAK 200 >gi|161511773|emb|CAP16897.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 249 Score = 199 bits (506), Expect = 6e-49, Method: Compositional matrix adjust. Identities = 104/222 (46%), Positives = 147/222 (66%), Gaps = 2/222 (0%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E +N + EPL RG+ TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+GV ED+ Sbjct: 8 ENDNYGRFVIEPLERGYGTTLGNSLRRILLSSLPGAAITSVQIDSVLHEFSTIEGVVEDV 67 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ IC + Sbjct: 68 TQIILNLKKVSLKIESDEDKTLEINVAGPANVTAGDIMGDGDVVILNPELPICTVAEGTT 127 Query: 143 VRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 LT G GY A + R + PIG++ ID++Y+PI++V+Y VE+ R GQ DYDK Sbjct: 128 FHAVLTADTGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDK 187 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 L++ I TDGSIT ++ +L+++IL + L +F+N + KE + Sbjct: 188 LTLDIWTDGSITPSEATSLSAKILTEHLAIFVNLNDQAKETE 229 >gi|328813973|gb|AEB52102.1| DNA-directed RNA polymerase alpha chain [Lactobacillus fermentum] Length = 243 Score = 199 bits (505), Expect = 6e-49, Method: Compositional matrix adjust. Identities = 106/243 (43%), Positives = 162/243 (66%), 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 KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--EN 165 +GP VTA DIQ D+ +LN D I + A + +++T KG GY A ++T 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|71056862|emb|CAH58986.1| DNA-directed RNA polymerase alpha chain [Enterococcus malodoratus] Length = 205 Score = 199 bits (505), Expect = 7e-49, Method: Compositional matrix adjust. Identities = 98/197 (49%), Positives = 139/197 (70%) 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 ILQDQLGMFINFEEPKK 239 IL + L +F+N + K Sbjct: 181 ILTEHLDIFVNLTDEAK 197 >gi|150187107|emb|CAK30172.1| RNA polymerase alpha subunit [Streptococcus downei MFe28] Length = 219 Score = 199 bits (505), Expect = 7e-49, Method: Compositional matrix adjust. Identities = 96/207 (46%), Positives = 145/207 (70%) 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 GEDSVALASRILQDQLGMFINFEEPKK 239 ED++ L++R+L + L +F + E K Sbjct: 181 PEDALGLSARVLIEHLNLFTDLTEIAK 207 >gi|119672801|emb|CAK95516.1| RNA polymerase alpha subunit [Lactobacillus agilis] Length = 217 Score = 199 bits (505), Expect = 7e-49, Method: Compositional matrix adjust. Identities = 101/212 (47%), Positives = 147/212 (69%), Gaps = 2/212 (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 SKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GYV A ++ +ND PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T Sbjct: 121 DKGRGYVSASDNKAKNDEMPIGVLAIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +GSIT ++++L+++IL + L +F++ E K Sbjct: 181 NGSITPSEAISLSAKILTEHLTLFVDLTEEAK 212 >gi|315186306|gb|EFU20067.1| DNA-directed RNA polymerase subunit alpha [Spirochaeta thermophila DSM 6578] Length = 363 Score = 199 bits (505), Expect = 7e-49, Method: Compositional matrix adjust. Identities = 119/301 (39%), Positives = 182/301 (60%), Gaps = 11/301 (3%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-----DGVLHEISS----IKGVHEDL 82 A P RG+ T+GN LRR+L+SS++G AI+AV+I G H +SS I GV ED Sbjct: 32 AYPFERGYGVTIGNTLRRILLSSIQGYAISAVRITWYDDQGAAHVLSSEYEQIPGVVEDT 91 Query: 83 TDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +++ N+K + +++ + K V + +GP VT D + V+ +EV+N D + L DA Sbjct: 92 LELLANLKLLRVQLPDEMEQKTVMVEFKGPKEVTGADFE-VDQLEVMNKDFRVMTLMEDA 150 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 ME+ V G GYVPA+ + + +G I +DALYSP+++V + VE+ R G DYDKL Sbjct: 151 HFEMEMQVDLGRGYVPAEVQKNYIEVVGTIPLDALYSPVQRVRFNVENTRVGHRSDYDKL 210 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + + TDGSI+ ED++ A+++ ++ +FINF+E ++ + L +E Sbjct: 211 ILEVWTDGSISPEDALGEAAKLAKEHFTVFINFDEDAISHVRQLDHEEEQIRRLLETPIE 270 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 ELELSVRS+NCL+ NI +GDL+ ++E ++ + NFG+KSL+EIK L L LGM Sbjct: 271 ELELSVRSSNCLKNANIRTIGDLVSKSEEELSKTRNFGKKSLLEIKEKLKEWNLSLGMRD 330 Query: 322 P 322 P Sbjct: 331 P 331 >gi|119668321|emb|CAK95507.1| RNA polymerase alpha subunit [Lactobacillus gasseri] Length = 214 Score = 198 bits (504), Expect = 8e-49, Method: Compositional matrix adjust. Identities = 98/195 (50%), Positives = 139/195 (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 LASRILQDQLGMFIN 233 A++IL + +F++ Sbjct: 181 FAAKILVEHFKVFMS 195 >gi|71056858|emb|CAH58984.1| DNA-directed RNA polymerase alpha chain [Enterococcus villorum] Length = 208 Score = 198 bits (504), Expect = 8e-49, Method: Compositional matrix adjust. Identities = 98/198 (49%), Positives = 140/198 (70%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG+ LKM G Sbjct: 3 TLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKGLALKMYGQEE 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + I GP VTAGDI +++E+LN D IC++ A LTV G GYV A + Sbjct: 63 KTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHARLTVKPGRGYVQADEN 122 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 + E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI ++++L++ Sbjct: 123 KKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHCEDFDKLTMEIWTDGSIEPLEAMSLSA 182 Query: 222 RILQDQLGMFINFEEPKK 239 +I+ + L +F+N + K Sbjct: 183 KIMTEHLDIFVNLTDEAK 200 >gi|161511727|emb|CAP16874.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 235 Score = 198 bits (504), Expect = 9e-49, Method: Compositional matrix adjust. Identities = 108/233 (46%), Positives = 152/233 (65%), Gaps = 2/233 (0%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+GV ED+T IILN+K ++LK+ D Sbjct: 3 TLGNSLRRILLSSLPGAAITSVQIDSVLHEFSTIEGVVEDVTQIILNLKKVSLKIESDED 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + I GP VTAGDI D+ +LNP+ IC + LT G GY A + Sbjct: 63 KTLEINVAGPANVTAGDIMGDGDVVILNPELPICTVAEGTTFHAVLTADTGRGYTSADEN 122 Query: 162 --RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 R + PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ I TDGSIT ++ +L Sbjct: 123 KARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDIWTDGSITPSEATSL 182 Query: 220 ASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 +++IL + L +F+N + KE + + + L +EEL+LSVRS NC Sbjct: 183 SAKILTEHLAIFVNLNDQAKETEIMVEKEETHKEKMLEMTIEELDLSVRSYNC 235 >gi|119662317|emb|CAJ33146.1| RNA polymerase alpha subunit [Lactobacillus johnsonii] Length = 214 Score = 198 bits (504), Expect = 9e-49, Method: Compositional matrix adjust. Identities = 98/195 (50%), Positives = 139/195 (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 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 LASRILQDQLGMFIN 233 A++IL + +F++ Sbjct: 181 FAAKILVEHFKVFMS 195 >gi|161511765|emb|CAP16893.1| DNA-directed RNA polymerase subunit alpha [Pediococcus acidilactici] Length = 215 Score = 198 bits (504), Expect = 9e-49, Method: Compositional matrix adjust. Identities = 103/211 (48%), Positives = 141/211 (66%), Gaps = 2/211 (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 GYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A + R + PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ I TDGSI Sbjct: 121 GYTSADENKARKADMPIGVLPIDSIYTPIERVNYQVEKTRVGQRDDYDKLTLDIWTDGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVK 242 T ++ +L+++IL + L +F+N + KE + Sbjct: 181 TPSEATSLSAKILTEHLAIFVNLNDQAKETE 211 >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 = 198 bits (504), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 122/298 (40%), Positives = 185/298 (62%), Gaps = 23/298 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE S+I G+ ED+TDIILN+ Sbjct: 23 FVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHEFSTIPGIREDVTDIILNL 82 Query: 90 KGINLKMSGDSHKRVTI---FKRGPGVVTAGDI--QTVNDIEVLNPDHVICNLDVDAVVR 144 K + +K+ D+ + + F++ GV+TA D+ Q ++EVLNP+ VI +D A + Sbjct: 83 KQLCIKVEEDAQLPLEVHFDFQK-DGVLTAADLAEQFPPEVEVLNPELVIATMDETAHLV 141 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V R G +D+DKL++ Sbjct: 142 MDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEVSDVRVGNEMDFDKLTLE 201 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN----------VKSLPFNP 254 + TDGSIT D+VA ++ I+ LG F V D+N V S P Sbjct: 202 VWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSADVV--DVNTGEGGIVVDPVGSDNEEP 259 Query: 255 ALLK-----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 A+ ++ELELSVR+ NCL+ I + DL+ +T D+ ++ N G+KS+ EI+ Sbjct: 260 AVDDGPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGKVRNLGKKSIDEIE 317 >gi|119668319|emb|CAK95460.1| RNA polymerase alpha subunit [Lactobacillus gasseri] Length = 198 Score = 198 bits (503), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 98/195 (50%), Positives = 139/195 (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 LASRILQDQLGMFIN 233 A++IL + +F++ Sbjct: 181 FAAKILVEHFKVFMS 195 >gi|71056860|emb|CAH58985.1| DNA-directed RNA polymerase alpha chain [Enterococcus gilvus] Length = 205 Score = 198 bits (503), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 98/197 (49%), Positives = 139/197 (70%) 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 ILQDQLGMFINFEEPKK 239 IL + L +F+N + K Sbjct: 181 ILTEHLDIFVNLTDEAK 197 >gi|332144688|dbj|BAK19504.1| RNA polymerase alpha subunit [Lactobacillus farraginis] Length = 218 Score = 198 bits (503), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 105/211 (49%), Positives = 146/211 (69%), Gaps = 4/211 (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 GSITGEDSVALASRILQDQLGMFINFEEPKK 239 GSIT ++V+LA++IL + L MF++ + K Sbjct: 181 GSITPSEAVSLAAKILTEHLEMFVDLTDEAK 211 >gi|72534420|emb|CAH59046.1| DNA-directed RNA polymerase alpha chain [Enterococcus canis] Length = 218 Score = 198 bits (503), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 96/198 (48%), Positives = 139/198 (70%) 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 RILQDQLGMFINFEEPKK 239 +IL + L +F+N + K Sbjct: 181 KILTEHLDIFVNLTDEAK 198 >gi|269784298|emb|CBH50794.1| alpha subunit of RNA polymerase [Vibrio sp. C 15.19] Length = 244 Score = 198 bits (503), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 103/243 (42%), Positives = 162/243 (66%), Gaps = 8/243 (3%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVT 115 G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V Sbjct: 3 GCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVV 62 Query: 116 AGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLI 171 AGDI D+E+ NP+HVIC+L D +A + M + V +G GYVPA H + PIG + Sbjct: 63 AGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRL 122 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F Sbjct: 123 LVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAF 182 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 ++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE + Sbjct: 183 VDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVE 239 Query: 292 MLR 294 +L+ Sbjct: 240 LLK 242 >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 = 198 bits (503), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 122/298 (40%), Positives = 185/298 (62%), Gaps = 23/298 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE S+I G+ ED+TDIILN+ Sbjct: 26 FVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHEFSTIPGIREDVTDIILNL 85 Query: 90 KGINLKMSGDSHKRVTI---FKRGPGVVTAGDI--QTVNDIEVLNPDHVICNLDVDAVVR 144 K + +K+ D + + F++ GV+TA D+ Q ++EVLNP+ VI +D A + Sbjct: 86 KQLCIKVEEDVQLPLEVHFDFQK-DGVLTAADLAEQFPPEVEVLNPELVIATMDETAHLV 144 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V R G +D+DKL++ Sbjct: 145 MDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEVSDVRVGNEMDFDKLTLE 204 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN----------VKSLPFNP 254 + TDGSIT D+VA ++ I+ LG F V D+N V S P Sbjct: 205 VWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSADVV--DVNTGEGGIVVDPVGSDNEEP 262 Query: 255 ALLK-----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 A+ + ++ELELSVR+ NCL+ I + DL+ +T D+ ++ N G+KS+ EI+ Sbjct: 263 AVDEGPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGKVRNLGKKSIDEIE 320 >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 = 198 bits (503), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 112/306 (36%), Positives = 184/306 (60%), Gaps = 7/306 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E + + EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GV+ E + + GV E Sbjct: 33 KESNYKGQFVVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVMSEFTVMDGVKEA 92 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ VIC + D Sbjct: 93 VTEIILNVKEIVVKAESSGERRMTLSVKGPKVVKAADIVADIGLEIVNPEQVICTVTTDR 152 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D+DKL Sbjct: 153 TLDMEFLVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRITDFDKL 212 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFI-------NFEEPKKEVKEDINVKSLPFNP 254 ++ ++TDGSI D+++ A +L+ L F+ N + +E+ E+ + + Sbjct: 213 TLNVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRDEIEEIIEEPIDIQVIDDK 272 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + +G Sbjct: 273 SHDMKIEELDLTVRSFNCLKKAGIEDVSQLASLSLNELLKIKNLGKKSLDEILEKMKDLG 332 Query: 315 LFLGMN 320 L N Sbjct: 333 YDLEKN 338 >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 = 198 bits (503), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 111/279 (39%), Positives = 171/279 (61%), Gaps = 5/279 (1%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ +T+GNALRRVL+SS+ G+AI V+IDGVL+E S I+GV E +TDI+LNIK I Sbjct: 28 EPLYRGYGNTIGNALRRVLLSSIPGSAIKGVRIDGVLNEFSMIEGVKEAVTDIVLNIKEI 87 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +++ KR+ + GP V+TA DI I ++NP+ VI + + ME V G Sbjct: 88 VVELDEPVEKRMKLSVVGPKVITAADIVPEAGITIVNPEQVIATITTKKAIDMEFIVDSG 147 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 G+V + T + +DA+Y+PI+KVSY VE G+V +YDKL++T+ TDGSI Sbjct: 148 EGFVVSDEINTSGWEADFLAVDAIYTPIRKVSYQVEDTMVGRVTNYDKLTLTVTTDGSID 207 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---PALLK--KVEELELSV 267 D+++ A ++ F N + + + ++ N P+L++ ++EEL L++ Sbjct: 208 IHDALSYAVELINIHTKPFANIGTAMAKFRSEEELELEVSNDSYPSLVEDTRIEELGLTI 267 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 RS NCL+ +I +G+LI+ T+ D+ ++ N G KS EI Sbjct: 268 RSYNCLKKVDINTVGELIRLTKEDLKKIKNLGNKSAKEI 306 >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 = 197 bits (502), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 122/304 (40%), Positives = 177/304 (58%), Gaps = 17/304 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +I EPL RG+ TLGNALRRVL+SS++GAAIT+V++DGVLHE S+I GV ED+ +++LN+ Sbjct: 24 VIVEPLERGYGVTLGNALRRVLLSSVKGAAITSVRVDGVLHEFSTIPGVREDVIELMLNL 83 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I + K + + GP V A DIQ ++IE ++PD +C L+ A + M+L + Sbjct: 84 KHIPVHSYSKDVKVLHLEAEGPKQVVAADIQPDSEIEFIDPDAPVCVLEDGAQLSMDLYI 143 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY R P + IDA+YSP+ KV Y VE+AR GQ DY++L + + T+G Sbjct: 144 EQGVGYATIDRPRPAYLPADALLIDAIYSPVLKVHYDVEAARVGQRTDYERLVLDVTTNG 203 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA-------------- 255 I + +V A++I++ G FI + K E I+ + + Sbjct: 204 VIAPDVAVGEAAKIIRSYFG-FIVEDVDKLHPLEGIDEEEAALSADEAAAEAAEAAKEED 262 Query: 256 --LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 L + V ELELS+RS NCL I +GDL+ RT D+L++ N G+ SL EI+ L Sbjct: 263 DLLSRPVRELELSIRSENCLLRGGIHTIGDLLTRTRDDLLKIRNLGKISLREIEERLEKQ 322 Query: 314 GLFL 317 GL L Sbjct: 323 GLRL 326 >gi|308125199|gb|ADO14948.1| DNA-directed RNA polymerase alpha chain [Enterococcus termitis] Length = 204 Score = 197 bits (502), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 97/196 (49%), Positives = 141/196 (71%) 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 LQDQLGMFINFEEPKK 239 + + L +F+N + K Sbjct: 181 MTEHLDIFVNLTDEAK 196 >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 = 197 bits (502), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 112/306 (36%), Positives = 184/306 (60%), Gaps = 7/306 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E + + EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GV+ E + + GV E Sbjct: 33 KESNYKGQFVVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVMSEFTVMDGVKEA 92 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ VIC + D Sbjct: 93 VTEIILNVKEIVVKAESSGERRMTLSVKGPKVVKAADIVADIGLEIVNPEQVICTVTTDR 152 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D+DKL Sbjct: 153 TLDMEFLVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRITDFDKL 212 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFI-------NFEEPKKEVKEDINVKSLPFNP 254 ++ ++TDGSI D+++ A +L+ L F+ N + +E+ E+ + + Sbjct: 213 TLNVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRDEIEEIIEEPIDIQVIDDK 272 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + +G Sbjct: 273 SHDMKIEELDLTVRSFNCLKKAGIEDVSQLASLSLNELLKIKNLGKKSLDEILEKMKDLG 332 Query: 315 LFLGMN 320 L N Sbjct: 333 YDLEKN 338 >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 = 197 bits (502), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 115/281 (40%), Positives = 170/281 (60%), Gaps = 9/281 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL G+ TLGNALRR+L+ SL GAAIT ++I GV HE S+I+GV ED+T+I+LN+ Sbjct: 21 FVVEPLEPGYGTTLGNALRRILLRSLPGAAITRIRIAGVWHEFSTIEGVREDVTEIVLNL 80 Query: 90 KGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMEL 147 KG+ L+ + + R T+F +G GVV AGD+ ++EV+NPDHVI LD D A + M+L Sbjct: 81 KGVRLRAVTEFRETRATLFAQGEGVVRAGDVDWPAEVEVVNPDHVIATLDNDQARLEMDL 140 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + +G GY+PA+ E IG I IDA+++P KV+Y VE R G DYD+L + I T Sbjct: 141 WIGRGRGYLPAEAQ--EIRSIGEIPIDAIFTPTLKVNYVVEHTRVGGATDYDRLILEIVT 198 Query: 208 DGSITGEDSVALASRILQDQLGMFINFE-EPKKEVKEDINVKSLPFNPALLKKVEELELS 266 DG++ ++ A+RIL FE E +E E+ +V + + + E+ LS Sbjct: 199 DGTVEPAKALVEAARILVQHARWIAEFESEGAEEPVEEWSVAHVDDT----RLLSEIGLS 254 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 R N LR I +G ++ +L + NFG ++L E++ Sbjct: 255 QRVLNALRARGIERVGQVLAMRPDQLLGIRNFGPRALQELR 295 >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 = 197 bits (501), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 111/298 (37%), Positives = 181/298 (60%), Gaps = 7/298 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GV+ E + + GV E +T+IILN+ Sbjct: 41 FVVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVMSEFTVMDGVKEAVTEIILNV 100 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I +K +R+T+ +GP VV A DI +E++NP+ VIC + D + ME V Sbjct: 101 KEIVVKAESSGERRMTLSVKGPKVVKAADIVADIGLEIVNPEQVICTVTTDRTLDMEFLV 160 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D+DKL++ ++TDG Sbjct: 161 DTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRITDFDKLTLNVETDG 220 Query: 210 SITGEDSVALASRILQDQLGMFI-------NFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 SI D+++ A +L+ L F+ N + +E+ E+ + + + K+EE Sbjct: 221 SIEIRDAISYAVELLRLHLDPFLEIGNKMENLRDEIEEIIEEPIDIQVIDDKSHDMKIEE 280 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 L+L+VRS NCL+ I + L + ++L++ N G+KSL EI + +G L N Sbjct: 281 LDLTVRSFNCLKKAGIEDVSQLASLSLNELLKIKNLGKKSLDEILEKMKDLGYDLEKN 338 >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 = 197 bits (501), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 115/295 (38%), Positives = 182/295 (61%), Gaps = 22/295 (7%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A LGN+LRR+L+SS+ GAAI+ V+++ V HE SSI GV ED+++II+N+K + Sbjct: 27 PLVKGEATVLGNSLRRILLSSMPGAAISEVKVESVYHEFSSIAGVKEDVSEIIMNLKKLA 86 Query: 94 LKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVVRMELTVS 150 ++ + S + V + G GV+ A DI+ ++IE++NP+ VI L DA + ME+ ++ Sbjct: 87 VRNTSSSDEAVMAYIDYAGEGVIRAADIRVSSEIEIVNPEQVIATLSGKDAKLYMEMKIT 146 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GY A PIG+I +DA+Y+P+ KV+ +V+ + +L + + T+G+ Sbjct: 147 KGRGYDGANTRDHSELPIGVIAVDAVYTPVTKVNVSVKDLGRSE-----RLVLDVMTNGT 201 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA-------LLKKVEEL 263 + +D+V+LA++I+Q L +FI+ + KE LP N A + K ++EL Sbjct: 202 LAPDDAVSLAAKIMQTHLQLFIDMDNTVKE-------PFLPGNTAVEDVQDEMNKSIDEL 254 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 ELSVRS NCL+ I + DL ++T D++++ N GRKSL EI L +MGL L Sbjct: 255 ELSVRSYNCLKRAGINTVEDLCEKTMDDLMKVRNMGRKSLDEILNKLESMGLSLA 309 >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 = 197 bits (501), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 96/196 (48%), Positives = 141/196 (71%) 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 LQDQLGMFINFEEPKK 239 + + L +F+N + K Sbjct: 181 MTEHLDIFVNLTDEAK 196 >gi|108792411|emb|CAJ33183.1| RNA polymerase alpha subunit [Lactobacillus agilis] Length = 227 Score = 197 bits (501), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 100/212 (47%), Positives = 147/212 (69%), Gaps = 2/212 (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 SKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GYV A ++ +ND PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T Sbjct: 121 DKGRGYVSASDNKAKNDEMPIGVLAIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +GSIT ++++L+++IL + L +F++ + K Sbjct: 181 NGSITPSEAISLSAKILTEHLTLFVDLTDEAK 212 >gi|161511767|emb|CAP16894.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 219 Score = 197 bits (500), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 102/215 (47%), Positives = 144/215 (66%), Gaps = 2/215 (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 SKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 G GY A + R + PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ I T Sbjct: 121 DTGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDIWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 DGSIT ++ +L+++IL + L +F+N + KE + Sbjct: 181 DGSITPSEATSLSAKILTEHLAIFVNLNDQAKETE 215 >gi|328813977|gb|AEB52104.1| DNA-directed RNA polymerase alpha chain [Lactobacillus helveticus] Length = 237 Score = 197 bits (500), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 96/202 (47%), Positives = 136/202 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+ Sbjct: 5 FVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNL 64 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK D K + + GP VTA D++ D++VLNPD IC + + ME+ V Sbjct: 65 KKLELKSFSDERKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMEIAV 124 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDG Sbjct: 125 QNGRGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDG 184 Query: 210 SITGEDSVALASRILQDQLGMF 231 SI D+++ A++IL + +F Sbjct: 185 SIKPNDALSFAAKILVEHFKVF 206 >gi|154424845|emb|CAL18525.1| RNA polymerase alpha subunit [Streptococcus pyogenes] Length = 219 Score = 197 bits (500), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 96/210 (45%), Positives = 146/210 (69%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 +I ED++ L++R+L + L +F + E K Sbjct: 181 TIIPEDALGLSARVLIEHLNLFTDLTEVAK 210 >gi|119672799|emb|CAK95483.1| RNA polymerase alpha subunit [Lactobacillus agilis] Length = 214 Score = 197 bits (500), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 100/212 (47%), Positives = 147/212 (69%), Gaps = 2/212 (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 SKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GYV A ++ +ND PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T Sbjct: 121 DKGRGYVSASDNKAKNDEMPIGVLAIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +GSIT ++++L+++IL + L +F++ + K Sbjct: 181 NGSITPSEAISLSAKILTEHLTLFVDLTDEAK 212 >gi|295809864|emb|CBL85108.1| alpha subunit of RNA polymerase [Vibrio tapetis] Length = 244 Score = 197 bits (500), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 103/243 (42%), Positives = 162/243 (66%), Gaps = 8/243 (3%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVT 115 G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +K++ G +T+ K G G V Sbjct: 3 GCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVKVAEGKDEVFITLNKSGSGPVV 62 Query: 116 AGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLI 171 AGDI D+E+ NP+HVIC+L D +A + M + V +G GYVPA H + PIG + Sbjct: 63 AGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASSRIHTEEDERPIGRL 122 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ ++ IL +QL F Sbjct: 123 LVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRSATILAEQLDAF 182 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 ++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE + Sbjct: 183 VDLRDIRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVE 239 Query: 292 MLR 294 +L+ Sbjct: 240 LLK 242 >gi|119662289|emb|CAJ33131.1| RNA polymerase alpha subunit [Lactobacillus casei] Length = 211 Score = 197 bits (500), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 96/202 (47%), Positives = 144/202 (71%) 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 ALASRILQDQLGMFINFEEPKK 239 +LA++IL + L +F+N + K Sbjct: 181 SLAAKILTEHLDIFVNLTDEAK 202 >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 = 197 bits (500), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 114/291 (39%), Positives = 170/291 (58%), Gaps = 12/291 (4%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG T+GNALRRVL+S+L G AITAV+I GV HE ++I G ED+ +I+LN+K Sbjct: 27 PLDRGQGITVGNALRRVLLSNLEGTAITAVRIAGVNHEFATIDGAREDVLEIMLNLKEAV 86 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK + + +GP VT G +++EV++ + I L A + ME + KG Sbjct: 87 LKSHTHQKQIGRLLVQGPATVTVGHFDLPSEVEVVDKNQYIATLSPGATLEMECQIEKGT 146 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY HR ++ + + IDA++ P++KV+YTVE AR+G L+ D+L++ I T GS+T Sbjct: 147 GYRAVDRHRDDSAALDFLQIDAIFMPVRKVNYTVEDARDGGSLEKDRLTLEIWTSGSLTP 206 Query: 214 EDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTN 271 +++++ A+ IL D G IN E + ++DI +P +EEL+LSVR+ N Sbjct: 207 QEAISQAAAILVDLFGALKDINLESITSDQRDDI-------DPTSQIPIEELQLSVRAYN 259 Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 CL+ I + DL TE D+L + NFG+KS E+ L LG+ LP Sbjct: 260 CLKRAQINSVADLRDYTEEDLLEIKNFGQKSAEEVIEALQNR---LGITLP 307 >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 = 197 bits (500), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 107/277 (38%), Positives = 167/277 (60%), Gaps = 4/277 (1%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL G+ HTLGNALRRVL++++ G+AIT V++ GV E I GV ED+ ++ILN+KGI Sbjct: 24 EPLDPGYGHTLGNALRRVLLTAIPGSAITHVRVTGVYQETDRIPGVTEDMVELILNLKGI 83 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSK 151 +L+ + TI K+GPGVVTA D+ + V++PDH IC L+ + A + + T+ + Sbjct: 84 HLRGHHEGTVTATIRKQGPGVVTAADLVLPEGLAVVDPDHYICTLEHEQAQIELTATIER 143 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GY+ A P+G I IDA+++P+ +V+Y VE+ R GQ D+D+L + + T+G++ Sbjct: 144 GRGYLSADQRGIL--PLGEIPIDAIFTPVPRVNYIVENTRIGQATDFDRLILEVWTNGTV 201 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL-KKVEELELSVRST 270 D++ A+R+L NF E + L P++ +E LELS R+ Sbjct: 202 RPVDALDYAARVLVHYNTTIANFNRMAVEPEAQPETTGLEIPPSVYDTSIETLELSTRTY 261 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 NCL+ I +G ++Q E +L + N G+KS+ EI+ Sbjct: 262 NCLKRAEITKIGQVLQMDEKALLSVRNLGQKSMEEIR 298 >gi|308125187|gb|ADO14942.1| DNA-directed RNA polymerase alpha chain [Enterococcus devriesei] Length = 204 Score = 196 bits (499), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 97/196 (49%), Positives = 138/196 (70%) 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 LQDQLGMFINFEEPKK 239 L + L +F+N + K Sbjct: 181 LTEHLDIFVNLTDEAK 196 >gi|119668355|emb|CAK95472.1| RNA polymerase alpha subunit [Lactobacillus plantarum] Length = 214 Score = 196 bits (499), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 100/200 (50%), Positives = 143/200 (71%), Gaps = 2/200 (1%) 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 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK-- 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 ASRILQDQLGMFINFEEPKK 239 +++IL D L +F+N + K Sbjct: 181 SAKILTDHLSIFVNLTDEAK 200 >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 = 196 bits (499), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 113/292 (38%), Positives = 178/292 (60%), Gaps = 1/292 (0%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 E+N PL RG+ TLGN++RRVL+ SL G+AI V+IDGV HE ++IKG D+ Sbjct: 17 EKNYGKFAIMPLDRGYGTTLGNSMRRVLLGSLPGSAIATVKIDGVGHEFTTIKGSIADVP 76 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 +I++NIKGI LK D + + +GP VVTAGDI ++E+ N DH I L+ + + Sbjct: 77 EILINIKGIALKKFNDEPVILELNVKGPKVVTAGDISENQNVEIANKDHYITTLNEEGEI 136 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 RM+L V G GY + ++ D I I +D+ +SP+KKV++ V + R GQ +D+DKL + Sbjct: 137 RMDLLVLNGKGYRVSDLNKEYCD-INSIAVDSSFSPVKKVNFIVGNTRVGQSIDFDKLEI 195 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 + T+G+IT +++++ + I D L +F + + + + K L N L K VEEL Sbjct: 196 EVWTNGTITPQEALSTGAGIFIDYLSLFRSLPDINLDNSSIKDGKILDANGVLSKSVEEL 255 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 +LS+RS NCL+ N+ + D+I + + ++ NFG+KS+ E+ + +GL Sbjct: 256 DLSLRSFNCLKRANLDTVKDIISQDIEQLKKIKNFGKKSVEEVVDKIHELGL 307 >gi|119662297|emb|CAJ33135.1| RNA polymerase alpha subunit [Lactobacillus curvatus] Length = 223 Score = 196 bits (499), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 94/206 (45%), Positives = 145/206 (70%) 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 EDSVALASRILQDQLGMFINFEEPKK 239 ++++LA++I+ + L +F++ + K Sbjct: 181 REAISLAAKIMTEHLAIFVDLTDEAK 206 >gi|308125189|gb|ADO14943.1| DNA-directed RNA polymerase alpha chain [Enterococcus pallens] Length = 204 Score = 196 bits (499), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 97/196 (49%), Positives = 138/196 (70%) 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 LQDQLGMFINFEEPKK 239 L + L +F+N + K Sbjct: 181 LTEHLDIFVNLTDEAK 196 >gi|119668361|emb|CAK95513.1| RNA polymerase alpha subunit [Lactobacillus reuteri] Length = 211 Score = 196 bits (498), Expect = 4e-48, Method: Compositional matrix adjust. 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 YVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 Y+ A ++ D 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|86438814|emb|CAJ43372.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 226 Score = 196 bits (498), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 96/202 (47%), Positives = 136/202 (67%) 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 SITGEDSVALASRILQDQLGMF 231 SI D+++ A++IL + +F Sbjct: 181 SIKPNDALSFATKILVEHFKVF 202 >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 = 196 bits (498), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 96/202 (47%), Positives = 136/202 (67%) 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 SITGEDSVALASRILQDQLGMF 231 SI D+++ A++IL + +F Sbjct: 181 SIKPNDALSFAAKILVEHFKVF 202 >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 = 196 bits (498), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 120/298 (40%), Positives = 185/298 (62%), Gaps = 23/298 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE S+I G+ ED+TDIILN+ Sbjct: 23 FVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHEFSTIPGIREDVTDIILNL 82 Query: 90 KGINLKMSGDSHKRVTI---FKRGPGVVTAGDI--QTVNDIEVLNPDHVICNLDVDAVVR 144 K + +K+ ++ + + F++ G++TA D+ Q ++EVLNP+ VI +D A + Sbjct: 83 KQLCIKVEEEAQLPLEVHFDFQK-DGILTAADLAEQFPPEVEVLNPELVIATMDETAHLV 141 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V R G +D+DKL++ Sbjct: 142 MDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEVSDVRVGNEMDFDKLTLE 201 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN----------VKSLPFNP 254 + TDGSIT D+VA ++ I+ LG F V D+N V S P Sbjct: 202 VWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSADVV--DVNTGEGGIVIDPVGSDNEEP 259 Query: 255 ALLK-----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 A+ ++ELELSVR+ NCL+ I + DL+ +T D+ ++ N G+KS+ EI+ Sbjct: 260 AVDDGPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGKVRNLGKKSIDEIE 317 >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 = 196 bits (497), Expect = 5e-48, Method: Compositional matrix adjust. Identities = 126/340 (37%), Positives = 195/340 (57%), Gaps = 29/340 (8%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++K ++ P IE++ Q++ + P RGF T+GN LRRVL+SS+ G AIT Sbjct: 3 VEKFLKDFTIPEKIEFLK-SQDDGSYGKFTIYPFERGFGVTIGNTLRRVLLSSIEGYAIT 61 Query: 62 AVQIDG---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTI-FK--- 108 A+++ V E I GV ED ++I NIK I+LK+ G+ +R TI F Sbjct: 62 AMRVQSNNKDSSSKIVSSEFDLIPGVSEDTLEVIANIKNIHLKL-GEGEQRKTISFSISG 120 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 + V+ A + + +EV N D VI NL DA + E ++ G GYV ++ + + + Sbjct: 121 KDTSVLKASHFER-DGVEVFNKDLVIANLSHDANLDFEFQINYGRGYVSSEQNSKYLEEV 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 GMFINFEEPKKEVKEDINV-----KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGD 283 ++FE +++N+ KS +N L +E+L+LSVRS NCL EN+ +G+ Sbjct: 240 FPLVDFE-------DNVNISFEKSKSESYN-LLDMSIEKLDLSVRSLNCLAKENVRTLGE 291 Query: 284 LIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 LI + ++ + NFG+KSL EI LG+ LFLGM+ D Sbjct: 292 LISKNAEELSKARNFGKKSLEEIIEKLGSYRLFLGMSKED 331 >gi|308125195|gb|ADO14946.1| DNA-directed RNA polymerase alpha chain [Enterococcus sanguinicola] Length = 204 Score = 196 bits (497), Expect = 5e-48, Method: Compositional matrix adjust. Identities = 97/196 (49%), Positives = 138/196 (70%) 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 LQDQLGMFINFEEPKK 239 + + L +F+N + K Sbjct: 181 MTEHLDIFVNLTDEAK 196 >gi|150187102|emb|CAK30171.1| RNA polymerase alpha subunit [Streptococcus agalactiae] Length = 219 Score = 196 bits (497), Expect = 6e-48, Method: Compositional matrix adjust. Identities = 94/210 (44%), Positives = 146/210 (69%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 +I ED++ L++R+L + L +F + E K Sbjct: 181 TIIPEDALGLSARVLIEHLNLFTDLTEVAK 210 >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 = 196 bits (497), Expect = 6e-48, Method: Compositional matrix adjust. Identities = 120/298 (40%), Positives = 184/298 (61%), Gaps = 23/298 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE S+I G+ ED+TDIILN+ Sbjct: 23 FVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHEFSTIPGIREDVTDIILNL 82 Query: 90 KGINLKMSGDSHKRVTI---FKRGPGVVTAGDI--QTVNDIEVLNPDHVICNLDVDAVVR 144 K + +K+ ++ + + F++ G++TA D+ Q ++EVLNP+ VI +D A Sbjct: 83 KQLCIKVEEEAQLPLEVHFDFQK-DGILTAADLAEQFPPEVEVLNPELVIATMDETAHFV 141 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V R G +D+DKL++ Sbjct: 142 MDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEVSDVRVGNEMDFDKLTLE 201 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN----------VKSLPFNP 254 + TDGSIT D+VA ++ I+ LG F V D+N V S P Sbjct: 202 VWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSADVV--DVNTGEGGIVIDPVGSDNEEP 259 Query: 255 ALLK-----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 A+ ++ELELSVR+ NCL+ I + DL+ +T D+ ++ N G+KS+ EI+ Sbjct: 260 AVDDGPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGKVRNLGKKSIDEIE 317 >gi|119662363|emb|CAJ33170.1| RNA polymerase alpha subunit [Lactobacillus spicheri] Length = 210 Score = 195 bits (496), Expect = 6e-48, Method: Compositional matrix adjust. Identities = 98/208 (47%), Positives = 145/208 (69%), Gaps = 4/208 (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 PAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A ++ N PIG++ +D++Y+PI++V+Y VE+AR GQ DYDKL++ + T+GSI Sbjct: 121 SADENKARNTEMPIGVLAVDSIYTPIERVNYQVENARVGQRADYDKLTLDVWTNGSINPS 180 Query: 215 DSVALASRILQDQLGMFINFEEPKKEVK 242 ++++LA++IL + L MF++ + K + Sbjct: 181 EAISLAAKILTEHLAMFVDLTDEAKNAE 208 >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 = 195 bits (496), Expect = 7e-48, Method: Compositional matrix adjust. Identities = 119/305 (39%), Positives = 177/305 (58%), Gaps = 24/305 (7%) Query: 22 QEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 +EE+N + P+ RG+A T+GNALRRVL+SS+ AIT ++I G HE +I GV Sbjct: 24 REEQNSYYAKFVLSPMERGYAVTIGNALRRVLLSSIPSMAITRLKIPGKYHEYDTIDGVK 83 Query: 80 EDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 ED+ +IILN+K + LK + +++I K+GP ++TAGDI+ +EV+NP I L Sbjct: 84 EDILEIILNLKKVQLKPALEFSDPVKLSIEKKGPAILTAGDIKAPTGVEVVNPSQYIATL 143 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + DA V MEL G G+VP E D + +I ID ++SP+ KV++ E+ R G+ D Sbjct: 144 NEDAAVYMELFAEIGKGFVPVSEMELEQD-VEMIYIDGIFSPVLKVNFISENVRVGKKTD 202 Query: 198 YDKLSMTIDTDGSITGEDSVALASRIL--------------QDQLGMFIN-----FEEPK 238 YDKL + + T SI +++ A+ IL D G+ +N E Sbjct: 203 YDKLILEVWTKKSIKPTEALLKATDILIKHFEVTTSSLNQVLDNSGILVNSASIFEPEEP 262 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + +E + + L +++EELELSVRS NCL+ + I +GDLI RTEAD+L++ NF Sbjct: 263 QPEEEPVEEPISEEDSVLSRRIEELELSVRSLNCLKRDKINTIGDLISRTEADLLKIRNF 322 Query: 299 GRKSL 303 G KS+ Sbjct: 323 GDKSM 327 >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 = 195 bits (496), Expect = 8e-48, Method: Compositional matrix adjust. Identities = 120/298 (40%), Positives = 185/298 (62%), Gaps = 23/298 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE S+I G+ ED+TDIILN+ Sbjct: 23 FVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHEFSTIPGIREDVTDIILNL 82 Query: 90 KGINLKMSGDSHKRVTI---FKRGPGVVTAGDI--QTVNDIEVLNPDHVICNLDVDAVVR 144 K + +K+ ++ + + F++ G++TA D+ Q ++EVLNP+ VI +D A + Sbjct: 83 KQLCIKVEEEAQLPLEVHFDFQK-DGILTATDLAEQFPPEVEVLNPELVIATMDETAHLV 141 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V R G +D+DKL++ Sbjct: 142 MDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEVSDVRVGNEMDFDKLTLE 201 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN----------VKSLPFNP 254 + TDGSIT D+VA ++ I+ LG F V D+N V S P Sbjct: 202 VWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSADVV--DVNTGEGGIVIDPVGSDNEEP 259 Query: 255 ALLK-----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 A+ ++ELELSVR+ NCL+ I + DL+ +T D+ ++ N G+KS+ EI+ Sbjct: 260 AVDDGPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGKVRNLGKKSIDEIE 317 >gi|162955842|gb|ABY25296.1| RNA polymerase alpha subunit [Vibrio sp. MSSRF7] Length = 240 Score = 195 bits (496), Expect = 8e-48, Method: Compositional matrix adjust. Identities = 105/231 (45%), Positives = 158/231 (68%), Gaps = 8/231 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 12 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 71 Query: 93 NLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS 150 ++++ G +T+ K G G V AGDI D+E++NP+HVIC+L D +A V M + V Sbjct: 72 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLNDDNAEVAMRIKVQ 131 Query: 151 KGHGYVP--AKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVP A+ H E+D PIG + +DA YSP+ K++YTVE+AR Q D DKL + ++T Sbjct: 132 RGRGYVPASARIHTDEDDRPIGRLLVDATYSPVDKIAYTVEAARVEQRTDLDKLVIDMET 191 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +G+I E+++ A+ IL +QL F++ + + + + F+P LL+ Sbjct: 192 NGTIEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLR 239 >gi|150187156|emb|CAK30183.1| RNA polymerase alpha subunit [Streptococcus halichoeri] Length = 223 Score = 195 bits (496), Expect = 8e-48, Method: Compositional matrix adjust. Identities = 95/210 (45%), Positives = 146/210 (69%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 +I ED++ L++R+L + L +F + E K Sbjct: 181 TIIPEDALGLSARVLIEHLNLFTDLTEVAK 210 >gi|289524824|emb|CBJ94468.1| alpha subunit of RNA polymerase [Vibrio sp. Cmf 6.5] Length = 241 Score = 195 bits (495), Expect = 9e-48, Method: Compositional matrix adjust. Identities = 103/242 (42%), Positives = 160/242 (66%), Gaps = 8/242 (3%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVT 115 G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ + ++ G +T+ K G G V Sbjct: 3 GCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVCVAEGKDEVFITLNKSGSGPVV 62 Query: 116 AGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLI 171 AGDI D+E+ NP+HVIC+L D +A + M + V +G GYVPA H + PIG + Sbjct: 63 AGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRL 122 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F Sbjct: 123 LVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAF 182 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 ++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE + Sbjct: 183 VDLRDVRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVE 239 Query: 292 ML 293 +L Sbjct: 240 LL 241 >gi|161511771|emb|CAP16896.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 229 Score = 195 bits (495), Expect = 9e-48, Method: Compositional matrix adjust. Identities = 101/211 (47%), Positives = 142/211 (67%), Gaps = 2/211 (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 GYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A + R + PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ I TDGSI Sbjct: 121 GYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDIWTDGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVK 242 T ++ +L+++IL + L +F+N + KE + Sbjct: 181 TPSEATSLSAKILTEHLAIFVNLNDQAKETE 211 >gi|161511747|emb|CAP16884.1| DNA-directed RNA polymerase subunit alpha [Pediococcus inopinatus] Length = 215 Score = 195 bits (495), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 95/200 (47%), Positives = 140/200 (70%), Gaps = 2/200 (1%) 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 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A ++ Sbjct: 61 EIDVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAILTADTGRGYVSADENKAR 120 Query: 165 ND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 D PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ ++ +L+++ Sbjct: 121 KDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSISPSEATSLSAK 180 Query: 223 ILQDQLGMFINFEEPKKEVK 242 IL + L +F+N + K+ + Sbjct: 181 ILTEHLALFVNLTDEAKDAE 200 >gi|168805075|gb|ACA28616.1| DNA-directed RNA polymerase subunit alpha [Thiomonas perometabolis] Length = 228 Score = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 100/228 (43%), Positives = 149/228 (65%), Gaps = 3/228 (1%) Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 G+ ED+ ++LN+KG+ LK+ +++ K G GVVTA DIQT +D+E++NPDHVI + Sbjct: 1 GLQEDVIGVLLNLKGVVLKLHNRDEVTLSLRKEGEGVVTAADIQTPHDVEIINPDHVIAH 60 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSYTVESAREG 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 = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. 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 LDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSYTVESAREG 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|197941213|gb|ACH78326.1| RNA polymerase [Streptococcus equi subsp. zooepidemicus] Length = 226 Score = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 94/210 (44%), Positives = 146/210 (69%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 +I ED++ L++R+L + L +F + + K Sbjct: 181 TIIPEDALGLSARVLIEHLNLFTDLTDVAK 210 >gi|308125193|gb|ADO14945.1| DNA-directed RNA polymerase alpha chain [Enterococcus saccharolyticus] Length = 204 Score = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 96/196 (48%), Positives = 137/196 (69%) 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 LQDQLGMFINFEEPKK 239 + + L +F+N + K Sbjct: 181 MTEHLDIFVNLTDEAK 196 >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 = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 125/341 (36%), Positives = 185/341 (54%), Gaps = 22/341 (6%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 G + + IAEPL RG HTLGNALRR L+ L AI + + GVLHE +I G+ E Sbjct: 8 GGSVDKQASFIAEPLERGMGHTLGNALRRALLIGLEAPAIISFSMTGVLHEYMAINGIIE 67 Query: 81 DLTDIILNIKGINLK---MSGDSHKRVTIFKR--------------GPGVVTAGDIQTVN 123 D+T+IILN+KG LK + R T + G VT D+ Sbjct: 68 DVTNIILNLKGALLKKYPFQDSENGRCTQLLKSKVSIDASDLAACGGQKAVTLADLLQEG 127 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E +NPDHVI + + + L V+ G GY ++ E+ + I +DA +SP+ V Sbjct: 128 GFESVNPDHVIFTVTQPMQLDITLRVAFGRGYTTSERIVLEDKGVNEIVLDAAFSPVVLV 187 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE R GQ D+D+L + ++TDG ++ ++++A +++IL +F +E K +E Sbjct: 188 NYFVEDTRVGQDTDFDRLILHVETDGRVSPKEALAFSTQILTKHFSIFEKMDEKKIVFEE 247 Query: 244 DINVKSLPFNPALLKKV---EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 I+++ + L K V E+ELSVRSTNCL NI +G+L+ E +L+ NFG+ Sbjct: 248 AISIEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIGELVIMPEPRLLQFRNFGK 307 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 KSL EIK L M L LGM+L + ++++E K Y DK Sbjct: 308 KSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYADK 348 >gi|119668315|emb|CAK95458.1| RNA polymerase alpha subunit [Lactobacillus gallinarum] Length = 214 Score = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 96/199 (48%), Positives = 135/199 (67%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + Sbjct: 2 EPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKL 61 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LK D K + + GP VTA D++ D++VLNPD IC + + ME+ V G Sbjct: 62 ELKSLSDERKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMEIAVQNG 121 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI Sbjct: 122 RGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIK 181 Query: 213 GEDSVALASRILQDQLGMF 231 D+++ A++IL + +F Sbjct: 182 PNDALSFAAKILVEHFKVF 200 >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 = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 113/320 (35%), Positives = 187/320 (58%), Gaps = 15/320 (4%) 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 VLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 ++N D I ++ + ++ME+ + +G GYV + + G + +DA +SPIK ++ Sbjct: 119 IINKDAYIATINSANTTLKMEIRIERGKGYVMSDEMEQIGEA-GWVVLDADFSPIKVAAF 177 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN--FEEPK--KEV 241 VE+ R G DYDKL+ + T+G ++ + ++ A ++ + M N +E P + + Sbjct: 178 RVEATRVGDRTDYDKLTFELTTNGVVSPDTAIQQAVELIVKHMNMLTNISYEVPTLPEPM 237 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 D ++ L F+ +EEL++S R+ N L+ + +G+L+Q TE ++ N GRK Sbjct: 238 PPDELMEKLTFS------IEELDISQRALNSLKRIGVTTIGELVQLTEDELKSSKNIGRK 291 Query: 302 SLVEIKGVLGTMGLFLGMNL 321 +L EIK L MG LGMN+ Sbjct: 292 ALTEIKEALKNMGFSLGMNI 311 >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 = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 125/341 (36%), Positives = 185/341 (54%), Gaps = 22/341 (6%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 G + + IAEPL RG HTLGNALRR L+ L AI + + GVLHE +I G+ E Sbjct: 28 GGSVDKQASFIAEPLERGMGHTLGNALRRALLIGLEAPAIISFSMTGVLHEYMAINGIIE 87 Query: 81 DLTDIILNIKGINLK---MSGDSHKRVTIFKR--------------GPGVVTAGDIQTVN 123 D+T+IILN+KG LK + R T + G VT D+ Sbjct: 88 DVTNIILNLKGALLKKYPFQDSENGRCTQLLKSKVSIDASDLAACGGQKAVTLADLLQEG 147 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E +NPDHVI + + + L V+ G GY ++ E+ + I +DA +SP+ V Sbjct: 148 GFESVNPDHVIFTVTQPMQLDITLRVAFGRGYTTSERIVLEDKGVNEIVLDAAFSPVVLV 207 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE R GQ D+D+L + ++TDG ++ ++++A +++IL +F +E K +E Sbjct: 208 NYFVEDTRVGQDTDFDRLILHVETDGRVSPKEALAFSTQILTKHFSIFEKMDEKKIVFEE 267 Query: 244 DINVKSLPFNPALLKKV---EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 I+++ + L K V E+ELSVRSTNCL NI +G+L+ E +L+ NFG+ Sbjct: 268 AISIEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIGELVIMPEPRLLQFRNFGK 327 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 KSL EIK L M L LGM+L + ++++E K Y DK Sbjct: 328 KSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYADK 368 >gi|119662361|emb|CAJ33169.1| RNA polymerase alpha subunit [Lactobacillus zymae] Length = 202 Score = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 98/199 (49%), Positives = 143/199 (71%), Gaps = 4/199 (2%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--D 99 TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILN+K I LK++G D Sbjct: 2 TLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNVKKIALKLNGADD 61 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 + + I +GP VTAGDI D++VLNPD I + A M +T KG GYV A Sbjct: 62 QEETMEINVKGPAQVTAGDIVAGADVDVLNPDLYIATVADGATFHMRMTADKGRGYVSAD 121 Query: 160 HHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 ++T N PIG++ +D++Y+PI++V+Y VE+AR GQ DYDKL++ + T+GSI +++ Sbjct: 122 ENKTRNTEMPIGVLAVDSIYTPIERVNYQVENARVGQRADYDKLTLDVWTNGSINPSEAI 181 Query: 218 ALASRILQDQLGMFINFEE 236 +LA++IL + L MF++ + Sbjct: 182 SLAAKILTEHLAMFVDLTD 200 >gi|158148899|dbj|BAF81984.1| RNA polymerase alpha subunit [Lactobacillus senmaizukei] Length = 199 Score = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 98/197 (49%), Positives = 142/197 (72%), Gaps = 4/197 (2%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--D 99 TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+++GV ED+T IILN+K I LK++G D Sbjct: 3 TLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTVEGVVEDVTQIILNVKKIALKLNGSDD 62 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 + + I +GP VTAGDI T D++VLNPD I + A M +T KG GYV A Sbjct: 63 QEETMEINVKGPAQVTAGDIVTGADVDVLNPDLYIATVADGATFHMRMTADKGRGYVSAD 122 Query: 160 HHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 ++ N PIG++ +D++Y+PI++V+Y VE+AR GQ DYDKL++ + T+GSI +++ Sbjct: 123 ENKARNTDMPIGVLAVDSIYTPIERVNYQVENARVGQRADYDKLTLDVWTNGSINPSEAI 182 Query: 218 ALASRILQDQLGMFINF 234 ALA++IL + L MF++ Sbjct: 183 ALAAKILTEHLAMFVDL 199 >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 = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 111/297 (37%), Positives = 171/297 (57%), Gaps = 16/297 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG T+GNALRRVL+S+L+G A+TAV+I GV HE ++I GV ED DI+L + Sbjct: 22 FVLEPLERGQGTTVGNALRRVLLSNLKGTAVTAVRIAGVNHEFATIPGVREDALDILLRM 81 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L+ + +F +GP VTA + + D+EV+N DH I L DA + ME + Sbjct: 82 KELVLRSYSPDPQIGRLFIQGPATVTAINFEVSPDVEVINLDHYIATLSADATLEMEFKI 141 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY + + E+ + + IDA++ P++KV+YTVE AR G +++ D+L + I T+G Sbjct: 142 EQGKGYRAIERGKDESASLDFLQIDAIFMPVRKVNYTVEDARSGGLVEKDRLVLEIWTNG 201 Query: 210 SITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 S+T ++++ + IL D EP +ED +P +E L L Sbjct: 202 SLTPQEALNQGASILVDLFNPLKDVPFRSSEPSHSTEED-ETNQIP--------IESLNL 252 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 SVR+ NCL+ I + DL++ ++ D+L + NFG KS E V+ + LG+ LP Sbjct: 253 SVRAYNCLKRAQINTVADLLEYSQEDLLEIKNFGAKSAEE---VIEALHKNLGITLP 306 >gi|119662817|emb|CAJ33200.1| RNA polymerase alpha subunit [Lactobacillus homohiochii] Length = 205 Score = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 99/199 (49%), Positives = 145/199 (72%), Gaps = 4/199 (2%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH--K 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 SRILQDQLGMFINFEEPKK 239 ++IL +FI+ + K Sbjct: 181 AKILNQHFQLFIDLTDRAK 199 >gi|161511709|emb|CAP16865.1| DNA-directed RNA polymerase subunit alpha [Pediococcus inopinatus] Length = 204 Score = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 95/200 (47%), Positives = 140/200 (70%), Gaps = 2/200 (1%) 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 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A ++ Sbjct: 61 EIDVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAILTADTGRGYVSADENKAR 120 Query: 165 ND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 D PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ ++ +L+++ Sbjct: 121 KDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSISPSEATSLSAK 180 Query: 223 ILQDQLGMFINFEEPKKEVK 242 IL + L +F+N + K+ + Sbjct: 181 ILTEHLALFVNLTDEAKDAE 200 >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 = 194 bits (494), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 111/289 (38%), Positives = 169/289 (58%), Gaps = 3/289 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL +GF T+GN+LRR+L+S L G AIT V+IDG+ HE S++ ED D +LN+ Sbjct: 21 FVVEPLEKGFGTTMGNSLRRILLSYLDGVAITRVRIDGIQHEFSALPKAKEDTLDFLLNL 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV-DAVVRMELT 148 K I ++ + + G VVTA DI+ ND V+NP+ + LD DAV+ +EL Sbjct: 81 KNIRVESLSGLEGILYLRASGSKVVTAADIEPSNDFAVVNPELYLLTLDSDDAVLNVELE 140 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V G GY P + TEN PIG I +DA+++PI+KV++T E G+ ++L + + TD Sbjct: 141 VELGRGYRPPES--TENTPIGTIPVDAIFTPIRKVNFTTEPMHVGRETSLERLVLEVWTD 198 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ +V+ ++ IL Q ++ + EV+ VK +E+L+LSVR Sbjct: 199 GTVEPATAVSRSADILVKQFAALVSHSKVVAEVEASEPVKYAIPEEKYNMPIEQLDLSVR 258 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + NCLR I +G++I R ++L + NFG KSL E++ L T+GL L Sbjct: 259 AVNCLRHAGITTVGEVINRGTKELLTLRNFGLKSLTELEDRLKTIGLSL 307 >gi|154424745|emb|CAL18475.1| RNA polymerase alpha subunit [Streptococcus salivarius] Length = 214 Score = 194 bits (493), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 93/206 (45%), Positives = 144/206 (69%) 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 EDSVALASRILQDQLGMFINFEEPKK 239 ED++ L++R+L + L +F + + K Sbjct: 181 EDALGLSARVLIEHLNLFTDLTDVAK 206 >gi|71056854|emb|CAH58982.1| DNA-directed RNA polymerase alpha chain [Enterococcus asini] Length = 204 Score = 194 bits (493), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 96/199 (48%), Positives = 140/199 (70%) 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 LQDQLGMFINFEEPKKEVK 242 + + L +F+N + K V+ Sbjct: 181 MTEHLDIFVNLTDEAKNVE 199 >gi|154424747|emb|CAL18476.1| RNA polymerase alpha subunit [Streptococcus pneumoniae] Length = 216 Score = 194 bits (493), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 94/206 (45%), Positives = 141/206 (68%) Query: 37 RGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 RG+ TLGN+LRRVL++SL GAA+T++ IDGVLHE ++ GV ED+ IILNIKGI +K Sbjct: 2 RGYGTTLGNSLRRVLLASLPGAAVTSINIDGVLHEFDTVPGVREDVMQIILNIKGIAVKS 61 Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 + K + + GP VTAGDI T +DIE++NPDH + + + ++ +TV+ G GYV Sbjct: 62 YVEDEKIIELDVEGPAEVTAGDILTDSDIEIVNPDHYLFTIGEGSSLKATMTVNSGRGYV 121 Query: 157 PAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 PA ++ +N P+G + +D++Y+P+ KV+Y VE AR G +DKL++ I T+G+I ED+ Sbjct: 122 PADENKKDNAPVGTLAVDSIYTPVTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDA 181 Query: 217 VALASRILQDQLGMFINFEEPKKEVK 242 + L++RIL + L +F N E K + Sbjct: 182 LGLSARILTEHLDLFTNLTEIAKSTE 207 >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 = 194 bits (492), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 118/300 (39%), Positives = 175/300 (58%), Gaps = 17/300 (5%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ T+GN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ +ILN+K + Sbjct: 22 EPLKRGYGVTIGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDVIQLILNLKEL 81 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K K +T+ +G GVVTAG + +D E++NPD VI NL D + ME+ V +G Sbjct: 82 VVKFHAPGPKTLTLRAQGQGVVTAGAFEVPSDAEIVNPDLVIANLAEDGKLVMEVRVEEG 141 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYVPA H T+ D I I +DA+YSP+++V+Y VE+ R GQ D D+L + I TDGS Sbjct: 142 EGYVPADKHATK-DRINSIPVDAVYSPVRRVAYHVENTRVGQQTDLDRLIIRIWTDGSAD 200 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEV-----------KEDINVKSLPFNPALLKK-- 259 + ++ +A L+D+L +F N E + E +++ P+ PA L Sbjct: 201 PQSALDMAVDTLRDELSVFGNVETIQAETVVTPAAYDLPQPSALSINPQPY-PADLDSPK 259 Query: 260 --VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E L L+ R + L+ E I + L ++ D+ ++ G +SL EIK L GL L Sbjct: 260 VTLEGLGLTTRVLHSLKEEGIDSVDALCALSDRDLKKVPGIGERSLDEIKAQLAQFGLSL 319 >gi|119662319|emb|CAJ33147.1| RNA polymerase alpha subunit [Lactobacillus kalixensis] Length = 208 Score = 194 bits (492), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 94/199 (47%), Positives = 137/199 (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 GEDSVALASRILQDQLGMF 231 D+++ A++IL + +F Sbjct: 181 PNDALSFAAKILVEHFKVF 199 >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 = 194 bits (492), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 112/289 (38%), Positives = 169/289 (58%), Gaps = 3/289 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL +GF T+GN+LRR+L+S L G AIT V+IDG+ HE S++ ED D +LN+ Sbjct: 21 FVVEPLEKGFGTTMGNSLRRILLSYLDGVAITRVRIDGIQHEFSALPKAKEDTLDFLLNL 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV-DAVVRMELT 148 K I ++ + + G VVTA DI+ ND EV+NP+ + LD DAV+ +EL Sbjct: 81 KNIRVESLSGLEGILYLKASGAKVVTAADIEPSNDFEVVNPELYLLTLDSDDAVLNVELE 140 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V G GY + TEN PIG I +DA+++PI+KV++T E G+ ++L + + TD Sbjct: 141 VELGRGYRAPES--TENTPIGTIPVDAIFTPIRKVNFTTEPMHVGRETSLERLVLEVWTD 198 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G+I +V+ ++ IL Q ++ + EV+ VK +E+L+LSVR Sbjct: 199 GTIEPATAVSRSADILVKQFAALVSHNKVVAEVEASEPVKYAIPEEKYNMPIEQLDLSVR 258 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + NCLR I +G++I R ++L + NFG KSL E++ L T+GL L Sbjct: 259 AVNCLRHAGITTVGEVINRGTKELLTLRNFGLKSLTELEDRLKTIGLSL 307 >gi|297180261|gb|ADI16480.1| DNA-directed RNA polymerase, alpha subunit/40 kd subunit [uncultured bacterium HF4000_05M23] Length = 362 Score = 194 bits (492), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 109/292 (37%), Positives = 177/292 (60%), Gaps = 9/292 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + + EE +AEPL RG+ TLGN +RR L+++L G AIT V+IDG+ HE S++K Sbjct: 26 ITIQENEETYGRFVAEPLERGWGVTLGNPIRRSLLNALSGTAITWVRIDGIHHEYSTVKH 85 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 + E++ + +LN+KGI L+ D R+ + G G V AGDI D E++NP+H + L Sbjct: 86 MREEVVEFLLNVKGIRLRSLADRPGRLRLEVDGEGEVRAGDIMATADFEIVNPEHHLATL 145 Query: 138 D-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 D A + +E V +G GY PA H E PIG++ +DA+++P++K ++ VE+ R GQ Sbjct: 146 DNGGARLSVEFNVEQGVGYEPANHE--EGLPIGVLPVDAIFTPVRKANFAVEATRVGQRS 203 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-FNPA 255 D ++L + + TD +IT D+V A +L ++ +F ++P ++D V +P P Sbjct: 204 DLERLVVEVWTDRTITPLDAVRAAGNLLMERFFLFKRLDKP----QDDEEVLGVPGVLPE 259 Query: 256 LLKK-VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + VE L LS R+ NCL+ I +G+++ + ++L++ NFG+KSL E+ Sbjct: 260 VFNTLVETLSLSARTLNCLKRAGINRVGEVLMMPKGELLKIRNFGQKSLDEL 311 >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 = 194 bits (492), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 101/237 (42%), Positives = 153/237 (64%), Gaps = 7/237 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALR +L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRAILLSSMPGCAVT 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 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDL 234 >gi|119668343|emb|CAK95510.1| RNA polymerase alpha subunit [Lactobacillus paracasei subsp. paracasei] Length = 214 Score = 193 bits (491), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 95/201 (47%), Positives = 142/201 (70%) 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 LASRILQDQLGMFINFEEPKK 239 LA++IL + L +F+N + K Sbjct: 181 LAAKILTEHLDIFVNLTDEAK 201 >gi|119668313|emb|CAK95457.1| RNA polymerase alpha subunit [Lactobacillus fructivorans KCTC 3543] Length = 192 Score = 193 bits (491), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 98/192 (51%), Positives = 142/192 (73%), Gaps = 4/192 (2%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH-- 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|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 = 193 bits (490), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 123/294 (41%), Positives = 172/294 (58%), Gaps = 6/294 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF T+GNALRRVL+SSL G AITAV+I GV HE ++IKGV ED+ +I+LN+ Sbjct: 26 LYVEPLERGFGITIGNALRRVLLSSLPGGAITAVKIMGVPHEFTTIKGVLEDVVEIVLNL 85 Query: 90 KGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 K I LK+ + + I + G V A DI+ IE++ PD IC + ++ME Sbjct: 86 KQIRLKIDENIERDFAILEAENVGKVYAKDIKFPAGIELVTPDVHICTISEPTKLQMEFR 145 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V +G GY + ++ IG I ID +SPI+KV++ VE R G DYDKL + I+TD Sbjct: 146 VERGIGYKTVEELEPISE-IGWIIIDTAFSPIRKVAFNVEPTRVGDKTDYDKLILEIETD 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEV-KEDINVKSLPFN---PALLKKVEELE 264 G+IT ++++ AS IL D + K +V K+ + KS L ++ELE Sbjct: 205 GTITPDEALTKASNILIDHFNILQKPTVKKVQVIKKTVAPKSEEIKIEEDKLSLSIDELE 264 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +S R+ N LR I +GDL++ +E D+ + GRKSL EIK L MGL L Sbjct: 265 ISSRAINTLRKLGINTIGDLVRLSEEDLREAKSIGRKSLKEIKDALAEMGLELA 318 >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 = 193 bits (490), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 121/332 (36%), Positives = 184/332 (55%), Gaps = 22/332 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +AEPL RG HTLGNALRR L+ L AI + + GVLHE +I+G+ ED+T+I+LN+ Sbjct: 37 FVAEPLERGMGHTLGNALRRALLIGLEAPAIISFSMTGVLHEYMAIEGIIEDVTNIVLNL 96 Query: 90 KGINLK----MSGDSHKRVTIFKR-------------GPGVVTAGDIQTVNDIEVLNPDH 132 KG LK + +R + K G VT D+ E +NP+H Sbjct: 97 KGALLKKYPFQDSEDGRRPQLLKSMISIDASDLAACGGQRAVTLADLLQEGGFEAVNPEH 156 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 VI + V + L V+ G GY ++ E+ + I +DA +SP+ V+Y VE R Sbjct: 157 VIFTVTQPMQVEVALRVAFGRGYSTSERIILEDKGVNEIVLDAAFSPVVLVNYFVEDTRV 216 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 GQ D+D+L + ++TDG ++ ++++A +++IL +F +E K +E I+++ Sbjct: 217 GQDTDFDRLILYVETDGRVSPKEALAFSTQILTKHFSIFEKMDEKKIVFEEAISIEKENK 276 Query: 253 NPALLKKV---EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L K V E+ELSVRSTNCL NI +G+L+ E +L+ NFG+KSL EIK Sbjct: 277 DDILHKLVLGINEIELSVRSTNCLSNANIETIGELVIMPEPRLLQFRNFGKKSLCEIKNK 336 Query: 310 LGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 L M L LGM+L + ++++E K Y +K Sbjct: 337 LKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 368 >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 = 193 bits (490), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 119/320 (37%), Positives = 187/320 (58%), Gaps = 15/320 (4%) Query: 7 QELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 +E + P+ + + EE +T + EPL RGF TLGN+LRR L+SS++G AITAV+ Sbjct: 3 REFLFPSKVYW-----EERGKTYGRFVVEPLERGFGITLGNSLRRTLLSSIQGTAITAVK 57 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 I G+ HE S I+GV ED+ ++I N+K I + + + + K+G G VTA DI + Sbjct: 58 IYGIYHEFSPIEGVQEDVLEVIANLKKIRFNLKSSDVETLYLKKKGEGTVTAKDITCPPN 117 Query: 125 IEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 ++++NPD I + D + + ME+ + +G GY+ + + +G I +DA +SP+++V Sbjct: 118 VDIINPDQKIATITDPNKELNMEIRIERGFGYMTTEEMEVIGE-VGWILVDADFSPVRQV 176 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEV 241 S+ VE R + DYD+L M I T+G+ T E+ V A IL I++E P V Sbjct: 177 SFRVEKTRVEKRSDYDRLIMEIYTNGTKTPEEVVKEAISILVKYFSSLEHISYELPV--V 234 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +E + V F L VEEL++S R+ N ++ I +GDL++ +E D+ N GRK Sbjct: 235 EEPVIVDE--FAEKLSLPVEELDVSQRALNSIKRMGINTIGDLVRLSEEDLKGTKNVGRK 292 Query: 302 SLVEIKGVLGTMGLFLGMNL 321 ++ EIK L MGL+LGM++ Sbjct: 293 AINEIKEALKQMGLYLGMDI 312 >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 = 192 bits (489), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 126/345 (36%), Positives = 195/345 (56%), Gaps = 42/345 (12%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 IAEP +GF HT+GN+LRR+++SSL AI +V+I+G+ HE +I+G+ ED+T+IILN+ Sbjct: 28 FIAEPFEKGFGHTVGNSLRRMMLSSLEAPAIVSVRIEGISHEYMAIEGIVEDMTNIILNL 87 Query: 90 KGINLKM--------SGDSHKRVTIFK---------RGPGVVTAGDIQTVNDIEVLNPDH 132 KG ++ S D +I + G VT GD+ T + EV+NP Sbjct: 88 KGALIRKLPLDDAPNSRDDRIVTSILEITQDDLDKNHGKYHVTLGDVFTEGNYEVVNPQL 147 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAK----HHRTENDPIGLITIDALYSPIKKVSYTVE 188 + + +++L V G GYVP+ H +T ++ I IDA +SP++ V+Y VE Sbjct: 148 HLFTVTQPMKRQVDLRVVIGRGYVPSDRLDVHGKTSDE----ILIDAAFSPVRLVNYAVE 203 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN-------FEEPKKEV 241 + R GQ D+D+L + I TDG +T +++A A++I + +F + F+E + Sbjct: 204 NTRVGQDTDFDRLLLEITTDGRVTPAEALAFAAQIGVKHMSVFTHINPHLLLFDEGQS-- 261 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++D + ++ AL +++E+ELSVRSTNCL G NI + +L+ E ML NFG+K Sbjct: 262 RDDADQDAIMAKLAL--RIDEIELSVRSTNCLSGANIDTIAELVSIPERRMLEFRNFGKK 319 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWP------PESIEELAKKYEDKC 340 SL EIK L MGL LGM+L + E I + K+ +DK Sbjct: 320 SLNEIKAKLTEMGLHLGMDLSKYGITADNVKEKIAQYHKEAKDKS 364 >gi|150186982|emb|CAK30141.1| RNA polymerase alpha subunit [Streptococcus suis] Length = 205 Score = 192 bits (489), Expect = 5e-47, Method: Compositional matrix adjust. Identities = 93/200 (46%), Positives = 142/200 (71%) 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 ILQDQLGMFINFEEPKKEVK 242 IL + LG+F + E K + Sbjct: 181 ILMEHLGLFTDLTEVAKSAE 200 >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 = 192 bits (489), Expect = 5e-47, Method: Compositional matrix adjust. Identities = 120/341 (35%), Positives = 186/341 (54%), Gaps = 22/341 (6%) Query: 18 IVLGQE--EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 I + QE E N +AEP RGF HT+GNALRR+++SSL AI +V+++G+ HE +I Sbjct: 14 ITVDQESPESNFARYVAEPFERGFGHTIGNALRRMMLSSLEAPAIISVRVEGIPHEYMAI 73 Query: 76 KGVHEDLTDIILNIKGINL-KMSGDSHKRVTIF--------------KRGPGVVTAGDIQ 120 +G+ ED+T+IILN KG L K+ + R T +G VT D+ Sbjct: 74 EGISEDMTNIILNFKGALLRKLPTEETPRDTRILTKVVEVTQDDLDRNQGQYCVTLQDVV 133 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 + E++NP+ + + +++L ++ G GYVP++ H + I +DA +SP+ Sbjct: 134 QEGNFEIVNPELHLFTVTKPMRRQVDLRIAFGRGYVPSERHVVRDKTSDEILVDAAFSPV 193 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 + ++Y +E+ R GQ D+D+L M + TDG IT ++++ A +I +F F Sbjct: 194 RLINYFIENTRVGQDTDFDRLIMEVTTDGRITPAEALSFAVQIGLKHFEVFNQFNNYALS 253 Query: 241 VKE---DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 E D N L ++E+ELSVRS NCL G NI + +L+ E ML N Sbjct: 254 FDEKDGDRNGDQDELMDKLSLGIDEIELSVRSANCLTGANIETLAELVCIPERRMLEFRN 313 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDW--PPESIEELAKKY 336 FG+KSL EIK L M L LGM+L + P+++++ K+Y Sbjct: 314 FGKKSLNEIKAKLHEMSLHLGMDLSRFGVSPDNVKDKIKQY 354 >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 = 192 bits (488), Expect = 6e-47, Method: Compositional matrix adjust. Identities = 109/289 (37%), Positives = 168/289 (58%), Gaps = 3/289 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL +GF T+GN+LRR+L+S L G AIT V+IDG+ HE ++ ED D +LN+ Sbjct: 21 FVVEPLEKGFGTTMGNSLRRILLSYLDGVAITRVRIDGIQHEFCALPKAKEDTLDFLLNL 80 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV-DAVVRMELT 148 K I ++ + + G VVTA DI+ ND EV+NP+ + LD DAV+ +EL Sbjct: 81 KNIRVESLSGLEGILYLRASGSKVVTAADIEPSNDFEVVNPELYLLTLDSDDAVLNVELE 140 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V G GY P + EN PIG I +DA+++PI+KV++T E G+ ++L + + TD Sbjct: 141 VELGRGYRPPES--AENTPIGTIPVDAIFTPIRKVNFTTEPMHVGRETSLERLVLEVWTD 198 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ +V+ ++ IL Q ++ + E++ VK +E+L+LSVR Sbjct: 199 GTVEPATAVSRSADILVKQFASLVSHSKVVAEIEASEPVKYTIPEEKYNMPIEQLDLSVR 258 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + NCLR I +G++I R ++L + NFG KSL E++ L T+GL L Sbjct: 259 AVNCLRHAGITTVGEVINRGTKELLTLRNFGLKSLTELEDRLKTIGLSL 307 >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 = 192 bits (488), Expect = 6e-47, Method: Compositional matrix adjust. Identities = 106/305 (34%), Positives = 175/305 (57%), Gaps = 17/305 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ PL RG+ T+GNALRRVL+SS++GAAI+AV+++G HE ++I G+ ED+ +++LN+ Sbjct: 20 LVIGPLERGYGQTIGNALRRVLLSSIKGAAISAVRVEGAQHEFTTIPGMKEDVIELLLNL 79 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + ++ ++ + + G VTA D Q +DIE ++PD IC L + +E+ + Sbjct: 80 KHVPVRSHSAEYRTLKLDVEGGKKVTAADFQEDSDIEFIDPDAYICTLAEGHSLSLEVYI 139 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY R P+ + IDA+YSPI +V Y V++ R GQ DY+K+ M + T+G Sbjct: 140 EQGVGYATVDRPRPSYLPVDALMIDAIYSPILRVKYEVQNERVGQKTDYEKIVMNVTTNG 199 Query: 210 SITGEDSVALASRILQDQLGMFI-----------------NFEEPKKEVKEDINVKSLPF 252 + + +VA A+++L++ + I + +P + + P Sbjct: 200 VVAPDIAVAEAAKLLREYFDIVIQELRKLHPAEPGLFDDESASQPSGNGQAGDGADNPPE 259 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 N L K V ELELS+RS NCL I +GDL+ R++ D+L++ N G+ SL EI+ + Sbjct: 260 NALLNKPVRELELSIRSENCLLRGGIHTIGDLVSRSKDDLLKIRNLGKISLREIEEKMTK 319 Query: 313 MGLFL 317 G+ L Sbjct: 320 YGIVL 324 >gi|150187161|emb|CAK30184.1| RNA polymerase alpha subunit [Streptococcus equi subsp. ruminatorum] Length = 225 Score = 192 bits (488), Expect = 6e-47, Method: Compositional matrix adjust. Identities = 94/210 (44%), Positives = 145/210 (69%) 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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 +I ED++ L++R+L + L +F + + K Sbjct: 181 TIIPEDALGLSARVLIEHLNLFTDLTDVAK 210 >gi|168805061|gb|ACA28609.1| DNA-directed RNA polymerase subunit alpha [Thiomonas sp. Ynys1] Length = 228 Score = 192 bits (488), Expect = 7e-47, Method: Compositional matrix adjust. Identities = 99/228 (43%), Positives = 150/228 (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 LDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSYTVESAREG 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|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 = 192 bits (487), Expect = 7e-47, Method: Compositional matrix adjust. Identities = 124/341 (36%), Positives = 185/341 (54%), Gaps = 22/341 (6%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 G + + IAEPL RG HTLGNALRR L+ L AI + + GVLHE +I G+ E Sbjct: 28 GGSVDKQASFIAEPLERGMGHTLGNALRRALLIGLEAPAIISFSMTGVLHEYMAINGIIE 87 Query: 81 DLTDIILNIKGINLK---MSGDSHKRVTIFKR--------------GPGVVTAGDIQTVN 123 D+T+IILN+KG LK + R T + G VT D+ Sbjct: 88 DVTNIILNLKGALLKKYPFQDSENGRCTQLLKSKVSIDASDLAACGGQKAVTLADLLQEG 147 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E +NPD+VI + + + L V+ G GY ++ E+ + I +DA +SP+ V Sbjct: 148 GFESVNPDYVIFTVTQPMQLDITLRVAFGRGYTTSERIVLEDKGVNEIVLDAAFSPVVLV 207 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE R GQ D+D+L + ++TDG ++ ++++A +++IL +F +E K +E Sbjct: 208 NYFVEDTRVGQDTDFDRLILHVETDGRVSPKEALAFSTQILTKHFSIFEKMDEKKIVFEE 267 Query: 244 DINVKSLPFNPALLKKV---EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 I+++ + L K V E+ELSVRSTNCL NI +G+L+ E +L+ NFG+ Sbjct: 268 AISLEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIGELVIMPEPRLLQFRNFGK 327 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 KSL EIK L M L LGM+L + ++++E K Y DK Sbjct: 328 KSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYADK 368 >gi|119668339|emb|CAK95509.1| RNA polymerase alpha subunit [Lactobacillus kefiri] Length = 218 Score = 192 bits (487), Expect = 7e-47, Method: Compositional matrix adjust. Identities = 103/205 (50%), Positives = 141/205 (68%), Gaps = 4/205 (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 DSVALASRILQDQLGMFINFEEPKK 239 ++V+LA++IL + L MF++ + K Sbjct: 181 EAVSLAAKILTEHLEMFVDLTDEAK 205 >gi|119672813|emb|CAK95487.1| RNA polymerase alpha subunit [Lactobacillus gasseri] Length = 195 Score = 192 bits (487), Expect = 8e-47, Method: Compositional matrix adjust. Identities = 94/190 (49%), Positives = 136/190 (71%) 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 LQDQLGMFIN 233 L + +F++ Sbjct: 181 LVEHFKVFMS 190 >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 = 192 bits (487), Expect = 8e-47, Method: Compositional matrix adjust. Identities = 127/339 (37%), Positives = 185/339 (54%), Gaps = 36/339 (10%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +AEPL +G HTLGNALRR L+ L AI + + GVLHE +I+G+ ED+T+IILN+ Sbjct: 35 FVAEPLEKGMGHTLGNALRRALLIGLEAPAIISFSMTGVLHEYMAIEGIIEDVTNIILNL 94 Query: 90 KGINLK---MSGDSHKRVTIFKR--------------GPGVVTAGDIQTVNDIEVLNPDH 132 K LK M G R T + G VT GD+ E +NP+ Sbjct: 95 KSALLKKHPMQGSEEGRSTQLLKSSISIDASDLAAVGGQKEVTLGDLLQEGGFEAVNPEQ 154 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 VI + + + L V+ G GY ++ E+ + I +DA +SP+ V+Y VE R Sbjct: 155 VIFTVTQPMQLDITLRVAFGRGYTTSERIVLEDKGVNEIVLDAAFSPVCLVNYYVEDTRV 214 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF-------INFEEP---KKEVK 242 GQ D+D+L + ++TDG IT ++++A +++IL +F I FEE +KE K Sbjct: 215 GQDTDFDRLILQVETDGRITPKEALAFSTQILTKHFSIFEKMDEKRIVFEEAVSIEKENK 274 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +DI K L+ + E+ELSVRSTNCL NI +G+L+ E +L+ NFG+KS Sbjct: 275 DDILHK-------LILGINEIELSVRSTNCLSNANIETIGELVIMPEPRLLQFRNFGKKS 327 Query: 303 LVEIKGVLGTMGLFLGMNLPDW--PPESIEELAKKYEDK 339 L EIK L M L LGM+L + ++++E K Y +K Sbjct: 328 LCEIKNKLKEMKLELGMDLSQFGIGLDNVKEKMKWYAEK 366 >gi|119668365|emb|CAK95514.1| RNA polymerase alpha subunit [Lactobacillus rhamnosus] Length = 205 Score = 192 bits (487), Expect = 8e-47, Method: Compositional matrix adjust. Identities = 94/198 (47%), Positives = 141/198 (71%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAA++++QIDGVLHE S+I GV ED+T IILNIK + LKM+ D Sbjct: 2 TLGNSLRRILLSSLPGAAVSSIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKMNTDED 61 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + I GP VTA DI D+EVLNP+ IC + + +TV KG GYV A + Sbjct: 62 KNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTVKKGRGYVAADQN 121 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 ++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA+ Sbjct: 122 KSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLAA 181 Query: 222 RILQDQLGMFINFEEPKK 239 +IL + L +F+N + K Sbjct: 182 KILTEHLDIFVNLTDEAK 199 >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 = 192 bits (487), Expect = 8e-47, Method: Compositional matrix adjust. Identities = 114/318 (35%), Positives = 189/318 (59%), Gaps = 21/318 (6%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KPN +V E+E + EPL RG+ TLGN+L+R+++S+L G+A++A +I+G Sbjct: 6 KPNI--RVVEISEDERFGRFVCEPLERGYGTTLGNSLKRIMLSALPGSALSAAKIEGADF 63 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQT-VNDIE- 126 + S+ GV E L+++I+N+K + ++ DS KR+ + G GVV A IQ D E Sbjct: 64 QSGSVPGVKESLSELIMNLKSLAIRDLSDSEDAKRLILTAEGSGVVRASSIQAETADTEF 123 Query: 127 -VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 + N + I L + +R+EL +S+G GYV A+ E P G+ +D+ Y+P+++V+ Sbjct: 124 VIANEEQSIATLTGEEALRIELLLSRGRGYVSAEEQ--EELPEGMFALDSSYTPVERVNM 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE------EPKK 239 +VE+ R G + DYDKL++ + TDG++ +D+++L++R+L +L +F++ E Sbjct: 182 SVENTRVGNMTDYDKLTVDVFTDGTLPPDDALSLSARLLSTELCLFVDLSANAAAAEVMV 241 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 E +D K+L N ++ELELSVRS NCL+ I + +L +T DM+++ N G Sbjct: 242 EKTDDEKGKALEMN------IDELELSVRSYNCLKRAGINTVQELCSKTPEDMMKVRNLG 295 Query: 300 RKSLVEIKGVLGTMGLFL 317 RKSL E+ L + L L Sbjct: 296 RKSLEEVLAKLKELNLSL 313 >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 = 192 bits (487), Expect = 8e-47, Method: Compositional matrix adjust. Identities = 121/298 (40%), Positives = 175/298 (58%), Gaps = 14/298 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF T+GNALRRVL+SSL G AITAV+I GV HE ++IKGV ED+ +I+LN+ Sbjct: 26 LYVEPLERGFGITIGNALRRVLLSSLPGGAITAVKIMGVPHEFTTIKGVIEDVAEIVLNL 85 Query: 90 KGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 K I LK+ + + I + G V A DI+ IE++ PD IC + ++ME Sbjct: 86 KQIRLKIDENIERDFAILEAENVGKVYAKDIKFPAGIELVTPDVHICTISEPTKLQMEFR 145 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V +G GY + ++ IG I ID +SPIK+V++ VE R G DYDKL + I+TD Sbjct: 146 VERGIGYKTVEELEPISE-IGWIIIDTAFSPIKRVAFNVEPTRVGDKTDYDKLILEIETD 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK--------KV 260 G+IT ++++ AS IL D + ++P + K + K++ P +K + Sbjct: 205 GTITPDEALTKASNILIDHFNI---LQKPTVK-KVQVIKKTVAPKPEEIKIEEDKLSLSI 260 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +ELE+S R+ N LR I +GDL++ +E D+ + GRKS+ EIK L MGL L Sbjct: 261 DELEISSRAINNLRKLGINTIGDLVRLSEEDLKEAKSIGRKSIKEIKDALAEMGLELA 318 >gi|119672805|emb|CAK95518.1| RNA polymerase alpha subunit [Lactobacillus vaccinostercus] Length = 197 Score = 192 bits (487), Expect = 9e-47, Method: Compositional matrix adjust. 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 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 + I +GP VTAGDI+ D+EVLNP+ I + A + +++T + G GYV A ++ Sbjct: 61 TLEIDVKGPAAVTAGDIEADGDVEVLNPELHIATVADGAELHIQMTANTGRGYVSADDNK 120 Query: 163 TEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 D 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|117575079|emb|CAJ84779.1| RNA polymerase alpha subunit [Lactobacillus amylotrophicus] Length = 202 Score = 191 bits (486), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 93/195 (47%), Positives = 138/195 (70%) 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 LASRILQDQLGMFIN 233 ++IL + L +F+N Sbjct: 181 FGAKILTEHLNVFMN 195 >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 = 191 bits (486), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 113/295 (38%), Positives = 172/295 (58%), Gaps = 12/295 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG T+GNALRRVL+S+L G A+TAV+I GV HE ++I GV ED+ +I+LN+ Sbjct: 23 FVLEPLDRGQGTTVGNALRRVLLSNLEGTAVTAVRIAGVNHEFATIPGVREDVLEILLNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L + + + +GP VTAG +++EV++ + I L + + ME V Sbjct: 83 KEIVLNSYSNQRQIGRLLVQGPATVTAGHFDLPSEVEVVDKNQYIATLSPGSTLEMEFQV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GY +R E + + IDA++ P++KV+YTVE AR G L+ D+L + I T+G Sbjct: 143 EKGTGYRAIDRNRDEATAVDFLQIDAVFMPVRKVNYTVEDARVGGSLEKDRLILDIWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 S+T +++++ A+ IL D I E K + +D+ +P +EEL+LSV Sbjct: 203 SLTPQEALSQAATILVDLFVPLKDITLESIKTDQTDDV-------DPTSQIPIEELQLSV 255 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ NCL+ I + DL T+ D+L + NFG+KS E V+ + LG+ LP Sbjct: 256 RAYNCLKRAQINSVADLRDYTQEDLLEIKNFGQKSAEE---VIEALQKRLGITLP 307 >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 = 191 bits (486), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 120/332 (36%), Positives = 182/332 (54%), Gaps = 22/332 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +AEPL RG HTLGNALRR L+ L AI + + GVLHE +I+G+ ED+T+I+LN+ Sbjct: 37 FVAEPLERGMGHTLGNALRRALLIGLEAPAIISFSMTGVLHEYMAIEGIVEDVTNIVLNL 96 Query: 90 KGINLK---MSGDSHKRVTIFKR--------------GPGVVTAGDIQTVNDIEVLNPDH 132 KG LK R T + G +T D+ E +NPDH Sbjct: 97 KGALLKKYPFQDSEDGRCTQLLKSTISVDASDLAACGGQKSITLADLLQEGGFESVNPDH 156 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 VI + + + L V+ G GY ++ E+ + I +DA +SP+ V+Y VE R Sbjct: 157 VIFTVTQPMQLEIALRVAFGRGYSTSERIVLEDKGVNEIVLDAAFSPVVLVNYFVEDTRV 216 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 GQ D+D+L + ++TDG ++ ++++A +++IL +F +E K +E I+++ Sbjct: 217 GQDTDFDRLILHVETDGRVSPKEALAFSTQILTKHFSIFEKMDEKKIVFEEAISIEKENK 276 Query: 253 NPALLKKV---EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L K V E+ELSVRSTNCL NI +G+L+ E +L+ NFG+KSL EIK Sbjct: 277 DDILHKLVLGINEIELSVRSTNCLSNANIETIGELVIMPEPRLLQFRNFGKKSLCEIKNK 336 Query: 310 LGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 L M L LGM+L + ++++E K Y +K Sbjct: 337 LKEMKLELGMDLSQFGVGLDNVKEKMKSYAEK 368 >gi|311990563|gb|ADQ26408.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus helveticus] Length = 243 Score = 191 bits (486), Expect = 1e-46, Method: Compositional matrix adjust. 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|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 = 191 bits (486), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 120/332 (36%), Positives = 182/332 (54%), Gaps = 22/332 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +AEPL RG HTLGNALRR L+ L AI + + GVLHE +I+G+ ED+T+I+LN+ Sbjct: 54 FVAEPLERGMGHTLGNALRRALLIGLEAPAIISFSMTGVLHEYMAIEGIVEDVTNIVLNL 113 Query: 90 KGINLK---MSGDSHKRVTIFKR--------------GPGVVTAGDIQTVNDIEVLNPDH 132 KG LK R T + G +T D+ E +NPDH Sbjct: 114 KGALLKKYPFQDSEDGRCTQLLKSTISVDASDLAACGGQKSITLADLLQEGGFESVNPDH 173 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 VI + + + L V+ G GY ++ E+ + I +DA +SP+ V+Y VE R Sbjct: 174 VIFTVTQPMQLEIALRVAFGRGYSTSERIVLEDKGVNEIVLDAAFSPVVLVNYFVEDTRV 233 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 GQ D+D+L + ++TDG ++ ++++A +++IL +F +E K +E I+++ Sbjct: 234 GQDTDFDRLILHVETDGRVSPKEALAFSTQILTKHFSIFEKMDEKKIVFEEAISIEKENK 293 Query: 253 NPALLKKV---EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L K V E+ELSVRSTNCL NI +G+L+ E +L+ NFG+KSL EIK Sbjct: 294 DDILHKLVLGINEIELSVRSTNCLSNANIETIGELVIMPEPRLLQFRNFGKKSLCEIKNK 353 Query: 310 LGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 L M L LGM+L + ++++E K Y +K Sbjct: 354 LKEMKLELGMDLSQFGVGLDNVKEKMKSYAEK 385 >gi|119662295|emb|CAJ33134.1| RNA polymerase alpha subunit [Lactobacillus crispatus] Length = 212 Score = 191 bits (485), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 95/197 (48%), Positives = 133/197 (67%) 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 DSVALASRILQDQLGMF 231 D+++ A++IL + +F Sbjct: 181 DALSFAAKILVEHFKVF 197 >gi|119662847|emb|CAJ33216.1| RNA polymerase alpha subunit [Lactobacillus kunkeei] Length = 202 Score = 191 bits (485), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 97/201 (48%), Positives = 141/201 (70%), Gaps = 4/201 (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 HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 K + I GP VTAGDIQ D+ VLNPD I + + M +T +KG GYV A Sbjct: 61 DKEMEINVTGPAQVTAGDIQADGDVTVLNPDLHIATVAEGSTFHMRMTANKGRGYVSADE 120 Query: 161 HRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 ++ ND PIG++ +D++Y+PI++V+Y VE+AR GQ D+DKL++ + TDGSIT ++++ Sbjct: 121 NKARNDGMPIGVLPVDSIYTPIERVNYQVENARVGQRSDFDKLTLDVWTDGSITPSEAIS 180 Query: 219 LASRILQDQLGMFINFEEPKK 239 LA++IL D L MF++ + K Sbjct: 181 LAAKILNDHLAMFVDLTDEAK 201 >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 = 191 bits (485), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 122/335 (36%), Positives = 190/335 (56%), Gaps = 19/335 (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---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK---R 109 +++ V E I GV ED ++I NIK I+LK+ +++ F + Sbjct: 62 TMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKLREGEQRKIISFSVSGK 121 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 V+ A + ++ +EV N D VI L DA + E ++ G GYV ++ + + + Sbjct: 122 DTNVLKASHFE-MDGVEVFNKDLVIATLSHDANLDFEFQINYGRGYVSSEQNSKYLEEVN 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 MFINFEEPKKEVKEDINVKSLPFNPALLKK-VEELELSVRSTNCLRGENIVYMGDLIQRT 288 ++FE+ V ++ KS N LL +E+L+LSVRS NCL EN+ +G+LI + Sbjct: 241 PLVDFEDS---VNTSVD-KSKSENSNLLDMGIEKLDLSVRSLNCLAKENVKTLGELISKN 296 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ LFLGM+ D Sbjct: 297 ADELSKARNFGKKSLEEIIEKLGSYRLFLGMSKED 331 >gi|161511723|emb|CAP16872.1| DNA-directed RNA polymerase subunit alpha [Pediococcus acidilactici] Length = 229 Score = 191 bits (485), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 105/227 (46%), Positives = 146/227 (64%), Gaps = 2/227 (0%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+GV ED+T IILN+K ++LK+ D Sbjct: 3 TLGNSLRRILLSSLPGAAITSVQIDNVLHEFSTIEGVVEDVTQIILNLKKVSLKIESDDE 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + I GP VTAGDI D+ VLNPD IC + LT G GY A + Sbjct: 63 KTLDINVVGPANVTAGDIMGDGDVTVLNPDSPICTVAEGTTFHAVLTADTGRGYTSADEN 122 Query: 162 --RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 R + PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ I TDGSIT ++ +L Sbjct: 123 KARKADMPIGVLPIDSIYTPIERVNYQVEKTRVGQRDDYDKLTLDIWTDGSITPSEATSL 182 Query: 220 ASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 +++IL + L +F+N + KE + + + L +EEL+LS Sbjct: 183 SAKILTEHLAIFVNLNDQAKETEIMVEKEETHKEKMLEMTIEELDLS 229 >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 = 191 bits (484), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 118/286 (41%), Positives = 177/286 (61%), Gaps = 14/286 (4%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQI--DGVLHEISSIKGVHEDLTDIILNIKG 91 PL +G+A T+GN LRRVL+SS+ AIT V+ HE +I+G ED+ DI+LN+K Sbjct: 29 PLEKGYAVTVGNTLRRVLLSSIPSFAITDVRFVKPEKYHEFDTIEGAKEDIMDILLNLKK 88 Query: 92 INLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 + L++ +S ++TI K+GPGV+TAGDI+ + V+NP H + L+ DA + +EL Sbjct: 89 VQLRVDTYVESPVKLTINKKGPGVLTAGDIECPAGVVVVNPGHYLATLNEDADLEIELYA 148 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + G G+VPA R E IG I +D +YSP+ KV++ VE+ R + DY+KL + I T Sbjct: 149 TFGKGFVPAAD-RNERPEIGWIVLDGVYSPVIKVNWLVENVRVDKRTDYEKLILEIWTKK 207 Query: 210 SITGEDSVALASRILQDQLGMFI-----NFEE-PKKEVKEDINVKSLPFNP--ALLKKVE 261 SI +++ + +I+ D MFI + EE P ++E V +P + KKVE Sbjct: 208 SIKPSEALKHSLKIILDHF-MFIEQSLSDVEELPIPIIQETAVVTEEIGSPEDVMSKKVE 266 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 ELELS RS NCL+ + I +GDL+ RTE +++++ NFG KSL E++ Sbjct: 267 ELELSARSLNCLKRDKIETIGDLLSRTEEELMKIKNFGLKSLEEVR 312 >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 = 191 bits (484), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 109/305 (35%), Positives = 179/305 (58%), Gaps = 17/305 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ PL RGF T+GNALRRVL+SS++GAAIT+V+IDGV+HE S+I GV ED+ +++LN+ Sbjct: 34 IVVGPLERGFGVTIGNALRRVLLSSIKGAAITSVRIDGVVHEFSTIPGVGEDVIELLLNL 93 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + ++ + + + G VTA D Q ++IE ++P+ IC L A + +E+ + Sbjct: 94 KHVPIRSYSPEVRVLRLEAEGERRVTAADFQPDSEIEFVDPEAYICTLAEGARLSLEVYI 153 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY PA + P+ + IDA+++PI++V Y V++ R GQ DY+++ M +DT+G Sbjct: 154 EQGVGYAPADRPKPAYLPMDSLLIDAIFTPIQRVKYEVQAERVGQRTDYERIVMDVDTNG 213 Query: 210 SITGEDSVALASRILQDQLGMFI---------NFEEPKKEVKEDINVKSLPFNPA----- 255 + + +VA A+R+L+ + + +P+ ++I+V Sbjct: 214 VVKPDLAVAEAARLLRKYFTIVVEEIQKLHPSEHTDPEIVESQEISVAEEETETEQESEE 273 Query: 256 ---LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 L + V +LELS+RS NCL I +GDL+ R D+L++ N G+ SL EI+ L Sbjct: 274 NTLLSRGVRDLELSIRSENCLLRGGIHTIGDLVSRGRDDLLKIRNLGKISLREIEEKLEN 333 Query: 313 MGLFL 317 +G L Sbjct: 334 LGFSL 338 >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 = 191 bits (484), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 101/240 (42%), Positives = 154/240 (64%), Gaps = 8/240 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E ++P ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLRPRLVDIEQISTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ ++++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E+ NP+HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Sbjct: 118 HDGDVEIANPEHVICHLTDDNAEISMRIKVERGRGYVPASARIHTEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 Y P+ K++Y VE+AR Q D DKL + ++T G++ E++V A+ IL +QL F++ + Sbjct: 178 YRPVDKIAYAVEAARVEQRTDLDKLVIDMETSGTLEPEEAVRRAATILAEQLDAFVDLRD 237 >gi|308125183|gb|ADO14940.1| DNA-directed RNA polymerase alpha chain [Enterococcus aquimarinus] Length = 204 Score = 190 bits (483), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 94/199 (47%), Positives = 138/199 (69%) 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 LQDQLGMFINFEEPKKEVK 242 + + L +F+N + K + Sbjct: 181 MTEHLDIFVNLTDEAKHAE 199 >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 = 190 bits (483), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 117/311 (37%), Positives = 173/311 (55%), Gaps = 6/311 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I L EN PL RG +LGNALRRVL+SS+ GAA+T +++ GV+HE SSI G Sbjct: 13 ITLVAAAENYGRFAIAPLQRGHGSSLGNALRRVLLSSIPGAAVTRIKVSGVIHEFSSIPG 72 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED T ++LNIKGI L+ D + + K+GPG V A DI + +E++NP H IC + Sbjct: 73 VVEDGTQLVLNIKGIRLRSYSDRAVALQLIKQGPGPVFARDIDAPSTVEIVNPQHYICTI 132 Query: 138 DVD-AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 D + M+LTV +G G A PIG I +DAL+SPI +V++ VE + + Sbjct: 133 DDEHTTFEMQLTVERGRGVQLAD--TVSGMPIGEIAVDALFSPIPRVNFLVEEMGDDPLT 190 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 YD+L + I TDG+I D+++ A++IL G +N +P++ +P A Sbjct: 191 GYDRLILEIWTDGTIKPGDALSHAAQILAQYFGRIVNLNQPEEPEPSAHLPPPIPEEIA- 249 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 + ++EL LS R+ N LR I +G L++ + ++ + N G K + EI L +G Sbjct: 250 SRTIDELGLSTRTYNSLRRAEIHTIGQLLRLDDRGLMSIRNLGAKGIEEIHQRLEALGYR 309 Query: 317 LGMN--LPDWP 325 G + LP P Sbjct: 310 SGSSSRLPAAP 320 >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 = 190 bits (483), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 121/320 (37%), Positives = 187/320 (58%), Gaps = 16/320 (5%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID----G 67 P+ IE+ V G+++ + I P +GF T+GN LRRVL+SS+ G AI+A++I G Sbjct: 14 PDRIEF-VRGEDDSSYGKFIMYPFEKGFGVTIGNTLRRVLLSSIEGYAISAMRIQSNQGG 72 Query: 68 VLHEISS----IKGVHEDLTDIILNIKGINLKMS---GDSHKRVTIFKRGPGVVTAGDIQ 120 L +SS I GV ED ++I NIK I+LK+ + +++ + V+ A ++ Sbjct: 73 SLKIVSSEFDLIPGVVEDTLEVIANIKNIHLKLDEGVNSTTISLSVNGKDTNVLKAVHLE 132 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +EV N D VI L +A + E ++ G GYV ++ + + + I +D+++SPI Sbjct: 133 R-EGVEVFNKDLVIATLSSEANLDFEFQINYGRGYVSSEQNAKYLEEVNTIALDSIFSPI 191 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KV+Y+VE R GQ DYDKL M I T G I+ +D++ A+ I++D L +NFE+ + Sbjct: 192 EKVTYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVRDFLLPLVNFED---K 248 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V + L + L +E+L LSVRS NCL EN+ +G+LI ++ D+ + NFG+ Sbjct: 249 VVHSVENSELRDSDILSINIEKLNLSVRSLNCLTKENVKTLGELISKSAEDLSKARNFGK 308 Query: 301 KSLVEIKGVLGTMGLFLGMN 320 KSL EI L T GLFLGM+ Sbjct: 309 KSLEEIIEKLNTYGLFLGMS 328 >gi|119668273|emb|CAK95495.1| RNA polymerase alpha subunit [Lactobacillus kefiri] Length = 203 Score = 190 bits (483), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 102/202 (50%), Positives = 140/202 (69%), Gaps = 4/202 (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 DSVALASRILQDQLGMFINFEE 236 ++V+LA++IL + L MF++ + Sbjct: 181 EAVSLAAKILTEHLEMFVDLTD 202 >gi|119668285|emb|CAK95451.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 217 Score = 190 bits (483), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 94/195 (48%), Positives = 132/195 (67%) Query: 37 RGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK Sbjct: 2 RGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELKS 61 Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 D K + + GP VTA D++ D++VLNPD IC + + MEL V G GYV Sbjct: 62 LSDEQKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMELAVKNGRGYV 121 Query: 157 PAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D+ Sbjct: 122 TASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPNDA 181 Query: 217 VALASRILQDQLGMF 231 ++ A++IL + +F Sbjct: 182 LSFAAKILVEHFKVF 196 >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 = 190 bits (483), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 113/291 (38%), Positives = 172/291 (59%), Gaps = 6/291 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGNA+RRVL+SS+ GAA++A++IDGVLHE S++ GV ED+ +IILNIK + Sbjct: 19 EPLERGYGVTLGNAIRRVLLSSIPGAAVSAIRIDGVLHEFSTVPGVMEDVLEIILNIKKL 78 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 + D + + + GP VVT DI +++E NP+ IC L+ + M+L V +G Sbjct: 79 AVVSHSDDVRMLRLEAEGPKVVTVADIIPDSEVEFSNPEAYICTLEEGHKLEMDLYVERG 138 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GY+ R PI ++ +DA++SP+ +V+Y V +AR GQ DY+ L + + T+ ++ Sbjct: 139 VGYLTMDRPRPNYLPIDVLLVDAVFSPVLRVNYNVGAARVGQRTDYESLLIELWTNETVE 198 Query: 213 GEDSVALASRILQDQLGMFIN--FEEP----KKEVKEDINVKSLPFNPALLKKVEELELS 266 + A +IL G + +EP EV E + +P L + + +LELS Sbjct: 199 PAKAFLEAVKILNQYFGHIASLLLKEPVSPVAAEVPEAVVEAVAEEDPILSRPIRDLELS 258 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +RS NCL + +GDL+Q T D+L++ N G+ SL EI+ L GL L Sbjct: 259 IRSENCLLRAGVRTIGDLVQYTRDDLLKIRNLGKISLKEIEEKLDIFGLSL 309 >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 = 190 bits (483), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 120/332 (36%), Positives = 182/332 (54%), Gaps = 22/332 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +A+PL +G HTLG+ALRR L+ L AI + + GVLHE +++G+ ED+T+I+LN+ Sbjct: 54 FVADPLEKGMGHTLGSALRRALLIGLEAPAIVSFSMTGVLHEYMAVEGIIEDVTNIVLNL 113 Query: 90 KGINLKM---------SGDSHKRVTI--------FKRGPGVVTAGDIQTVNDIEVLNPDH 132 KG LK R TI G +T GD+ E +NP+H Sbjct: 114 KGSLLKKYPLQDCEGGRASQKLRATISIDASDLAAAGGQKAITLGDLLQEGTFEAVNPEH 173 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 VI + + + L V+ G GY P++ E + I +DA +SP+ V+Y VE R Sbjct: 174 VIFTVTRPMQLDVMLRVAFGRGYTPSERIVLEEREMNEIVLDAAFSPVVLVNYFVEDTRV 233 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 GQ D+D+L + ++TDG + +++VA A++IL +F +E + +E I+V+ Sbjct: 234 GQDTDFDRLILQVETDGRVAPKEAVAFATQILSKHFSVFEKMDEKRIVFEEAISVEKENK 293 Query: 253 NPALLKKV---EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L K V E+ELSVRSTNCL NI +G+L+ E +L+ NFG+KSL EIK Sbjct: 294 DDILHKLVLGINEIELSVRSTNCLSNANIETIGELVIMPEPRLLQFRNFGKKSLCEIKNK 353 Query: 310 LGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 L M L LGM+L + ++++E K Y +K Sbjct: 354 LKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 385 >gi|119668283|emb|CAK95498.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 220 Score = 190 bits (482), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 94/195 (48%), Positives = 132/195 (67%) Query: 37 RGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK Sbjct: 2 RGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELKS 61 Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 D K + + GP VTA D++ D++VLNPD IC + + MEL V G GYV Sbjct: 62 LSDEQKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMELAVKNGRGYV 121 Query: 157 PAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D+ Sbjct: 122 TASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPNDA 181 Query: 217 VALASRILQDQLGMF 231 ++ A++IL + +F Sbjct: 182 LSFAAKILVEHFKVF 196 >gi|119662811|emb|CAJ33197.1| RNA polymerase alpha subunit [Lactobacillus psittaci] Length = 205 Score = 190 bits (482), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 92/188 (48%), Positives = 133/188 (70%) 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 LQDQLGMF 231 L + +F Sbjct: 181 LVEHFKVF 188 >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 = 190 bits (482), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 113/320 (35%), Positives = 182/320 (56%), Gaps = 20/320 (6%) Query: 12 PNNIEYIVLGQEEENRTLMIAE--PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 PN ++Y + +RT E PL G+ T+GN LRR+L+SS++GAA+ V+I+G+ Sbjct: 10 PNEVDY---DKASYSRTYGKFEIGPLEPGYGTTIGNTLRRILLSSIQGAAVRFVRIEGLH 66 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE I G + D D+IL +K + + S + + +G GV+TA IQ ++++N Sbjct: 67 HEFCPIPGTNSDYIDLILRLKQLVISSSSVEEVPLVLEHKGKGVITASMIQETAYVKIIN 126 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 D + + D R+E+ V G GYV A E +G I +D++YSP+ KV+++V Sbjct: 127 KDLYLLEVVDDIDFRLEMIVGIGRGYVSADRQNPEGKAVGFIPVDSIYSPVLKVNFSVSH 186 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EPKKEVKEDINVK 248 R + +++D+L M I T+G++ ++ LA++IL+D FE EP+ ++ Sbjct: 187 QRVKERMNFDRLIMEIYTNGAVEPSIALFLAAKILKDMAAKISLFEIEPQ-------YIR 239 Query: 249 SLPFNPALLKK-------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + +P L +K V+E+ELSVR+ NCL I +GDL+ +TEA+ML+ NFG+K Sbjct: 240 DIELDPELEEKERILKTSVKEIELSVRAANCLAQAKIETIGDLVSKTEAEMLKFRNFGKK 299 Query: 302 SLVEIKGVLGTMGLFLGMNL 321 SL EI L L LGM++ Sbjct: 300 SLEEIVQKLKKYDLHLGMDV 319 >gi|311990464|gb|ADQ26362.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 243 Score = 190 bits (482), Expect = 3e-46, Method: Compositional matrix adjust. 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|119662845|emb|CAJ33215.1| RNA polymerase alpha subunit [Lactobacillus hamsteri] Length = 212 Score = 190 bits (482), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 94/193 (48%), Positives = 132/193 (68%) 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 LASRILQDQLGMF 231 AS+IL + +F Sbjct: 181 FASKILVEHFKVF 193 >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 = 190 bits (482), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 120/332 (36%), Positives = 182/332 (54%), Gaps = 22/332 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +A+PL +G HTLG+ALRR L+ L AI + + GVLHE +++G+ ED+T+I+LN+ Sbjct: 37 FVADPLEKGMGHTLGSALRRALLIGLEAPAIVSFSMTGVLHEYMAVEGIIEDVTNIVLNL 96 Query: 90 KGINLKM---------SGDSHKRVTI--------FKRGPGVVTAGDIQTVNDIEVLNPDH 132 KG LK R TI G +T GD+ E +NP+H Sbjct: 97 KGSLLKKYPLQDCEGGRASQKLRATISIDASDLAAAGGQKAITLGDLLQEGTFEAVNPEH 156 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 VI + + + L V+ G GY P++ E + I +DA +SP+ V+Y VE R Sbjct: 157 VIFTVTRPMQLDVMLRVAFGRGYTPSERIVLEEREMNEIVLDAAFSPVVLVNYFVEDTRV 216 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 GQ D+D+L + ++TDG + +++VA A++IL +F +E + +E I+V+ Sbjct: 217 GQDTDFDRLILQVETDGRVAPKEAVAFATQILSKHFSVFEKMDEKRIVFEEAISVEKENK 276 Query: 253 NPALLKKV---EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L K V E+ELSVRSTNCL NI +G+L+ E +L+ NFG+KSL EIK Sbjct: 277 DDILHKLVLGINEIELSVRSTNCLSNANIETIGELVIMPEPRLLQFRNFGKKSLCEIKNK 336 Query: 310 LGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 L M L LGM+L + ++++E K Y +K Sbjct: 337 LKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 368 >gi|119668299|emb|CAK95504.1| RNA polymerase alpha subunit [Lactobacillus curvatus] Length = 212 Score = 189 bits (481), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 91/202 (45%), Positives = 142/202 (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 AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 A +++++ PIG++ ID++Y+PI +V+Y VES R G+ D+DKL++ + T+GSI+ +++ Sbjct: 121 ADQNKSDDMPIGVLPIDSIYTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAI 180 Query: 218 ALASRILQDQLGMFINFEEPKK 239 +LA++I+ + L +F++ + K Sbjct: 181 SLAAKIMTEHLAIFVDLTDEAK 202 >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 = 189 bits (481), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 107/295 (36%), Positives = 170/295 (57%), Gaps = 12/295 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG T+GNALRRVL+++LRG A+TAV+I GV HE ++I GV ED+ DI+LN+ Sbjct: 23 FILEPLDRGQGTTVGNALRRVLLANLRGTAVTAVRIAGVNHEFATIPGVREDVLDILLNM 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L+ + + +F +GP VT D + ++E++NP + L DA + ME + Sbjct: 83 KQVVLRSHTNDPQIGRLFVQGPATVTTDDFELPTEVEIVNPTQYVATLSSDATLEMEFRI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY +R E + + IDA+Y P+++V+Y VE AR G L+ D+L + I T+G Sbjct: 143 EQGKGYHAVGKNRDEAAALDFLEIDAIYMPVRRVNYEVEDARVGGALEKDRLILDIWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK--VEELELSV 267 ++T ++S++ A+ IL D P K+ ++ + +E L LSV Sbjct: 203 NLTPQESLSQAATILVDLFN-------PLKDATFNVVEDIELEEEDETNQIPIEGLNLSV 255 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ NCL+ I + DL++ ++ D+L + NFG KS E V+ + LG+ +P Sbjct: 256 RAYNCLKRAQINSVADLLEYSQEDLLEIKNFGAKSADE---VIAALQDHLGITMP 307 >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 = 189 bits (481), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 119/320 (37%), Positives = 185/320 (57%), Gaps = 16/320 (5%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG---- 67 P+ IE+ V G+++ + I P +GF T+GN LRRVL+SS+ G AI+A++I Sbjct: 13 PDRIEF-VRGEDDGSYGKFIIYPFEKGFGVTIGNTLRRVLLSSIEGYAISAMRIQSNQEE 71 Query: 68 ----VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGP--GVVTAGDIQ 120 V E I GV ED ++I NIK ++LK+ G ++ + + G V+ AG ++ Sbjct: 72 SLKIVSSEFDLIPGVMEDTLEVIANIKNVHLKLDEGVTNTTINLSVNGKDNNVLKAGHLE 131 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +EV N D VI L DA + E V+ G GYV ++ + + + I +D+++SPI Sbjct: 132 R-EGVEVFNKDLVIATLSSDANLDFEFQVNYGRGYVSSEQNAKYLEEVNTIALDSIFSPI 190 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KV+Y+VE R GQ DYDKL M I T G I+ +D++ A+ ++++ L +NFE+ + Sbjct: 191 EKVTYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASVVREFLLPLVNFED---K 247 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V ++ + L VE+L LSVRS NCL EN+ +G+LI ++ ++ + NFG+ Sbjct: 248 VIHSVDYAEFRDSDILSMNVEKLNLSVRSLNCLIKENVKTLGELISKSPVELSKARNFGK 307 Query: 301 KSLVEIKGVLGTMGLFLGMN 320 KSL EI L GLFLGM+ Sbjct: 308 KSLEEIVEKLNAYGLFLGMS 327 >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 = 189 bits (480), Expect = 5e-46, Method: Compositional matrix adjust. Identities = 128/354 (36%), Positives = 195/354 (55%), Gaps = 24/354 (6%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +K + +E V G ++ R +A+PL +G HTLG+ALRR L+ L AI + + G Sbjct: 17 ESVKMSPVEGAVGGIDKVAR--FVADPLEKGMGHTLGSALRRALLIGLEAPAIVSFSMTG 74 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKM-------SGDSHK--RVTI--------FKRG 110 VLHE +++G+ ED+T+I+LN+KG LK G + R TI G Sbjct: 75 VLHEYMAVEGIIEDVTNIVLNLKGSLLKKYPLQDCEGGRCSQKLRATISIDASDLAAAGG 134 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL 170 VT GD+ E +NP+HVI + + + L V+ G GY P++ E + Sbjct: 135 QKEVTLGDLLQEGTFEAVNPEHVIFTVTRPMQLEVMLRVAFGRGYSPSERIVLEERGMNE 194 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG + +++VA A++IL + Sbjct: 195 IVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLVLQVETDGRVAPKEAVAFATQILSKHFSV 254 Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLKKV---EELELSVRSTNCLRGENIVYMGDLIQR 287 F +E + +E I+V+ + L K V E+ELSVRSTNCL NI +G+L+ Sbjct: 255 FEKMDEKRIVFEEAISVEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIGELVIM 314 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 315 PEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 368 >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 = 189 bits (480), Expect = 5e-46, Method: Compositional matrix adjust. Identities = 128/354 (36%), Positives = 195/354 (55%), Gaps = 24/354 (6%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +K + +E V G ++ R +A+PL +G HTLG+ALRR L+ L AI + + G Sbjct: 34 ESVKMSPVEGAVGGIDKVAR--FVADPLEKGMGHTLGSALRRALLIGLEAPAIVSFSMTG 91 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKM-------SGDSHK--RVTI--------FKRG 110 VLHE +++G+ ED+T+I+LN+KG LK G + R TI G Sbjct: 92 VLHEYMAVEGIIEDVTNIVLNLKGSLLKKYPLQDCEGGRCSQKLRATISIDASDLAAAGG 151 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL 170 VT GD+ E +NP+HVI + + + L V+ G GY P++ E + Sbjct: 152 QKEVTLGDLLQEGTFEAVNPEHVIFTVTRPMQLEVMLRVAFGRGYSPSERIVLEERGMNE 211 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG + +++VA A++IL + Sbjct: 212 IVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLVLQVETDGRVAPKEAVAFATQILSKHFSV 271 Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLKKV---EELELSVRSTNCLRGENIVYMGDLIQR 287 F +E + +E I+V+ + L K V E+ELSVRSTNCL NI +G+L+ Sbjct: 272 FEKMDEKRIVFEEAISVEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIGELVIM 331 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 332 PEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 385 >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 = 189 bits (480), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 128/354 (36%), Positives = 195/354 (55%), Gaps = 24/354 (6%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +K + +E V G ++ R +A+PL +G HTLG+ALRR L+ L AI + + G Sbjct: 17 ESVKMSPVEGAVGGIDKVAR--FVADPLEKGMGHTLGSALRRALLIGLEAPAIVSFSMTG 74 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKM-------SGDSHK--RVTI--------FKRG 110 VLHE +++G+ ED+T+I+LN+KG LK G + R TI G Sbjct: 75 VLHEYMAVEGIIEDVTNIVLNLKGSLLKKYPLQDCEGGRCSQKLRATISIDASDLAAAGG 134 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL 170 VT GD+ E +NP+HVI + + + L V+ G GY P++ E + Sbjct: 135 QKEVTLGDLLQEGTFEAVNPEHVIFTVTRPMQLEVMLRVAFGRGYSPSERIVLEERGMNE 194 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG + +++VA A++IL + Sbjct: 195 IVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLVLQVETDGRVAPKEAVAFATQILSKHFSV 254 Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLKKV---EELELSVRSTNCLRGENIVYMGDLIQR 287 F +E + +E I+V+ + L K V E+ELSVRSTNCL NI +G+L+ Sbjct: 255 FEKMDEKRIVFEEAISVEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIGELVIM 314 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 315 PEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 368 >gi|119662375|emb|CAJ33176.1| RNA polymerase alpha subunit [Lactobacillus parabuchneri] Length = 201 Score = 189 bits (480), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 100/200 (50%), Positives = 140/200 (70%), Gaps = 4/200 (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 DSVALASRILQDQLGMFINF 234 ++V+LA++IL + L MF++ Sbjct: 181 EAVSLAAKILTEHLEMFVDL 200 >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 = 189 bits (480), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 128/354 (36%), Positives = 195/354 (55%), Gaps = 24/354 (6%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +K + +E V G ++ R +A+PL +G HTLG+ALRR L+ L AI + + G Sbjct: 17 ESVKMSPVEGAVGGIDKVAR--FVADPLEKGMGHTLGSALRRALLIGLEAPAIVSFSMTG 74 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKM-------SGDSHK--RVTI--------FKRG 110 VLHE +++G+ ED+T+I+LN+KG LK G + R TI G Sbjct: 75 VLHEYMAVEGIIEDVTNIVLNLKGSLLKKYPLQDCEGGRCSQKLRATISVDASDLAAAGG 134 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL 170 VT GD+ E +NP+HVI + + + L V+ G GY P++ E + Sbjct: 135 QKEVTLGDLLQEGTFEAVNPEHVIFTVTRPMQLEVMLRVAFGRGYSPSERIVLEERGMNE 194 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG + +++VA A++IL + Sbjct: 195 IVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLVLQVETDGRVAPKEAVAFATQILSKHFSV 254 Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLKKV---EELELSVRSTNCLRGENIVYMGDLIQR 287 F +E + +E I+V+ + L K V E+ELSVRSTNCL NI +G+L+ Sbjct: 255 FEKMDEKRIVFEEAISVEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIGELVIM 314 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 315 PEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 368 >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 = 189 bits (479), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 127/354 (35%), Positives = 193/354 (54%), Gaps = 24/354 (6%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +K + +E V G ++ R +A+PL +G HTLG+ALRR L+ L AI + + G Sbjct: 17 ESVKMSPVEGAVGGIDKVAR--FVADPLEKGMGHTLGSALRRALLIGLEAPAIVSFSMTG 74 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKM---------SGDSHKRVTI--------FKRG 110 VLHE +++G+ ED+T+I+LN+KG LK R TI G Sbjct: 75 VLHEYMAVEGIIEDVTNIVLNLKGSLLKKYPLQDCEGGRCSQKLRATISIDASDLAAAGG 134 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL 170 VT GD+ E +NP+HVI + + + L V+ G GY P++ E + Sbjct: 135 QKEVTLGDLLQEGTFEAVNPEHVIFTVTRPMQLEVMLRVAFGRGYSPSERIVLEERGMNE 194 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG + +++VA A++IL + Sbjct: 195 IVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLVLQVETDGRVAPKEAVAFATQILSKHFSV 254 Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLKKV---EELELSVRSTNCLRGENIVYMGDLIQR 287 F +E + +E I+V+ + L K V E+ELSVRSTNCL NI +G+L+ Sbjct: 255 FEKMDEKRIVFEEAISVEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIGELVIM 314 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 315 PEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 368 >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 = 189 bits (479), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 118/320 (36%), Positives = 185/320 (57%), Gaps = 16/320 (5%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG---- 67 P+ IE+ V G+++ + + P +GF T+GN LRRVL+SS+ G AI+A++I Sbjct: 13 PDRIEF-VRGEDDGSYGKFVIYPFEKGFGVTIGNTLRRVLLSSIEGYAISAMRIQSNQEE 71 Query: 68 ----VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGP--GVVTAGDIQ 120 V E I GV ED ++I NIK ++LK+ G ++ + + G V+ AG ++ Sbjct: 72 SLKIVSSEFDLIPGVMEDTLEVIANIKNVHLKLDEGVTNTTINLSVNGKDNNVLKAGHLE 131 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +EV N D VI L DA + E V+ G GYV ++ + + + I +D+++SPI Sbjct: 132 R-EGVEVFNKDLVIATLSSDANLDFEFQVNYGRGYVSSEQNAKYLEEVNTIALDSIFSPI 190 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KV+Y+VE R GQ DYDKL M I T G I+ +D++ A+ ++++ L +NFE+ + Sbjct: 191 EKVTYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASVVREFLLPLVNFED---K 247 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V ++ + L VE+L LSVRS NCL EN+ +G+LI ++ ++ + NFG+ Sbjct: 248 VIHSVDYAEFRDSDILSMNVEKLNLSVRSLNCLIKENVKTLGELISKSPVELSKARNFGK 307 Query: 301 KSLVEIKGVLGTMGLFLGMN 320 KSL EI L GLFLGM+ Sbjct: 308 KSLEEIVEKLNAYGLFLGMS 327 >gi|119668341|emb|CAK95468.1| RNA polymerase alpha subunit [Lactobacillus paracasei subsp. paracasei] Length = 209 Score = 189 bits (479), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 93/196 (47%), Positives = 139/196 (70%) 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 LQDQLGMFINFEEPKK 239 L + L +F+N + K Sbjct: 181 LTEHLDIFVNLTDEAK 196 >gi|150187048|emb|CAK30159.1| RNA polymerase alpha subunit [Streptococcus australis ATCC 700641] Length = 217 Score = 189 bits (479), Expect = 7e-46, Method: Compositional matrix adjust. Identities = 91/200 (45%), Positives = 137/200 (68%) 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 VALASRILQDQLGMFINFEE 236 + L++RIL + L +F N E Sbjct: 181 LGLSARILTEHLNLFTNLTE 200 >gi|328813999|gb|AEB52115.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 215 Score = 189 bits (479), Expect = 7e-46, Method: Compositional matrix adjust. Identities = 96/194 (49%), Positives = 138/194 (71%), Gaps = 2/194 (1%) 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 KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK--HHRTEN 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 DQLGMFINFEEPKK 239 D L +F+N + K Sbjct: 181 DHLSIFVNLTDEAK 194 >gi|161511721|emb|CAP16871.1| DNA-directed RNA polymerase subunit alpha [Pediococcus acidilactici] Length = 225 Score = 189 bits (479), Expect = 7e-46, Method: Compositional matrix adjust. Identities = 99/203 (48%), Positives = 136/203 (66%), Gaps = 2/203 (0%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+GV ED+T IILN+K ++LK+ D Sbjct: 3 TLGNSLRRILLSSLPGAAITSVQIDNVLHEFSTIEGVVEDVTQIILNLKKVSLKIESDDE 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + I GP VTAGDI D+ VLNPD IC + LT G GY A + Sbjct: 63 KTLDINVVGPANVTAGDIMGDGDVTVLNPDSPICTVAEGTTFHAVLTADTGRGYTSADEN 122 Query: 162 --RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 R + PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ I TDGSIT ++ +L Sbjct: 123 KARKADMPIGVLPIDSIYTPIERVNYQVEKTRVGQRDDYDKLTLDIWTDGSITPSEATSL 182 Query: 220 ASRILQDQLGMFINFEEPKKEVK 242 +++IL + L +F+N + KE + Sbjct: 183 SAKILTEHLAIFVNLNDQAKETE 205 >gi|161511755|emb|CAP16888.1| DNA-directed RNA polymerase subunit alpha [Pediococcus damnosus] Length = 187 Score = 188 bits (478), Expect = 8e-46, Method: Compositional matrix adjust. Identities = 94/187 (50%), Positives = 132/187 (70%), Gaps = 2/187 (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 KHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ D PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSIT ++ Sbjct: 121 DENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSITPSEA 180 Query: 217 VALASRI 223 +L+++ Sbjct: 181 TSLSAKF 187 >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 = 188 bits (478), Expect = 9e-46, Method: Compositional matrix adjust. Identities = 112/300 (37%), Positives = 173/300 (57%), Gaps = 10/300 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-----DGVLHEISS----IKGVHE 80 A P GF T+GN LRRVL+SS++G AI+AV+I D V H ISS I V E Sbjct: 30 FTASPFETGFGTTIGNCLRRVLLSSIQGYAISAVKITSYGADDVPHSISSEFEAIPNVTE 89 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 D +++ N+K + L++ + + +F +GP V A D +E+L+ D I L Sbjct: 90 DTMEVLNNLKQMRLRLPNEIEQDTFLFDFKGPRSVKAADFAKPGQLEILSGDLHIMELME 149 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 +A V +E+ V G GYVPA+ + + +G I++D ++SP++KVSY ++ R GQ DYD Sbjct: 150 NAHVELEVQVDFGRGYVPAETNEKYVEVVGTISLDTIFSPVRKVSYEIQPCRVGQRNDYD 209 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + I TDG+I ED++A A++I ++ +F+NF E + ++ + L Sbjct: 210 KLVLEIWTDGTIRPEDALAEAAKIAKEHFTVFVNFNENELLSDDEADESDEMIKQLLDTP 269 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 + EL+LSVR++NCL+ N+ + DL TE ++ + N G+KSL EI+ L L LGM Sbjct: 270 ITELDLSVRASNCLKNANVSTIRDLTMMTEDEISKTRNVGKKSLQEIQEKLAERNLSLGM 329 >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 = 188 bits (478), Expect = 9e-46, Method: Compositional matrix adjust. Identities = 105/278 (37%), Positives = 164/278 (58%), Gaps = 6/278 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL G+ HTLGNALRRVL++++ G+AIT V+I GV E I G+ ED+ ++ILN+KGI Sbjct: 24 EPLDPGYGHTLGNALRRVLLTAIPGSAITHVRIAGVYQETDVIPGMTEDVVELILNLKGI 83 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSK 151 +L+ + + TI K+GP +VTA D+ + V++P H IC L+ D A + + T+ Sbjct: 84 HLRGRHEGTVQATIQKQGPAIVTAADLMLPEGLSVVDPTHYICTLEHDQARIEITATIEH 143 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GY+ A P+G IDA+++P+ +V+Y VE+ R GQ DYD+L + + T+G+I Sbjct: 144 GRGYLSADQRGIL--PLGEFPIDAIFTPVPRVNYVVENTRIGQATDYDRLILEVWTNGTI 201 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL--KKVEELELSVRS 269 ++++ A+R+L NF E L PA + +E L+LS R+ Sbjct: 202 RAQEALDYAARVLVHYYTTIANFNRLMVEPAAQPETNGLEI-PAHVYDTSIETLDLSTRT 260 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 NCL+ I +G ++Q E +L + N G+KS+ EI+ Sbjct: 261 YNCLKRAEITKIGQVLQMDEKALLSVRNLGQKSMEEIR 298 >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 = 188 bits (478), Expect = 9e-46, Method: Compositional matrix adjust. Identities = 121/322 (37%), Positives = 187/322 (58%), Gaps = 18/322 (5%) Query: 7 QELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 +E + P+ + + EE+ +T + EPL RGF T+GNALRR L+SS+ G AIT V+ Sbjct: 3 REFVYPSKVYW-----EEKTKTYGRFVVEPLERGFGITVGNALRRTLLSSIEGTAITGVK 57 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 + G HE S+++GV ED+ +II N+K + ++ + + + KRG G V A DI Sbjct: 58 VYGAYHEFSTVEGVLEDVLEIIANLKRVRFRLRESHVEILYLKKRGEGEVYARDIILPPS 117 Query: 125 IEVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 ++++ PD I + D + +E+ V +G GYVP + + + +G I +DA +SP++ V Sbjct: 118 VDLITPDVKIATITSPDTELHIEIRVERGFGYVPTEEMESFGE-VGWILVDADFSPVRHV 176 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV-- 241 SY VE R + DYD+L M I TDGS T E+ V A +IL L F + E +E+ Sbjct: 177 SYRVEKTRVERRSDYDRLIMEIRTDGSKTPEEVVKEAVQIL---LRNFSSLENIAQEIPF 233 Query: 242 --KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +E + V L +L +EEL++S RS N L+ I +G+L++ TE D+ N G Sbjct: 234 VAEEPVVVDELMEKLSL--PIEELDISQRSLNSLKRIGINTLGELVRLTEEDLKSTKNVG 291 Query: 300 RKSLVEIKGVLGTMGLFLGMNL 321 RK++ EIK L MGL+LGM++ Sbjct: 292 RKAINEIKEALKQMGLYLGMDI 313 >gi|119668275|emb|CAK95496.1| RNA polymerase alpha subunit [Lactobacillus parabuchneri] Length = 216 Score = 188 bits (478), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 100/201 (49%), Positives = 140/201 (69%), Gaps = 4/201 (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 LASRILQDQLGMFINFEEPKK 239 LA++IL + L MF++ + K Sbjct: 181 LAAKILTEHLEMFVDLTDEAK 201 >gi|151416840|emb|CAO78491.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gelidum] Length = 233 Score = 188 bits (478), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 99/233 (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 RTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 + D 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|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 = 188 bits (478), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 121/327 (37%), Positives = 181/327 (55%), Gaps = 32/327 (9%) Query: 8 ELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E I P + EE T + EPL +G+ T+GNALRRVL+SS+ GAA TAV+ Sbjct: 3 EFITPERFTW-----EEHTNTYGRFVVEPLEKGYGVTIGNALRRVLLSSIEGAAPTAVKF 57 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 +G HE +++ GV EDLT+I+LNIK + + G+ + + K+GPG V A D + + + Sbjct: 58 EGAYHEFTTLPGVVEDLTEIVLNIKKLRFVLHGEGPVFIELKKKGPGKVYAKDFELPSQL 117 Query: 126 EVLNPDHVICNLDVDAV-VRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKK 182 E+L PD I LD ++ + + L V KG G+V ++ + D +G I +DA +SPIKK Sbjct: 118 ELLTPDQEIATLDNESSEIEIHLRVDKGKGFVLSEDIQEIFDISTLGWIPLDADFSPIKK 177 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL---------GMFI- 232 V++ VE R G+ DY+KL+ I TDGSIT +D+V AS IL D +F Sbjct: 178 VTFKVEDTRVGRRTDYNKLTFEIWTDGSITPKDAVVRASNILIDHFSQIRDRLVEALFAV 237 Query: 233 -NFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 +EPK+EV E +N + +EE LS R+ L+ I + DL+ + Sbjct: 238 EEAQEPKEEVSEVLN-----------QTLEEAGLSGRALKVLKEHGIETVKDLVALDRKE 286 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLG 318 + + G+KS+ +I+ L +GL LG Sbjct: 287 LESLKGLGKKSIADIEAFLSQLGLELG 313 >gi|119662355|emb|CAJ33166.1| RNA polymerase alpha subunit [Lactobacillus salivarius] Length = 199 Score = 188 bits (477), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 95/198 (47%), Positives = 140/198 (70%), Gaps = 2/198 (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 KHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ D PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T+GSIT ++ Sbjct: 121 NDNKALADDMPIGVLPIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWTNGSITPSEA 180 Query: 217 VALASRILQDQLGMFINF 234 ++L+++IL + L +F++ Sbjct: 181 ISLSAKILTEHLALFVDL 198 >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 = 188 bits (477), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 116/292 (39%), Positives = 180/292 (61%), Gaps = 10/292 (3%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E N I PL G+ TLGNALRRVL+SSL GAA+T+++I VLHE S I GV ED+ Sbjct: 17 EARNYGKFIIGPLEGGYGVTLGNALRRVLLSSLEGAAVTSIRISDVLHEFSDIPGVREDV 76 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 ++LNIK + L + + + RG G VTA DIQ ++E++NP+ + +D D Sbjct: 77 IQVMLNIKQLRLILHDVETTHMHLEVRGEGTVTAADIQAPAEVEIVNPELELFTVD-DPN 135 Query: 143 VRMEL--TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 R+E+ TVS+G GY PA R+ PIG + +DA++SP+K+V+++V +AR GQ +YD+ Sbjct: 136 TRLEIDFTVSRGRGYSPAS-ERSGRLPIGELPVDAIFSPVKRVNWSVTAARVGQSTNYDR 194 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLK 258 L + I TDG+IT E++++ +++IL D L ++ E V++++ L + A Sbjct: 195 LILEIWTDGTITPENALSTSAKILIDHLRYITGVSAESLAVTVEKEVAGGRLT-SEAAET 253 Query: 259 KVEELELSVRSTNCLRGENIVYMGD---LIQRTEADMLRMANFGRKSLVEIK 307 +E L+LSVR N L+ I +GD L+++ E ++ + NFG KSL E++ Sbjct: 254 PIENLDLSVRVFNSLKRTGITTVGDVLELLEKGEDAVMSIRNFGEKSLDELR 305 >gi|150187071|emb|CAK30164.1| RNA polymerase alpha subunit [Streptococcus equi subsp. equi] Length = 215 Score = 188 bits (477), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 91/203 (44%), Positives = 142/203 (69%) 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 VALASRILQDQLGMFINFEEPKK 239 + L++R+L + L +F + + K Sbjct: 181 LGLSARVLIEHLNLFTDLTDVAK 203 >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 = 188 bits (477), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 114/298 (38%), Positives = 172/298 (57%), Gaps = 7/298 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL + LGNALRRVL+SS+ G AI +++IDGV HE + IKGV ED+ IILN+ Sbjct: 19 FLFEPLEYRYGTPLGNALRRVLLSSIPGGAIFSIRIDGVYHEFTGIKGVKEDVASIILNL 78 Query: 90 KGINLKMSGDSHKRVT--IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K + L + ++ T I + GP V AGDI+ + VLN D IC L + MEL Sbjct: 79 KQLILDIDIHDNEVYTLRIDQEGPKTVVAGDIECPTGVTVLNKDLPICTLSEGGSIHMEL 138 Query: 148 TVSKGHGYVPA----KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 G G+V + + ++ E P+G+I D+LYSP+K VSY + YD L + Sbjct: 139 QARLGRGFVRSDVNKRMYQNEGQPLGIIYTDSLYSPVKNVSYVANPIKSEDGSMYDSLEL 198 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPK-KEVKEDINVKSLPFNPALLKKVEE 262 I TD +I +++A+A++IL+D L + + +E + ++++ V P K +E+ Sbjct: 199 EITTDETIKPSEALAVAAKILRDHLSILASVDEASLEVKEQEVEVSEEPVVHTTHKMIED 258 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 LELSVRS NCL+ I + +L Q+TE +M+ + N G+KSL E+K + +GL N Sbjct: 259 LELSVRSYNCLKRAGIATVDELTQKTEEEMIHVRNLGKKSLQEVKDKIKELGLSFRQN 316 >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 = 188 bits (477), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 91/205 (44%), Positives = 143/205 (69%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+GVLHE S++ V ED++ II+NI Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEGVLHEFSAVDNVVEDVSTIIMNI 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I R G VTA DI +D+E+LNP+ I + +++ L Sbjct: 83 KQLALKIYSEEDKTLEIDVRDEGEVTASDITHDSDVEILNPELKIATVSKGGHLKIRLVA 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +KG GY A+ + T + PIG+I +D+LYSP+++V+YTVE+ R GQ D+DKL++ + T+G Sbjct: 143 NKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTVENTRVGQSSDFDKLTLDVWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINF 234 SIT ++SV+LA++I+ + L +F+ Sbjct: 203 SITPQESVSLAAKIMTEHLNIFVGL 227 >gi|161511715|emb|CAP16868.1| DNA-directed RNA polymerase subunit alpha [Pediococcus acidilactici] Length = 225 Score = 188 bits (477), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 103/225 (45%), Positives = 144/225 (64%), 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 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH-- 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|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 = 187 bits (476), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 114/290 (39%), Positives = 165/290 (56%), Gaps = 3/290 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ +IILN+ Sbjct: 23 FVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDVVEIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKR--GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K + ++ + T+ + GP VV AGD D E+LNPD I LD + ME+ Sbjct: 83 KELVVRFLDPKMQTTTLVLKAEGPKVVRAGDFVVPPDAEILNPDLTIATLDKGGKLYMEV 142 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 V +G GYVPA+ H + D I I +DA++SP+++V++ VE R GQ D DKL++ I T Sbjct: 143 RVDRGVGYVPAERHGIK-DRINSIPVDAIFSPVRRVAFQVEDTRLGQRTDLDKLTLRIWT 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 DGS+T +++ A IL++ L F N + E +V+ L +EEL LS Sbjct: 202 DGSVTPLEALNQAVEILKEHLSYFANPQATALPAPEPASVERAEGEEDLDLPLEELGLST 261 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 R + L+ E I + L+ D+ + G +SL EI+ L G L Sbjct: 262 RVLHSLKEEGIESVRALLALNLKDLKNIPGIGERSLEEIREALAKKGFAL 311 >gi|154424781|emb|CAL18493.1| RNA polymerase alpha subunit [Streptococcus dysgalactiae subsp. equisimilis] Length = 205 Score = 187 bits (476), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 92/203 (45%), Positives = 142/203 (69%) Query: 37 RGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+KG+ +K Sbjct: 2 RGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNVKGLAVKS 61 Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 + K + + GP VTAGDI T +DIE++NPDH + + +R +TV+K GYV Sbjct: 62 YVEDEKILELEVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLRATMTVAKKRGYV 121 Query: 157 PAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 PA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED+ Sbjct: 122 PAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDA 181 Query: 217 VALASRILQDQLGMFINFEEPKK 239 + L++R+L + L +F + + K Sbjct: 182 LGLSARVLIEHLNLFTDLTDVAK 204 >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 = 187 bits (476), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 110/273 (40%), Positives = 161/273 (58%), Gaps = 12/273 (4%) 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 F--INFEEPKKEVKEDINVKSLP----FNPALLKKVEELELSVRSTNCLRGENIVYMGDL 284 +N + E + V P + L +E++ + RS NCL+ E I +G+L Sbjct: 181 CRELNVD------AEGVEVGPAPTHDEADSQLAIPIEDMNFTQRSYNCLKREGIHTVGEL 234 Query: 285 IQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + TE D+L + NFG KS+ E+K L MGL L Sbjct: 235 VVHTEQDLLDIRNFGMKSIDEVKEKLQAMGLSL 267 >gi|312148520|gb|ADQ31179.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi JD1] Length = 344 Score = 187 bits (475), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 119/335 (35%), Positives = 186/335 (55%), 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 TAVQI-----DGVLHEISS----IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK--- 108 TA+++ D L +SS I GV ED ++I NIK I+LK+ K+ F Sbjct: 61 TAMRVQSNNKDASLKVVSSEFDLIPGVSEDTLEVIANIKNIHLKLGEGEQKKTISFSVSG 120 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 + V+ A + + +EV N D VI L D + +E ++ G GYV ++ + + + Sbjct: 121 KDTNVLKASHFER-DGVEVFNKDLVIATLSRDVNLDLEFQINYGRGYVSSEQNSKYLEEV 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|161511729|emb|CAP16875.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 229 Score = 187 bits (475), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 103/227 (45%), Positives = 147/227 (64%), Gaps = 2/227 (0%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+GV ED+T IILN+K ++LK+ D Sbjct: 3 TLGNSLRRILLSSLPGAAITSVQIDSVLHEFSTIEGVVEDVTQIILNLKKVSLKIESDED 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + I GP VTAGDI D+ +LNP+ IC + LT G GY A + Sbjct: 63 KTLEINVAGPANVTAGDIMGDGDVVILNPELPICTVAEGTTFHAVLTADTGRGYTSADEN 122 Query: 162 --RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 R + PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ I TDGSIT ++ +L Sbjct: 123 KARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDIWTDGSITPSEATSL 182 Query: 220 ASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 +++IL + L +F+N + KE + + + L +EEL+LS Sbjct: 183 SAKILTEHLAIFVNLNDQAKETEIMVEKEETHKEKMLEMTIEELDLS 229 >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 = 187 bits (475), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 112/320 (35%), Positives = 180/320 (56%), Gaps = 8/320 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 EN PL RG +LGNALRRVL+SS+ GAA+T ++I GV+HE ++I GV ED T Sbjct: 20 ENYGRFAIAPLQRGHGTSLGNALRRVLLSSIPGAAVTRIKITGVIHEFTAIPGVVEDGTQ 79 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVV 143 ++LN+KGI L+ D + + K+GPG V AGDI + +E++NP H +C +D + + Sbjct: 80 LVLNVKGIRLRSYSDRAVALQLVKQGPGPVFAGDIDAPSTVEIVNPQHYLCTIDDEHTTL 139 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 M+LTV +G G A PIG I +DAL+SPI +V++ VE + YD+L + Sbjct: 140 EMQLTVERGRGVQLAD--TVSGMPIGEIAVDALFSPIPRVNFLVEEIGGDPLTGYDRLII 197 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 I TDG+I D+++ A++IL ++ +P++ ++ +P A + ++EL Sbjct: 198 EIWTDGTIKPGDALSHAAQILTQYFSRIVSLNQPEESEQQPTLPPPIPDEIA-NRTIDEL 256 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM---- 319 LS R+ N LR +I +G L++ + ++ + N G K + EI L +G G Sbjct: 257 GLSTRTYNSLRRADIQTIGQLLRLDDRGLMSIRNLGAKGIEEIHQRLAALGYRSGETTSG 316 Query: 320 NLPDWPPESIEELAKKYEDK 339 +LPD +++ Y ++ Sbjct: 317 HLPDTTNQNVPSTHDSYPEE 336 >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 = 187 bits (475), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 110/297 (37%), Positives = 173/297 (58%), Gaps = 17/297 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG T+GNALRRVL+S+L G AIT+V+I GV HE ++IKGV ED+ +I+LN+ Sbjct: 23 FIIEPLARGQGTTVGNALRRVLLSNLEGTAITSVRIAGVNHEFATIKGVREDVLEILLNM 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK + + + GP VTA +++EV++ I L +++ ME + Sbjct: 83 KEVVLKSYSEQPQIGRLRVEGPATVTADRFDVPSEVEVIDRSQYIATLSPGSILEMEFRI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GY R + + + IDA++ P++KV+YT+E A G L+ D+L M I T+G Sbjct: 143 EKGTGYKAVDRTRDDVATLDFLQIDAIFMPVRKVNYTIEDAHIGSSLEQDRLIMDIWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP----FNPALLKKVEELEL 265 S T +D+++ A+ G+ ++ EP K++ N+ +P +P +EEL+L Sbjct: 203 SYTPQDALSNAA-------GILMSLFEPLKDI---TNMADIPSGETTDPTSQIPIEELQL 252 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 SVR+ NCL+ I + DL+ ++ D+L + NFG+KS E V+ + LG+ LP Sbjct: 253 SVRAYNCLKRAQINSVADLLDYSQEDLLEIKNFGQKSAEE---VIEALQKRLGITLP 306 >gi|86438812|emb|CAJ43371.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 213 Score = 187 bits (475), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 93/197 (47%), Positives = 132/197 (67%) 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 DSVALASRILQDQLGMF 231 D+++ A++I + +F Sbjct: 181 DALSFAAKISVEHFKVF 197 >gi|119668281|emb|CAK95497.1| RNA polymerase alpha subunit [Lactobacillus amylolyticus] Length = 217 Score = 187 bits (474), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 92/193 (47%), Positives = 131/193 (67%) 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 LASRILQDQLGMF 231 A+ IL + +F Sbjct: 181 FAANILVEHFKVF 193 >gi|119668297|emb|CAK95503.1| RNA polymerase alpha subunit [Lactobacillus curvatus] Length = 207 Score = 187 bits (474), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 90/201 (44%), Positives = 141/201 (70%) 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 LASRILQDQLGMFINFEEPKK 239 LA++I+ + L +F++ + K Sbjct: 181 LAAKIMTEHLAIFVDLTDEAK 201 >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 = 187 bits (474), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 110/297 (37%), Positives = 173/297 (58%), Gaps = 17/297 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG T+GNALRRVL+S+L G AIT+V+I GV HE ++IKGV ED+ +I+LN+ Sbjct: 30 FIIEPLARGQGTTVGNALRRVLLSNLEGTAITSVRIAGVNHEFATIKGVREDVLEILLNM 89 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK + + + GP VTA +++EV++ I L +++ ME + Sbjct: 90 KEVVLKSYSEQPQIGRLRVEGPATVTADRFDVPSEVEVIDRSQYIATLSPGSILEMEFRI 149 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GY R + + + IDA++ P++KV+YT+E A G L+ D+L M I T+G Sbjct: 150 EKGTGYKAVDRTRDDVATLDFLQIDAIFMPVRKVNYTIEDAHIGSSLEQDRLIMDIWTNG 209 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP----FNPALLKKVEELEL 265 S T +D+++ A+ G+ ++ EP K++ N+ +P +P +EEL+L Sbjct: 210 SYTPQDALSNAA-------GILMSLFEPLKDI---TNMADIPSGETTDPTSQIPIEELQL 259 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 SVR+ NCL+ I + DL+ ++ D+L + NFG+KS E V+ + LG+ LP Sbjct: 260 SVRAYNCLKRAQINSVADLLDYSQEDLLEIKNFGQKSAEE---VIEALQKRLGITLP 313 >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 = 187 bits (474), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 113/292 (38%), Positives = 171/292 (58%), Gaps = 5/292 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPLPRG+ TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ IILN+ Sbjct: 18 FIVEPLPRGYGVTLGNPLRRILLSSVAGTAVTSVYIEDVLHEFSTIPGVKEDVMQIILNL 77 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + +K+ D +T+ PG VTA D + ++NP+ + L+ + ME+ V Sbjct: 78 KELVVKLHDDEPVTLTLRAENPGRVTAADFEVPMGATLINPELYLATLNEGGKLVMEVRV 137 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYVPA+ H T+ D I I +DA+++P+++V+Y VE R GQ D D+L + + TDG Sbjct: 138 EPGIGYVPAEVHATK-DRINSIPVDAVFTPVRRVAYRVEDTRVGQKTDLDRLVLRVWTDG 196 Query: 210 SITGEDSVALASRILQDQLGMFIN--FEEPKKEVKEDINVKSLPFNPALLKKV--EELEL 265 S++ +++ A IL++QL +F +EP + P + A ++ E LEL Sbjct: 197 SVSPREALDSAVEILRNQLSVFSGGVIDEPLPVMAIPPRSADEPLSRAEPARISLESLEL 256 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 S R + L+ E I + L+ +E D+ ++ G KSL EIK L GL+L Sbjct: 257 SSRVLHSLQEEGIDSVDALLALSERDLKKVGGVGDKSLEEIKERLQAQGLYL 308 >gi|119662383|emb|CAJ33180.1| RNA polymerase alpha subunit [Lactobacillus sakei subsp. carnosus] Length = 212 Score = 187 bits (474), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 90/201 (44%), Positives = 141/201 (70%) 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 LASRILQDQLGMFINFEEPKK 239 LA++I+ + L +F++ + K Sbjct: 181 LAAKIMTEHLAIFVDLTDEAK 201 >gi|119668335|emb|CAK95508.1| RNA polymerase alpha subunit [Lactobacillus johnsonii] Length = 185 Score = 187 bits (474), Expect = 3e-45, Method: Compositional matrix adjust. 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|154424821|emb|CAL18513.1| RNA polymerase alpha subunit [Streptococcus mutans] Length = 200 Score = 187 bits (474), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 92/198 (46%), Positives = 140/198 (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 RILQDQLGMFINFEEPKK 239 R+L + L +F + E K Sbjct: 181 RVLIEHLNLFTDLTEVAK 198 >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 = 186 bits (473), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 117/315 (37%), Positives = 179/315 (56%), Gaps = 7/315 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E I P E + + EN + EPL +G+ T+GNALRRVL+SS+ GAA TAV+ +G Sbjct: 3 EFITP---EKFLWEEHTENYGRFVVEPLEKGYGTTVGNALRRVLLSSIEGAAPTAVKFEG 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-VDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVS 184 L PD I LD ++ + + L + KG G+V ++ + D IG I +DA +SPIKKV+ Sbjct: 120 LTPDQEIATLDNENSEIEIYLRIDKGKGFVLSEDIQEIFDISTIGWIPLDADFSPIKKVA 179 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN-FEEPKKEVKE 243 + VE R G+ DY++L+M I TDGSIT +D+V A+ IL + M + E + 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|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 = 186 bits (473), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 115/299 (38%), Positives = 174/299 (58%), Gaps = 12/299 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED +ILN+ Sbjct: 22 FVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDAIQLILNL 81 Query: 90 KGINLKMS--GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K + ++ + G K +T+ GP V+ A D++ D EV+NPD I L+ + ME+ Sbjct: 82 KELVVRFANPGTGPKTLTLRASGPKVIYARDLECPPDAEVVNPDQYIATLEEKGKLVMEI 141 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 V +G GYVPA+ H + D I I +DALYSP+++V+Y VE R GQ D DKL++ I T Sbjct: 142 RVDEGVGYVPAEKHGIK-DRISSIPVDALYSPVRRVAYQVEDTRLGQRTDLDKLTLRIWT 200 Query: 208 DGSITGEDSVALASRILQDQLGMF----INFEEPKK-----EVKEDINVKSLPFNPALLK 258 +G+++ D++ A IL++QLG F + EPK + P +P + Sbjct: 201 NGAVSPMDALQQAVAILREQLGYFDQSPVMRVEPKSTPAPAPAAPATTAPAAPASPGVGL 260 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +++L L+ R + L+ E I + L+ +E ++ R+ G +SL EIK L GL + Sbjct: 261 TLDDLGLTTRVLHNLKEEGIESVESLLALSEKELRRVPGIGDRSLQEIKDCLAQHGLVM 319 >gi|154424851|emb|CAL18528.1| RNA polymerase alpha subunit [Streptococcus ratti] Length = 212 Score = 186 bits (473), Expect = 4e-45, Method: Compositional matrix adjust. Identities = 89/201 (44%), Positives = 140/201 (69%) 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 LASRILQDQLGMFINFEEPKK 239 L++R+L + L +F + E K Sbjct: 181 LSARVLIEHLNLFTDLTEVAK 201 >gi|150036744|emb|CAM98026.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. mesenteroides] Length = 226 Score = 186 bits (472), Expect = 4e-45, Method: Compositional matrix adjust. Identities = 96/212 (45%), Positives = 139/212 (65%), Gaps = 2/212 (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 KGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 KG GY A ++ D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+ Sbjct: 121 KGRGYTSADENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRIGARDDYDKLTFDIWTN 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKE 240 GSI D+++L ++IL + LG+F++ E Sbjct: 181 GSIKPSDALSLGAKILAEHLGLFMDISPVAAE 212 >gi|150036806|emb|CAM98276.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 242 Score = 186 bits (472), Expect = 4e-45, Method: Compositional matrix adjust. Identities = 103/241 (42%), Positives = 149/241 (61%), Gaps = 2/241 (0%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL G A+ VQIDGV+HE S++ GV ED+T +ILN+K + Sbjct: 2 EPLERGYGTTLGNSLRRVLLSSLPGVAVNTVQIDGVVHEFSTVDGVVEDVTQLILNLKKV 61 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 + I +GP VTA D+ DIEVLNPD I L + M +T KG Sbjct: 62 VFATDSAEEHALEIDVQGPKDVTAADLMGSADIEVLNPDLHIATLAAGKSLHMTVTAVKG 121 Query: 153 HGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 GY A+ ++ D PIG++T+D++Y+PI++V+Y VE+ R G DYDKL+M + T+GS Sbjct: 122 RGYSSAEENKQLRDEMPIGVLTVDSIYTPIERVNYHVENKRVGSRDDYDKLTMEVWTNGS 181 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 I D+++L S+IL + L +F + ++ K + + A +E+L+LSVRS Sbjct: 182 IKPSDALSLGSKILTEHLNLFTDISPVAQDTKVMVESEPAANTAADAAPIEDLDLSVRSY 241 Query: 271 N 271 N Sbjct: 242 N 242 >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 = 186 bits (472), Expect = 4e-45, Method: Compositional matrix adjust. Identities = 94/206 (45%), Positives = 137/206 (66%), Gaps = 3/206 (1%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EP RG+ HTLGNALRRVL+SS+ G A T V I GV+HE S+I GV ED+ +++LN+KG+ Sbjct: 2 EPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGVVHEYSTIDGVQEDVVNLLLNLKGV 61 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 K+ V++ K G GVVTA DI+ +D+E++NP HVI +L + M++ V +G Sbjct: 62 VFKLHNRDEVTVSLRKEGEGVVTAADIELPHDVEIINPGHVIASLSAGGKLDMQIKVEQG 121 Query: 153 HGYVPAKHHRTENDP---IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 GYVP + ++ IG + +DA ++P+++VSY VESAR Q D DKL M I+T+G Sbjct: 122 RGYVPGNVRKFGDESSKVIGRVVLDASFAPVRRVSYAVESARVEQRTDLDKLVMNIETNG 181 Query: 210 SITGEDSVALASRILQDQLGMFINFE 235 I+ E+++ ++RIL DQL +F E Sbjct: 182 VISPEEAIRQSARILVDQLSVFAALE 207 >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 = 186 bits (472), Expect = 5e-45, Method: Compositional matrix adjust. Identities = 107/294 (36%), Positives = 175/294 (59%), Gaps = 9/294 (3%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P+ +G AH LGN++RR L+SSL GA+I V IDGVLHE S+++ V ED+ +I+ N+K + Sbjct: 31 PVEKGMAHILGNSIRRFLLSSLSGASIIKVNIDGVLHEYSTLEDVKEDVVEIVSNLKKVA 90 Query: 94 LKMSGDSHK---RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 +K+ + K +++ K G VVTAGD +T IE++N D I L + + TVS Sbjct: 91 IKLDKNVSKVELELSVTKSGVVVVTAGDFKTTQGIEIINKDQPIATLTNEREFSLTATVS 150 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 G TE + +G I +D+ ++PIK+V++ + + L+ + + T+G+ Sbjct: 151 VGRNVGILSALPTELEKVGDIAVDSDFNPIKRVAFEIFDNGTNETLE-----VFVKTNGT 205 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 I +V A +Q+ +F++ P D + S +P LLK +++LEL+VRS+ Sbjct: 206 IEPLVAVTKALEYFCEQISVFVSLRVPSNGKTGDALLDS-NIDPILLKPIDDLELTVRSS 264 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L L LG+ + ++ Sbjct: 265 NCLRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQILIDNNLSLGVQIDNF 318 >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 = 186 bits (472), Expect = 5e-45, Method: Compositional matrix adjust. Identities = 117/335 (34%), Positives = 183/335 (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---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK--- 108 TA+++ V E I GV ED ++I NIK I+LK+ K+ F Sbjct: 61 TAMRVQSNNKDASSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKLGEGEQKKTISFSVSG 120 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 + V+ A + + +EV N D VI L D + +E ++ G GYV ++ + + + Sbjct: 121 KDTNVLKASHFER-DGVEVFNKDLVIATLSRDVNLDLEFQINYGRGYVSSEQNSKYLEEV 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|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 = 186 bits (472), Expect = 5e-45, Method: Compositional matrix adjust. 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|119668301|emb|CAK95453.1| RNA polymerase alpha subunit [Lactobacillus curvatus] Length = 212 Score = 186 bits (472), Expect = 5e-45, Method: Compositional matrix adjust. Identities = 90/198 (45%), Positives = 140/198 (70%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L++SL G A+T +QIDGVLHE S+I GV ED+T IILNIK + LK+ + Sbjct: 3 TLGNSLRRILLASLPGTAVTDIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKLHVEED 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + I +GP VTA DI + +D+EVLN D IC + + +TV KG GYV A + Sbjct: 63 KTIEIDVKGPATVTAADIISDDDVEVLNTDQYICTVAEGGNFHVRMTVKKGRGYVAADQN 122 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 ++++ PIG++ ID++Y+PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA+ Sbjct: 123 KSDDMPIGVLPIDSIYTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLAA 182 Query: 222 RILQDQLGMFINFEEPKK 239 +I+ + L +F++ + K Sbjct: 183 KIMTEHLAIFVDLTDEAK 200 >gi|119662321|emb|CAJ33148.1| RNA polymerase alpha subunit [Lactobacillus kefiranofaciens subsp. kefirgranum] Length = 215 Score = 186 bits (471), Expect = 5e-45, Method: Compositional matrix adjust. Identities = 92/193 (47%), Positives = 130/193 (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 + + 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 LASRILQDQLGMF 231 A++IL + +F Sbjct: 181 FAAKILVEHFKVF 193 >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 = 186 bits (471), Expect = 5e-45, Method: Compositional matrix adjust. Identities = 118/334 (35%), Positives = 186/334 (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 DTNVLKASHFER-DGVEVFNKDLVIATLSHDVNLDFEFQINYGRGYVSSEQNSKYLEEVN 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 PLVDFEDS---VSVSFDKSKSESSNLLDMSIEKLDLSVRSLNCLAKENVRTLGELISKNA 297 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ LFLGM+ D Sbjct: 298 EELSKARNFGKKSLEEIIEKLGSYQLFLGMSKED 331 >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 = 186 bits (471), Expect = 5e-45, Method: Compositional matrix adjust. Identities = 117/334 (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---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK---R 109 A++I V E I GV ED ++I NIK I+LK+ +++ F + Sbjct: 62 AMRIQSNNKDSSSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKLGEGEQRKIISFSVSGK 121 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 V+ A + + +EV N D VI L D + +E ++ G GYV ++ + + + Sbjct: 122 DTKVLKASHFER-DGVEVFNRDLVIATLSQDVNLDLEFQINYGRGYVSSEQNSKYLEEVN 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|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 = 186 bits (471), Expect = 6e-45, Method: Compositional matrix adjust. Identities = 118/334 (35%), Positives = 186/334 (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 DTNVLKASHFER-DGVEVFNKDLVIATLSHDVNLDFEFQINYGRGYVSSEQNSKYLEEVN 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 PLVDFEDS---VSVSFDKSKSESSNLLDMSIEKLDLSVRSLNCLAKENVRTLGELISKNA 295 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ LFLGM+ D Sbjct: 296 EELSKARNFGKKSLEEIIEKLGSYQLFLGMSKED 329 >gi|168805063|gb|ACA28610.1| DNA-directed RNA polymerase subunit alpha [Thiomonas sp. WJ68] Length = 228 Score = 186 bits (471), Expect = 6e-45, Method: Compositional matrix adjust. Identities = 96/227 (42%), Positives = 147/227 (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 LDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSYTVESAREG 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|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 = 186 bits (471), Expect = 6e-45, Method: Compositional matrix adjust. Identities = 119/317 (37%), Positives = 186/317 (58%), Gaps = 12/317 (3%) Query: 6 WQELIKPNNIEYIVLGQ-EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 ++ ++P E+I+L + +++N PL RGF TLGNA+RR L+++ GA++ A++ Sbjct: 1 MKQFVRP---EFILLKEGQDKNYGKFSVSPLERGFGITLGNAIRRTLLAATPGASVYAIK 57 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKM-----SGDSHKRVTIFKRGPGVVTAGDI 119 I G HE +SI G+ E++T IILNIK + LK+ S D ++ I G V AGD+ Sbjct: 58 IAGATHEFTSIPGIIENVTKIILNIKQLVLKIDTSIYSDDEVVQLRIRSDIQGPVYAGDL 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYS 178 +E+LN D +I + V+ + L GY K ++ E N G+ITID+ YS Sbjct: 118 DIPAGVEILNKDLLIATISEGGVLDLVLYAKNSRGYKTFKDNKNEKNIEPGMITIDSNYS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI KV+Y+V+SA+ G+ +D +KL + + TDGSIT D++++ASRIL L FI+ + Sbjct: 178 PIIKVAYSVDSAKIGRAIDLEKLELEVTTDGSITAIDAISIASRILVAHLEFFIDLNR-E 236 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 V E I + L + VEEL+ + RS NCL+ I + +L+ + E ++ + N Sbjct: 237 ISVLEVIGTNQTD-DKELDRTVEELDFTQRSLNCLKRAGINTLRELVSKNEDEIGSIRNL 295 Query: 299 GRKSLVEIKGVLGTMGL 315 GRKSL EIK + ++GL Sbjct: 296 GRKSLKEIKDKVASLGL 312 >gi|119668325|emb|CAK95462.1| RNA polymerase alpha subunit [Lactobacillus hilgardii] Length = 200 Score = 185 bits (470), Expect = 7e-45, Method: Compositional matrix adjust. Identities = 100/200 (50%), Positives = 139/200 (69%), Gaps = 4/200 (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 DSVALASRILQDQLGMFINF 234 ++V+LA++IL + L MF++ Sbjct: 181 EAVSLAAKILTEHLEMFVDL 200 >gi|119662279|emb|CAJ33126.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 210 Score = 185 bits (470), Expect = 7e-45, Method: Compositional matrix adjust. Identities = 92/193 (47%), Positives = 130/193 (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 + + 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 LASRILQDQLGMF 231 A++IL + +F Sbjct: 181 FAAKILVEHFKVF 193 >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 = 185 bits (470), Expect = 7e-45, Method: Compositional matrix adjust. Identities = 123/332 (37%), Positives = 188/332 (56%), Gaps = 34/332 (10%) Query: 15 IEYIV---LGQEEENR------TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 IEY++ L EEE + P+ +G+ T+GNALRRVL+SS+ AI ++ Sbjct: 2 IEYVIPKKLKIEEERSETEYYYARYVLSPMEKGYGTTIGNALRRVLLSSIPSVAIVGIRF 61 Query: 66 --DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV--TIFKRGPGVVTAGDIQT 121 HE ++ GV ED+ +IILN+K I L+ +RV T+ KRGPG +TA DI+ Sbjct: 62 IKPEKYHEFDTLPGVKEDILEIILNLKRIQLRADVPVRERVKMTVEKRGPGNLTAADIKV 121 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 E+ NP I LD +A + EL G G+VPA+ ++ IG I ID ++SP+ Sbjct: 122 PAGFEIANPSLKIATLDEEADLFFELYAQAGKGFVPAQEM-DDHPEIGWIPIDGVFSPVM 180 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL---------GM-- 230 KV++ VESAR + DYDK+ + I T +I +++ A IL + L GM Sbjct: 181 KVNFRVESARVEKRTDYDKMILEIWTKKTIFPNEALKRAVDILMNHLQIITDSLPEGMPP 240 Query: 231 ----FINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQ 286 F+ + + +V++ ++ + ++ KK++ELEL++RS NCLR + I +GDL++ Sbjct: 241 LTTEFVPISQEEVKVEQTVSEEEAVYS----KKIDELELTIRSLNCLRRDKIETIGDLLK 296 Query: 287 RTEADMLRMANFGRKSLVEIK-GVLGTMGLFL 317 RTE D+L++ NFG KSL E+K +L GL L Sbjct: 297 RTEEDLLKIKNFGPKSLDEVKQKLLEKFGLSL 328 >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 = 185 bits (470), Expect = 7e-45, Method: Compositional matrix adjust. Identities = 119/320 (37%), Positives = 186/320 (58%), Gaps = 16/320 (5%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID----G 67 P+ IE++ G+++ + I P +GF T+GN LRRVL+SS+ G AI+A++I G Sbjct: 14 PDRIEFL-RGEDDGSYGKFIIYPFEKGFGVTIGNTLRRVLLSSIEGYAISAMRIQSNQGG 72 Query: 68 VLHEISS----IKGVHEDLTDIILNIKGINLKMS---GDSHKRVTIFKRGPGVVTAGDIQ 120 L +SS I GV ED ++I NIK I+LK+ + V++ + V+ A ++ Sbjct: 73 SLKIVSSEFDLIPGVVEDTLEVIANIKNIHLKLDEGVKSATISVSVNGKDTNVLKAVHLE 132 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +EV N D VI L +A + E V G GYV ++H+ + + I +D+++SPI Sbjct: 133 R-EGVEVCNKDLVIATLSSEANLDFEFQVDYGRGYVSSEHNAKYLEEVNTIALDSIFSPI 191 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KV+Y+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L +NFE+ + Sbjct: 192 EKVTYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREFLLPLVNFED---K 248 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V ++ + L +E+L LSVRS NCL EN+ +G+LI ++ ++ + NFG+ Sbjct: 249 VVHSVDDSEFRDSDILNMNIEKLNLSVRSLNCLTKENVKTLGELISKSAEELSKARNFGK 308 Query: 301 KSLVEIKGVLGTMGLFLGMN 320 KSL EI L GLFLGM+ Sbjct: 309 KSLEEIVEKLSVYGLFLGMS 328 >gi|119662367|emb|CAJ33172.1| RNA polymerase alpha subunit [Lactobacillus ultunensis] Length = 212 Score = 185 bits (470), Expect = 7e-45, Method: Compositional matrix adjust. Identities = 92/193 (47%), Positives = 130/193 (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 + + 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 LASRILQDQLGMF 231 A++IL + +F Sbjct: 181 FAAKILVEHFKVF 193 >gi|154424751|emb|CAL18478.1| RNA polymerase alpha subunit [Streptococcus salivarius] Length = 216 Score = 185 bits (470), Expect = 8e-45, Method: Compositional matrix adjust. Identities = 89/201 (44%), Positives = 140/201 (69%) 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 LASRILQDQLGMFINFEEPKK 239 L++R+L + L +F + + K Sbjct: 181 LSARVLIEHLNLFTDLTDVAK 201 >gi|150036812|emb|CAM98039.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 240 Score = 185 bits (470), Expect = 8e-45, Method: Compositional matrix adjust. Identities = 102/240 (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 GYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A+ ++ D 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|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 = 185 bits (470), Expect = 8e-45, Method: Compositional matrix adjust. Identities = 118/317 (37%), Positives = 188/317 (59%), Gaps = 12/317 (3%) Query: 6 WQELIKPNNIEYIVLGQ-EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 ++ ++P E+I+L + +++N PL RGF TLGNA+RR L+++ GA++ A++ Sbjct: 1 MKQFVRP---EFILLKEGQDKNYGKFSVSPLERGFGITLGNAIRRTLLAATPGASVYAIK 57 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKM-----SGDSHKRVTIFKRGPGVVTAGDI 119 I G HE +SI G+ E++T IILNIK + L++ S D ++ I G V AGD+ Sbjct: 58 IAGATHEFTSIPGIIENVTKIILNIKQLVLRIDTSIYSDDEVVQLKIRSDIQGPVYAGDL 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYS 178 + +EVLN D +I + ++ + L GY K ++ E N G+ITID+ YS Sbjct: 118 ELPAGVEVLNQDLLIATISEGGILDLVLYAKNSRGYKTFKDNKNEKNIEPGMITIDSNYS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI KV+Y+V+SA+ G+ +D +KL + + TDGSIT D++++AS+IL L FI+ + Sbjct: 178 PIIKVAYSVDSAKIGRAIDLEKLELEVTTDGSITAIDAISIASKILVAHLEFFIDLNR-E 236 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 V E I V + L + VEEL+ + RS NCL+ I + +L+ + E ++ + N Sbjct: 237 ISVLEVIGVNQTD-DKELDRTVEELDFTQRSLNCLKRAGINTLRELVTKNEDEIGSIRNL 295 Query: 299 GRKSLVEIKGVLGTMGL 315 GRKSL EIK + ++GL Sbjct: 296 GRKSLKEIKDKVASLGL 312 >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 = 185 bits (469), Expect = 9e-45, Method: Compositional matrix adjust. Identities = 118/335 (35%), Positives = 183/335 (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---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK--- 108 TA+++ V E I GV ED +II NIK I+LK+ K+ F Sbjct: 61 TAMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEIIANIKNIHLKLGEGEQKKTISFSVSG 120 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 + V+ A + + +EV N D VI L D + +E ++ G GYV ++ + + + Sbjct: 121 KDTNVLKASHFER-DGVEVFNKDLVIATLSRDVNLDLEFQINYGRGYVSSEQNSKYLEEV 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|4379135|emb|CAA83722.1| DNA-directed RNA Polymerase (alpha) [Mycoplasma capricolum subsp. capricolum ATCC 27343] Length = 317 Score = 185 bits (469), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 118/317 (37%), Positives = 188/317 (59%), Gaps = 12/317 (3%) Query: 6 WQELIKPNNIEYIVLGQ-EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 ++ ++P E+I+L + +++N PL RGF TLGNA+RR L+++ GA++ A++ Sbjct: 1 MKQFVRP---EFILLKEGQDKNYGKXXVSPLERGFGITLGNAIRRTLLAATPGASVYAIK 57 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKM-----SGDSHKRVTIFKRGPGVVTAGDI 119 I G HE +SI G+ E++T IILNIK + L++ S D ++ I G V AGD+ Sbjct: 58 IAGATHEFTSIPGIIENVTKIILNIKQLVLRIDTSIYSDDEVVQLKIRSDIQGPVYAGDL 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYS 178 + +EVLN D +I + ++ + L GY K ++ E N G+ITID+ YS Sbjct: 118 ELPAGVEVLNQDLLIATISEGGILDLVLYAKNSRGYKTFKDNKNEKNVEPGMITIDSNYS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI KV+Y+V+SA+ G+ +D +KL + + TDGSIT D++++AS+IL L FI+ + Sbjct: 178 PIIKVAYSVDSAKIGRAIDLEKLELEVTTDGSITAIDAISIASKILVAHLEFFIDLNR-E 236 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 V E I V + L + VEEL+ + RS NCL+ I + +L+ + E ++ + N Sbjct: 237 ISVLEVIGVNQTD-DKELDRTVEELDFTQRSLNCLKRAGINTLRELVTKNEDEIGSIRNL 295 Query: 299 GRKSLVEIKGVLGTMGL 315 GRKSL EIK + ++GL Sbjct: 296 GRKSLKEIKDKVASLGL 312 >gi|150036746|emb|CAM98260.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. mesenteroides] Length = 226 Score = 185 bits (469), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 95/212 (44%), 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 HGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 GY A ++ D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GS Sbjct: 121 RGYTSADENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRIGARDDYDKLTFDIWTNGS 180 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 I D+++L ++IL + LG+F++ E Sbjct: 181 IKPSDALSLGAKILAEHLGLFMDISPVAAEAS 212 >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 = 185 bits (469), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 118/317 (37%), Positives = 186/317 (58%), Gaps = 12/317 (3%) Query: 6 WQELIKPNNIEYIVLGQ-EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 ++ ++P E+I+L + +++N PL RGF TLGNA+RR L+++ GA++ A++ Sbjct: 1 MKQFVRP---EFILLKEGQDKNYGKFSVSPLERGFGITLGNAIRRTLLAATPGASVYAIK 57 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKM-----SGDSHKRVTIFKRGPGVVTAGDI 119 I G HE +SI G+ E++T IILNIK + LK+ S D ++ I G + AGD+ Sbjct: 58 IAGATHEFTSIPGIIENVTKIILNIKQLVLKIDTSIYSDDEVVQLRIRSDIQGPIYAGDL 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYS 178 +E+LN D +I + V+ + L GY K ++ E N G+ITID+ YS Sbjct: 118 DIPAGVEILNKDLLIATISEGGVLDLVLYAKNSRGYKTFKDNKNEKNIEPGMITIDSNYS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI KV+Y+V+SA+ G+ +D +KL + + TDGSIT D++++ASRIL L FI+ + Sbjct: 178 PIIKVAYSVDSAKIGRAIDLEKLELEVTTDGSITAIDAISIASRILVAHLEFFIDLNR-E 236 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 V E I + L + VEEL+ + RS NCL+ I + +L+ + E ++ + N Sbjct: 237 ISVLEVIGTNQTD-DKELDRTVEELDFTQRSLNCLKRAGINTLRELVSKNEDEIGSIRNL 295 Query: 299 GRKSLVEIKGVLGTMGL 315 GRKSL EIK + ++GL Sbjct: 296 GRKSLKEIKDKVASLGL 312 >gi|150036818|emb|CAM98041.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax] Length = 222 Score = 185 bits (469), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 95/218 (43%), Positives = 142/218 (65%), Gaps = 2/218 (0%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T +ILN+K + Sbjct: 2 EPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQLILNLKKV 61 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 L + D K + I +GP VTA D+Q DIEVLNP+ + + + M +T KG Sbjct: 62 VLAIDSDEEKSLEIDVQGPAEVTAADLQGSADIEVLNPELHLATVAAGKSLHMTVTAVKG 121 Query: 153 HGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 GY A ++ D PIG++ +D++Y+PI++V+Y VE+ R GQ DYDKL+ I T+GS Sbjct: 122 RGYSSADENKQLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGQRDDYDKLTFDIWTNGS 181 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 I D+++L ++IL + L +F + E + ++V+ Sbjct: 182 IKPSDALSLGAKILSEHLNLFTDISSVAAETEVMVDVE 219 >gi|119668303|emb|CAK95505.1| RNA polymerase alpha subunit [Lactobacillus curvatus] Length = 217 Score = 184 bits (468), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 89/197 (45%), Positives = 139/197 (70%) 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 ILQDQLGMFINFEEPKK 239 I+ + L +F++ + K Sbjct: 181 IMTEHLAIFVDLTDEAK 197 >gi|150187035|emb|CAK30156.1| RNA polymerase alpha subunit [Streptococcus entericus] Length = 222 Score = 184 bits (468), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 91/203 (44%), Positives = 140/203 (68%) 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 EDSVALASRILQDQLGMFINFEE 236 ED++ L++ +L + L +F + + Sbjct: 181 EDALGLSANVLINHLNLFTDLTD 203 >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 = 184 bits (467), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 121/336 (36%), Positives = 186/336 (55%), Gaps = 19/336 (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---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGP 111 TA+++ V E I GV ED +II NIK I+LK+ G+ +R TI Sbjct: 61 TAMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEIIANIKNIHLKL-GEGEQRKTISFSVS 119 Query: 112 G----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 G V+ A + + +EV N D VI L D + +E ++ G GYV ++ + + Sbjct: 120 GKDTNVLKASHFER-DGVEVFNKDLVIATLSRDVNLDLEFQINYGRGYVSSEQNSKYLEE 178 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 + +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ Sbjct: 179 VNVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREF 238 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 L ++FE+ V + L +E+L LSVRS NCL EN+ +G+LI + Sbjct: 239 LFPLVDFED---NVNTSFEKSKSESSNLLDMSIEKLNLSVRSLNCLAKENVRTLGELISK 295 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ L+LGM+ D Sbjct: 296 NAEELSKARNFGKKSLEEIIEKLGSYRLYLGMSKED 331 >gi|119668293|emb|CAK95452.1| RNA polymerase alpha subunit [Lactobacillus collinoides] Length = 191 Score = 184 bits (467), Expect = 2e-44, Method: Compositional matrix adjust. 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 PAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 A ++ + D 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|119668317|emb|CAK95459.1| RNA polymerase alpha subunit [Lactobacillus gallinarum] Length = 214 Score = 184 bits (467), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 91/193 (47%), Positives = 130/193 (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 LASRILQDQLGMF 231 A++IL + +F Sbjct: 181 FAAKILVEHFKVF 193 >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 = 184 bits (467), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 121/336 (36%), Positives = 186/336 (55%), Gaps = 19/336 (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---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGP 111 TA+++ V E I GV ED +II NIK I+LK+ G+ +R TI Sbjct: 61 TAMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEIIANIKNIHLKL-GEGEQRKTISFSVS 119 Query: 112 G----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 G V+ A + + +EV N D VI L D + +E ++ G GYV ++ + + Sbjct: 120 GKDTNVLKASHFER-DGVEVFNKDLVIATLSHDVNLDLEFQINYGRGYVSSEQNSKYLEE 178 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 + +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ Sbjct: 179 VNVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREF 238 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 L ++FE+ V + L +E+L LSVRS NCL EN+ +G+LI + Sbjct: 239 LFPLVDFED---NVNTSFEKSKSESSNLLDMSIEKLNLSVRSLNCLAKENVRTLGELISK 295 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ L+LGM+ D Sbjct: 296 NAEELSKARNFGKKSLEEIIEKLGSYRLYLGMSKED 331 >gi|90567619|emb|CAJ31077.1| RNA polymerase alpha subunit [Lactobacillus helveticus R0052] Length = 197 Score = 184 bits (467), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 91/193 (47%), Positives = 130/193 (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 LASRILQDQLGMF 231 A++IL + +F Sbjct: 181 FAAKILVEHFKVF 193 >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 = 184 bits (467), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 108/293 (36%), Positives = 171/293 (58%), Gaps = 7/293 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG T+GN+LRRVL+++L GAA+TA++I GV HE ++I GV ED+ +I+LN+ Sbjct: 23 FVLEPLERGQGTTVGNSLRRVLLANLEGAAVTAIRIGGVNHEFATIPGVREDVLEIMLNM 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK + + + G VTAG + +++EV+NP I L A + ME + Sbjct: 83 KEIVLKSYTEQPQIGRLVATGAAHVTAGQFELPSEVEVVNPTQPIATLTEGAKLEMEFRI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYVP + E + + IDA++ P+ KV+Y+VES R + D+L + I T+G Sbjct: 143 EKGVGYVPVERSSEEPAALDFLQIDAVFMPVTKVNYSVESIRGEEGEAKDRLMLEIWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 S +++++ A+ IL D + + + V+E + + NP +EEL+LSVR+ Sbjct: 203 SFNPKEALSKAADILVDLFNPLKDLNQLETAVQEYPDEE----NPQSQIPIEELQLSVRA 258 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 NCL+ I + DL+ ++ D+L + NFG+KS E V+ + LG+ LP Sbjct: 259 YNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEE---VIEALQKRLGITLP 308 >gi|150036794|emb|CAM98273.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. mesenteroides] Length = 213 Score = 184 bits (467), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 94/210 (44%), Positives = 138/210 (65%), Gaps = 2/210 (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 HGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 GY A ++ D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GS Sbjct: 121 RGYTSADENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRIGARDDYDKLTFDIWTNGS 180 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKE 240 + D+++L ++IL + LG+F++ E Sbjct: 181 VKPSDALSLGAKILAEHLGLFMDISPVAAE 210 >gi|119662303|emb|CAJ33139.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. indicus] Length = 223 Score = 184 bits (466), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 90/202 (44%), Positives = 131/202 (64%) 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 SITGEDSVALASRILQDQLGMF 231 SI D++ A+R+L + F Sbjct: 181 SIAPNDALNFAARVLVEHFKAF 202 >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 = 184 bits (466), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 121/336 (36%), Positives = 186/336 (55%), Gaps = 19/336 (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---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGP 111 TA+++ V E I GV ED +II NIK I+LK+ G+ +R TI Sbjct: 62 TAMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEIIANIKNIHLKL-GEGEQRKTISFSVS 120 Query: 112 G----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 G V+ A + + +EV N D VI L D + +E ++ G GYV ++ + + Sbjct: 121 GKDTNVLKASHFER-DGVEVFNKDLVIATLSHDVNLDLEFQINYGRGYVSSEQNSKYLEE 179 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 + +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ Sbjct: 180 VNVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREF 239 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 L ++FE+ V + L +E+L LSVRS NCL EN+ +G+LI + Sbjct: 240 LFPLVDFED---NVNTSFEKSKSESSNLLDMSIEKLNLSVRSLNCLAKENVRTLGELISK 296 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ L+LGM+ D Sbjct: 297 NAEELSKARNFGKKSLEEIIEKLGSYRLYLGMSKED 332 >gi|151416838|emb|CAO78490.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gelidum] Length = 220 Score = 184 bits (466), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 94/213 (44%), Positives = 138/213 (64%), Gaps = 2/213 (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 SKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GY A ++ D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T Sbjct: 121 FKGRGYSSADENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +GSI D+++L S+IL + L +F++ E Sbjct: 181 NGSIKPSDALSLGSKILAEHLNLFMDISPVAAE 213 >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 = 184 bits (466), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 116/312 (37%), Positives = 172/312 (55%), Gaps = 25/312 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ T+GN +RR+LMSS+ G A+T+V I+ VLHE S+I GV ED+ IILN+ Sbjct: 19 FVLEPLTRGYGVTIGNPIRRILMSSIPGTAVTSVYIEDVLHEFSTIPGVKEDVIRIILNL 78 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + +K K +T+ +G GVV A + +D E++NPD I L D + ME+ V Sbjct: 79 KELVVKFHAPGPKTLTLRAQGEGVVKASAFEVPSDAEIVNPDLTIATLAEDGKLVMEVRV 138 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYVPA H T+ D I I +DA++SP+++V+Y VE+ R GQ D D+L + I TDG Sbjct: 139 EEGEGYVPADKHATK-DRINSIPVDAVFSPVRRVAYHVENTRVGQQTDLDRLILRIWTDG 197 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS----------LPFNPAL--- 256 S+ ++++ A IL+D+L +F N E E +V + LP P L Sbjct: 198 SVGPQEALDRAVEILRDELTVFGNVETVSAAAPELPSVYTPAAPIVSGYDLPRQPELSIN 257 Query: 257 -----------LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +E L L+ R + L+ E I + L ++ D+ ++ G +SL E Sbjct: 258 PQPYPADLDTPRVTLEGLGLTTRVLHSLKEEGIDSVDALCALSDRDLKKVPGIGERSLDE 317 Query: 306 IKGVLGTMGLFL 317 IK L GL L Sbjct: 318 IKQQLAQFGLAL 329 >gi|150036758|emb|CAM98029.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis KCTC 3528] Length = 228 Score = 184 bits (466), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 94/213 (44%), Positives = 138/213 (64%), Gaps = 2/213 (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 DGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +GSI D+++L ++IL + L +F++ E Sbjct: 181 NGSIKPSDALSLGAKILAEHLNLFMDISPVAAE 213 >gi|154424803|emb|CAL18504.1| RNA polymerase alpha subunit [Streptococcus hyovaginalis] Length = 212 Score = 184 bits (466), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 89/205 (43%), Positives = 141/205 (68%) 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 DSVALASRILQDQLGMFINFEEPKK 239 D++ L++R+L + L +F + E K Sbjct: 181 DALGLSARVLIEHLNLFTDLTEVAK 205 >gi|150036790|emb|CAM98272.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 223 Score = 183 bits (465), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 94/213 (44%), Positives = 139/213 (65%), Gaps = 2/213 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+ Sbjct: 2 VVIEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNL 61 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L + D + + I +GP VTA D+Q D+EVLNPD I + + M +T Sbjct: 62 KKVVLAIDSDDERSLEIDVQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTA 121 Query: 150 SKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GY A ++ D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T Sbjct: 122 VKGRGYTSADENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGARDDYDKLTFDIWT 181 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +GSI D+++L ++IL + L +F++ E Sbjct: 182 NGSIKPSDALSLGAKILAEHLNLFMDISPVAAE 214 >gi|154424867|emb|CAL18536.1| RNA polymerase alpha subunit [Streptococcus uberis] Length = 210 Score = 183 bits (465), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 90/201 (44%), Positives = 139/201 (69%) 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 LASRILQDQLGMFINFEEPKK 239 L++R+L + L +F + E K Sbjct: 181 LSARVLIEHLNLFTDLTEVAK 201 >gi|119662323|emb|CAJ33149.1| RNA polymerase alpha subunit [Lactobacillus kimchii] Length = 213 Score = 183 bits (465), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 86/201 (42%), Positives = 138/201 (68%) 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 LASRILQDQLGMFINFEEPKK 239 L+++IL + L F+N E K Sbjct: 181 LSAKILTEHLTSFVNLTEEAK 201 >gi|154424871|emb|CAL18538.1| RNA polymerase alpha subunit [Streptococcus vestibularis] Length = 211 Score = 183 bits (465), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 88/197 (44%), Positives = 138/197 (70%) 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 ILQDQLGMFINFEEPKK 239 +L + L +F + + K Sbjct: 181 VLIEHLNLFTDLTDVAK 197 >gi|119662393|emb|CAJ33186.1| RNA polymerase alpha subunit [Lactobacillus plantarum] Length = 204 Score = 183 bits (465), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 94/192 (48%), Positives = 136/192 (70%), Gaps = 2/192 (1%) 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 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK--HHRTENDP 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 LGMFINFEEPKK 239 L +F+N + K Sbjct: 181 LSIFVNLTDEAK 192 >gi|119662347|emb|CAJ33162.1| RNA polymerase alpha subunit [Lactobacillus reuteri] Length = 203 Score = 183 bits (465), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 92/200 (46%), Positives = 142/200 (71%), Gaps = 2/200 (1%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRRVL++SL GAAIT++QIDGVLHE S+++GV ED+T IILN+K ++LK+ + K + Sbjct: 1 NSLRRVLIASLPGAAITSMQIDGVLHEFSTVEGVTEDVTQIILNLKKVSLKLDSEDQKNL 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 + +GP VTA DIQ N++ +LNPD I + A + ++LT KG GY+ A ++ Sbjct: 61 ELDVKGPAEVTASDIQGDNEVTILNPDLHIATVADGAELHIKLTADKGRGYLSANDNKAR 120 Query: 165 ND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 D IG++ ID++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T ++V+L ++ Sbjct: 121 MDDLAIGVLPIDSIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLTPTEAVSLGAK 180 Query: 223 ILQDQLGMFINFEEPKKEVK 242 IL + L MF++ E + + Sbjct: 181 ILTEHLAMFVDLTETAQNAQ 200 >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 = 183 bits (465), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 121/335 (36%), Positives = 185/335 (55%), Gaps = 19/335 (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---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG 112 A++I V E I GV ED ++I NIK I+LK+ G+ +R TI G Sbjct: 62 AMRIQSNNKDSSSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKL-GEGEQRKTISFSVSG 120 Query: 113 ----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 V+ A + + +EV N D VI L D + +E ++ G GYV ++ + + + Sbjct: 121 KDTKVLKASHFER-DGVEVFNRDLVIATLSQDVNLDLEFQINYGRGYVSSEQNSKYLEEV 179 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L Sbjct: 180 NVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIIREFL 239 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 ++FE+ V + L +E+L+LSVRS NCL EN+ +G+LI + Sbjct: 240 YPLVDFED---NVNTSFEKSKSESSNLLDMSIEKLDLSVRSLNCLAKENVRTLGELISKN 296 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI L + LFLGM+ D Sbjct: 297 AEELSKARNFGKKSLEEIIEKLSSYQLFLGMSKED 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 = 183 bits (465), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 121/335 (36%), Positives = 185/335 (55%), Gaps = 19/335 (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---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG 112 A++I V E I GV ED ++I NIK I+LK+ G+ +R TI G Sbjct: 62 AMRIQSNNKDSSSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKL-GEGEQRKTISFSVSG 120 Query: 113 ----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 V+ A + + +EV N D VI L D + +E ++ G GYV ++ + + + Sbjct: 121 KDTKVLKASHFER-DGVEVFNRDLVIATLSQDVNLDLEFQINYGRGYVSSEQNSKYLEEV 179 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L Sbjct: 180 NVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIIREFL 239 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 ++FE+ V + L +E+L+LSVRS NCL EN+ +G+LI + Sbjct: 240 FPLVDFED---NVNTSFEKSKSESSNLLDMSIEKLDLSVRSLNCLAKENVRTLGELISKN 296 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI L + LFLGM+ D Sbjct: 297 AEELSKARNFGKKSLEEIIEKLSSYQLFLGMSKED 331 >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 = 183 bits (465), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 109/293 (37%), Positives = 168/293 (57%), Gaps = 7/293 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG T+GNALRRVL+++L G A+TA++I GV HE ++I GV ED+ +I+LN+ Sbjct: 23 FVLEPLERGQGTTVGNALRRVLLANLEGTAVTAIRIGGVNHEFATIPGVREDVLEIMLNM 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK D + + G VTAG +++EV+NP I L A + ME + Sbjct: 83 KEIVLKSYTDQPQIGRLVATGAAHVTAGQFDLPSEVEVINPTQPIATLTEGAKLEMEFRI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYVP + E + + IDA++ P+ KV+Y+VES R + D+L + I T+G Sbjct: 143 EKGVGYVPVERSSDEPTALDFLQIDAVFMPVTKVNYSVESIRGEEGEAKDRLMLEIWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 S +++++ A+ IL D + + + V E + + NP +EEL+LSVR+ Sbjct: 203 SFNPKEALSRAADILVDLFNPLKDLNQLETAVPEYPDEE----NPQSQIPIEELQLSVRA 258 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 NCL+ I + DL+ ++ D+L + NFG+KS E V+ + LG+ LP Sbjct: 259 YNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEE---VIEALQKRLGITLP 308 >gi|150036764|emb|CAM98032.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis] Length = 227 Score = 183 bits (465), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 94/213 (44%), Positives = 138/213 (64%), Gaps = 2/213 (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 DGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +GSI D+++L ++IL + L +F++ E Sbjct: 181 NGSIKPSDALSLGAKILAEHLNLFMDISPVAAE 213 >gi|317016851|gb|ADU85966.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 238 Score = 183 bits (465), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 94/213 (44%), Positives = 138/213 (64%), Gaps = 2/213 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+ Sbjct: 7 FVIEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNL 66 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L + D + + I +GP VTA D+Q D+EVLNPD I + + M +T Sbjct: 67 KKVVLAIDSDDERSLEIDVQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTA 126 Query: 150 SKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GY A ++ D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T Sbjct: 127 VKGRGYTSADENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGARDDYDKLTFDIWT 186 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +GSI D+++L ++IL + L +F++ E Sbjct: 187 NGSIKPSDALSLGAKILAEHLNLFMDISPVAAE 219 >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 = 183 bits (465), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 106/292 (36%), Positives = 173/292 (59%), Gaps = 7/292 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P+ +G AH LGN++RR L+SSL GA+I V IDGVLHE S+++ V ED+ +I+ N+K + Sbjct: 31 PVEKGMAHILGNSIRRFLLSSLSGASIIKVNIDGVLHEYSTLEDVKEDVVEIVSNLKKVA 90 Query: 94 LKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K+ + K + + GVVTAGD +T IE++N D I L + + TVS G Sbjct: 91 IKLDKNVSKVELELSVTKSGVVTAGDFKTTQGIEIINKDQPIATLTNERKFSLTATVSVG 150 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 TE + +G I +D+ ++PIK+V++ + + L+ + + T+G+I Sbjct: 151 RNVGILSALPTELEKVGDIAVDSDFNPIKRVAFEIFDNGTNETLE-----VFVKTNGTIE 205 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 +V A +Q+ +F++ P D + S +P LLK +++LEL+VRS+NC Sbjct: 206 PLVAVTKALEYFCEQISVFVSLRVPSNGKTGDALLDS-NIDPILLKPIDDLELTVRSSNC 264 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 LR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L L LG+ + ++ Sbjct: 265 LRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQILIDNNLSLGVQIDNF 316 >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 = 183 bits (465), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 117/317 (36%), Positives = 187/317 (58%), Gaps = 12/317 (3%) Query: 6 WQELIKPNNIEYIVLGQ-EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 ++ ++P E+I+L + +++N PL RGF TLGNA+RR L+++ GA++ A++ Sbjct: 1 MKQFVRP---EFILLKEGQDKNYGKFSVSPLERGFGITLGNAIRRTLLAATPGASVYAIK 57 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKM-----SGDSHKRVTIFKRGPGVVTAGDI 119 I G HE +SI G+ E++T IILNIK + L++ D ++ I G V AGD+ Sbjct: 58 IAGATHEFTSIPGIIENVTKIILNIKQLVLRIDTSIYGDDEVVQLKIRSDIQGPVYAGDL 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYS 178 + +EVLN D +I + ++ + L GY K ++ E N G+ITID+ YS Sbjct: 118 ELPAGVEVLNQDLLIATISEGGILDLVLYAKNSRGYKTFKDNKNEKNIEPGMITIDSNYS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI KV+Y+V+SA+ G+ +D +KL + + TDGSIT D++++AS+IL L FI+ + Sbjct: 178 PIIKVAYSVDSAKIGRAIDLEKLELEVTTDGSITAIDAISIASKILVAHLEFFIDLNR-E 236 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 V E I V + L + VEEL+ + RS NCL+ I + +L+ + E ++ + N Sbjct: 237 ISVLEVIGVNQTD-DKELDRTVEELDFTQRSLNCLKRAGINTLRELVTKNEDEIGSIRNL 295 Query: 299 GRKSLVEIKGVLGTMGL 315 GRKSL EIK + ++GL Sbjct: 296 GRKSLKEIKDKVASLGL 312 >gi|119662371|emb|CAJ33174.1| RNA polymerase alpha subunit [Lactobacillus amylolyticus DSM 11664] Length = 208 Score = 183 bits (464), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 90/189 (47%), Positives = 129/189 (68%) 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 ILQDQLGMF 231 IL + +F Sbjct: 181 ILVEHFKVF 189 >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 = 183 bits (464), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 111/304 (36%), Positives = 178/304 (58%), Gaps = 18/304 (5%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL G+ T+GN+LRRVL+SSL G AI++V+I+GV +E S+IKGV ED+T+IILN+K I Sbjct: 27 EPLYPGWGLTIGNSLRRVLLSSLEGYAISSVKIEGVNNEYSTIKGVIEDMTEIILNLKKI 86 Query: 93 NLKMSGDSHKRVT-----IFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRME 146 K + + I +TAGD+ + +N E++NPD +I N + + + Sbjct: 87 RFKKKIEDEDFESEEFHIIINNNKKEITAGDLGEFLNLFEIINPDLIILNKEKLISLNIT 146 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 L + +G GY+P++ ++ + IG I ID +++PIKKV Y +++ + Y+ + + I Sbjct: 147 LVIKRGIGYLPSEKNKDMPNMIGTIPIDTIFTPIKKVKYKIDNCSINKNPFYESIILKIK 206 Query: 207 TDGSITGEDSVALASRILQDQLGMFIN------FEEPKKEVKEDINVKSLPFNPALLKKV 260 TDGSI ++ AS +L N +++PKK K D N+ + LLK Sbjct: 207 TDGSINPRKALTRASNLLIRHFQCLSNEKILLEYKKPKKRNKYDKNILKM---RNLLKSS 263 Query: 261 EELE---LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 E E LSVR+ NCL+ I GDL++ ++D+L++ NFGRKSL E+ + + ++ Sbjct: 264 LEEEIDYLSVRTLNCLKSAKIFTWGDLVKSNKSDLLKLKNFGRKSLSELDKRMKKLNIYS 323 Query: 318 GMNL 321 GM++ Sbjct: 324 GMDI 327 >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 = 183 bits (464), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 106/292 (36%), Positives = 172/292 (58%), Gaps = 7/292 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P+ +G AH LGN++RRVL+SSL GA+I V I VLHE S+++ V ED+ +I+ N+K + Sbjct: 31 PVEKGMAHILGNSIRRVLLSSLSGASIIKVNISNVLHEYSTLEDVKEDVVEIVSNLKKVA 90 Query: 94 LKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K+ +G + + GVV+AGD +T +E++N D I L + TVS G Sbjct: 91 IKLDTGIDRLDLELSVNKSGVVSAGDFKTTQGVEIINKDQPIATLTNQRAFSLTATVSVG 150 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 TE + +G I +DA ++PIK+V++ V D + L + + T+G+I Sbjct: 151 RNVGILSAIPTELERVGDIAVDADFNPIKRVAFEVFDNG-----DSETLEVFVKTNGTIE 205 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 +V A +Q+ +F++ P D+ + S +P LLK +++LEL+VRS+NC Sbjct: 206 PLAAVTKALEYFCEQISVFVSLRVPSNGKTGDVLIDS-NIDPILLKPIDDLELTVRSSNC 264 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 LR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L L LG+ + ++ Sbjct: 265 LRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQILIDNNLSLGVQIDNF 316 >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 = 183 bits (464), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 115/302 (38%), Positives = 169/302 (55%), Gaps = 26/302 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ +IILN+ Sbjct: 23 FVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDVVEIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKR--GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K + ++ T+ R GP V AGD D+E++NPD I L+ + ME+ Sbjct: 83 KELVVRFLDPKMASTTLILRAEGPKEVRAGDFTPSADVEIMNPDLHIATLEEGGKLYMEV 142 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 V +G GYVPA+ H + D I I +DA++SP+++V++ VE R GQ D DKL++ I T Sbjct: 143 RVDRGVGYVPAERHGIK-DRINAIPVDAIFSPVRRVAFQVEDTRLGQRTDLDKLTLRIWT 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFE------------EPKKEVKEDINVKSLPFNPA 255 DGS+T +++ A IL++ L F N E E ++ +ED++ LP Sbjct: 202 DGSVTPLEALNQAVAILKEHLNYFANPEASLLPTPEVSKGEKRESAEEDLD---LP---- 254 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 +EEL LS R + L+ E I + L+ D+ + G +SL EI+ L G Sbjct: 255 ----LEELGLSTRVLHSLKEEGIESVRALLALNLKDLRNIPGIGERSLEEIRQALAKKGF 310 Query: 316 FL 317 L Sbjct: 311 TL 312 >gi|150036766|emb|CAM98264.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides KCTC 3652] Length = 229 Score = 182 bits (463), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 94/210 (44%), Positives = 137/210 (65%), Gaps = 2/210 (0%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + Sbjct: 2 EPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKV 61 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 L + D + + I +GP VTA D+Q D+EVLNPD I + + M +T KG Sbjct: 62 VLAIDSDDERSLEIDVQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAVKG 121 Query: 153 HGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 GY A ++ D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GS Sbjct: 122 RGYTSADENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGARDDYDKLTFDIWTNGS 181 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKE 240 I D+++L ++IL + L +F++ E Sbjct: 182 IKPSDALSLGAKILAEHLNLFMDISPVAAE 211 >gi|150187125|emb|CAK30176.1| RNA polymerase alpha subunit [Streptococcus intermedius] Length = 202 Score = 182 bits (463), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 89/195 (45%), Positives = 135/195 (69%) 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 QDQLGMFINFEEPKK 239 + L +F N E K Sbjct: 181 TEHLDLFTNLTEMAK 195 >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 = 182 bits (463), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 115/293 (39%), Positives = 167/293 (56%), Gaps = 8/293 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ +IILN+ Sbjct: 23 FVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDVVEIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKR--GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K + ++ T+ R GP V AGD D+E++NPD I L+ + ME+ Sbjct: 83 KELVVRFLDPKMASTTLILRAEGPKEVRAGDFTPSADVEIMNPDLHIATLEEGGKLYMEV 142 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 V +G GYVPA+ H + D I I +DA++SP+++V++ VE R GQ D DKL++ I T Sbjct: 143 RVDRGVGYVPAERHGIK-DRINAIPVDAIFSPVRRVAFQVEDTRLGQRTDLDKLTLRIWT 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEE---PKKEVKEDINVKSLPFNPALLKKVEELE 264 DGS+T +++ A IL++ L F N E P EV + +S + L +EEL Sbjct: 202 DGSVTPLEALNQAVAILKEHLNYFANPEASLLPTPEVSKGEKRESAEEDLDL--PLEELG 259 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS R + L+ E I + L+ D+ + G +SL EI+ L G L Sbjct: 260 LSTRVLHSLKEEGIESVRALLALNLKDLRNIPGIGERSLEEIRQALAKKGFTL 312 >gi|154424859|emb|CAL18532.1| RNA polymerase alpha subunit [Streptococcus sobrinus] Length = 203 Score = 182 bits (463), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 89/196 (45%), Positives = 137/196 (69%) 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 LQDQLGMFINFEEPKK 239 L + L +F + E K Sbjct: 181 LIEHLNLFTDLTEIAK 196 >gi|119668279|emb|CAK95450.1| RNA polymerase alpha subunit [Lactobacillus amylolyticus] Length = 213 Score = 182 bits (463), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 90/189 (47%), Positives = 129/189 (68%) 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 ILQDQLGMF 231 IL + +F Sbjct: 181 ILVEHFKVF 189 >gi|150036796|emb|CAM98274.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. mesenteroides] Length = 214 Score = 182 bits (463), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 94/209 (44%), Positives = 137/209 (65%), Gaps = 2/209 (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 GYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A ++ D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI Sbjct: 121 GYTSADENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRIGARDDYDKLTFDIWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKE 240 D+++L ++IL + LG+F++ E Sbjct: 181 KPSDALSLGAKILAEHLGLFMDISPVAAE 209 >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 = 182 bits (463), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 106/292 (36%), Positives = 172/292 (58%), Gaps = 7/292 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P+ +G AH LGN++RRVL+SSL GA+I V I VLHE S+++ V ED+ +I+ N+K + Sbjct: 31 PVEKGMAHILGNSIRRVLLSSLSGASIIKVNIANVLHEYSTLEDVKEDVVEIVSNLKKVA 90 Query: 94 LKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K+ +G + + GVV+AGD +T +E++N D I L + TVS G Sbjct: 91 IKLDTGIDRLDLELSVNKSGVVSAGDFKTTQGVEIINKDQPIATLTNQRAFSLTATVSVG 150 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 TE + +G I +DA ++PIK+V++ V D + L + + T+G+I Sbjct: 151 RNVGILSAIPTELERVGDIAVDADFNPIKRVAFEVFDNG-----DSETLEVFVKTNGTIE 205 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 +V A +Q+ +F++ P D+ + S +P LLK +++LEL+VRS+NC Sbjct: 206 PLAAVTKALEYFCEQISVFVSLRVPSNGKTGDVLIDS-NIDPILLKPIDDLELTVRSSNC 264 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 LR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L L LG+ + ++ Sbjct: 265 LRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQILIDNNLSLGVQIDNF 316 >gi|317447066|emb|CBX24362.1| DNA-directed RNA polymerase subunit alpha [Thiomonas perometabolis] Length = 201 Score = 182 bits (462), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 94/198 (47%), Positives = 133/198 (67%), Gaps = 3/198 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EP RG+ HTLGNALRRV++SSL G A T V I+GVLHE S + G+ ED+ ++LN+ Sbjct: 3 VVLEPFERGYGHTLGNALRRVMLSSLVGYAPTEVSINGVLHEYSVVDGLQEDVIGVLLNL 62 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ +++ K G GVVTA DIQT +D+E++NPDHVI +L + M++ V Sbjct: 63 KGVVLKLHNRDEVTLSLRKEGEGVVTAADIQTPHDVEIINPDHVIAHLSQGGKLDMQIKV 122 Query: 150 SKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 KG GYVP + IG I +DA +SP+++VSY VESAR Q D DKL M I+ Sbjct: 123 EKGRGYVPGTLRNFGEEGGKSIGHIVLDASFSPVRRVSYAVESARVEQRTDLDKLVMEIE 182 Query: 207 TDGSITGEDSVALASRIL 224 T+G I+ E+++ ++RIL Sbjct: 183 TNGVISAEEAIRSSARIL 200 >gi|150187066|emb|CAK30163.1| RNA polymerase alpha subunit [Streptococcus dysgalactiae subsp. equisimilis] Length = 208 Score = 182 bits (462), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 90/198 (45%), Positives = 139/198 (70%) 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 RILQDQLGMFINFEEPKK 239 R+L + L +F + + K Sbjct: 181 RVLIEHLNLFTDLTDVAK 198 >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 = 182 bits (462), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 106/292 (36%), Positives = 172/292 (58%), Gaps = 7/292 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P+ +G AH LGN++RRVL+SSL GA+I V I VLHE S+++ V ED+ +I+ N+K + Sbjct: 31 PVEKGMAHILGNSIRRVLLSSLSGASIIKVNIANVLHEYSTLEDVKEDVVEIVSNLKKVA 90 Query: 94 LKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K+ +G + + GVV+AGD +T +E++N D I L + TVS G Sbjct: 91 IKLDAGIDRLDLELSVNKSGVVSAGDFKTTQGVEIINKDQPIATLTNQRAFSLTATVSVG 150 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 TE + +G I +DA ++PIK+V++ V D + L + + T+G+I Sbjct: 151 RNVGILSAIPTELERVGDIAVDADFNPIKRVAFEVFDNG-----DSETLEVFVKTNGTIE 205 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 +V A +Q+ +F++ P D+ + S +P LLK +++LEL+VRS+NC Sbjct: 206 PLAAVTKALEYFCEQISVFVSLRVPSNGKTGDVLIDS-NIDPILLKPIDDLELTVRSSNC 264 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 LR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L L LG+ + ++ Sbjct: 265 LRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQILIDNNLSLGVQIDNF 316 >gi|154424847|emb|CAL18526.1| RNA polymerase alpha subunit [Streptococcus pyogenes] Length = 202 Score = 182 bits (462), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 90/197 (45%), Positives = 138/197 (70%) 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 ILQDQLGMFINFEEPKK 239 +L + L +F + E K Sbjct: 181 VLIEHLNLFTDLTEVAK 197 >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 = 182 bits (462), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 112/302 (37%), Positives = 169/302 (55%), Gaps = 16/302 (5%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIKGVHEDLTD 84 P RGF T+GN LRRVL+SS+ G AITA+++ V E I GV ED + Sbjct: 34 PFERGFGITIGNTLRRVLLSSIEGYAITAMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLE 93 Query: 85 IILNIKGINLKMSGDSHKRVTIFK---RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +I NIK I+LK+ K+ F + V+ A + + +EV N D VI L D Sbjct: 94 VIANIKNIHLKLGEGEQKKTISFSVSGKDTNVLKASHFER-DGVEVFNKDLVIATLSRDV 152 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + +E ++ G GYV ++ + + + +I +D+++SPI+KVSY+VE R GQ DYDKL Sbjct: 153 NLDLEFQINYGRGYVSSEQNSKYLEEVNVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKL 212 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 M I T G I+ +D++ A+ I+++ L ++FE+ V + L +E Sbjct: 213 VMEIWTTGVISAKDAIKKAASIVREFLFPLVDFED---NVNTSFEKSKSESSNLLDMSIE 269 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +L LSVRS NCL EN+ +G+LI + ++ + NFG+KSL EI LG+ L+LGM+ Sbjct: 270 KLNLSVRSLNCLAKENVRTLGELISKNAEELSKARNFGKKSLEEIIEKLGSYRLYLGMSK 329 Query: 322 PD 323 D Sbjct: 330 ED 331 >gi|328814011|gb|AEB52121.1| DNA-directed RNA polymerase alpha chain [Lactobacillus rhamnosus] Length = 218 Score = 182 bits (462), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 93/216 (43%), Positives = 143/216 (66%) 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 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLR 274 K + + + L +EEL+LSVRS NCL+ Sbjct: 181 KNAEIMVEKEETHKEKMLEMTIEELDLSVRSYNCLK 216 >gi|150187061|emb|CAK30162.1| RNA polymerase alpha subunit [Streptococcus didelphis] Length = 209 Score = 182 bits (462), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 90/197 (45%), Positives = 138/197 (70%) 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 ILQDQLGMFINFEEPKK 239 +L + L +F + E K Sbjct: 181 VLIEHLNLFTDLTEVAK 197 >gi|150036736|emb|CAM98023.1| DNA-directed RNA polymerase alpha chain [Leuconostoc citreum] Length = 223 Score = 182 bits (462), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 94/209 (44%), Positives = 136/209 (65%), Gaps = 2/209 (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 GYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A ++ D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI Sbjct: 121 GYSSADENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKE 240 D+++L S+IL + L +F++ E Sbjct: 181 KPSDALSLGSKILAEHLNLFMDISPVAAE 209 >gi|150036820|emb|CAM98279.1| DNA-directed RNA polymerase alpha chain [Fructobacillus ficulneus] Length = 238 Score = 182 bits (461), Expect = 8e-44, Method: Compositional matrix adjust. Identities = 100/238 (42%), 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 HGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 GY A+ ++ D 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|620029|gb|AAA74989.1| RNA polymerase alpha-subunit [Chlamydia trachomatis] Length = 380 Score = 182 bits (461), Expect = 8e-44, Method: Compositional matrix adjust. Identities = 120/335 (35%), Positives = 182/335 (54%), Gaps = 25/335 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 +A+PL +G HTLG+ALRR L+ L AI + + GVLHE +++G+ ED+T+++LN+ Sbjct: 37 FVADPLEKGMGHTLGSALRRALLIGLEAPAIVSFSMTGVLHEYMAVEGIIEDVTNMLLNL 96 Query: 90 KGINLKM---------SGDSHKRVTI--------FKRGPGVVTAGDIQTVNDIEVLNPDH 132 KG LK R TI G VT GD+ E +NP+H Sbjct: 97 KGSLLKKYPLQDCEGGRCSQKLRATISVDASDLAAAGGQKEVTLGDLLQEGTFEAVNPEH 156 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 VI + + + L V+ G GY P++ E + I +DA +SP+ V+Y VE R Sbjct: 157 VIFTVTRPMQLEVMLRVAFGRGYSPSERIVLEERGMNEIVLDAAFSPVVLVNYFVEDTRV 216 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 GQ D+D+L + ++TDG + +++VA A++IL +F +E + +E I+V+ Sbjct: 217 GQDTDFDRLVLQVETDGRVAPKEAVAFATQILSKHFSVFEKMDEKRIVFEEAISVEKENK 276 Query: 253 NPALLKKV---EELELSV---RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L K V E+ELSV RSTNCL NI +G+L+ E +L+ NFG+KSL EI Sbjct: 277 DDILHKLVLGINEIELSVRLIRSTNCLSNANIETIGELVIMPEPRLLQFRNFGKKSLCEI 336 Query: 307 KGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 K L M L LGM+L + ++++E K Y +K Sbjct: 337 KNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 371 >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 = 182 bits (461), Expect = 9e-44, Method: Compositional matrix adjust. Identities = 108/293 (36%), Positives = 168/293 (57%), Gaps = 7/293 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG T+GNALRRVL+++L G A+TA++I GV HE ++I GV ED+ +I+LN+ Sbjct: 23 FVLEPLERGQGTTVGNALRRVLLANLEGTAVTAIRIGGVNHEFATIPGVREDVLEIMLNM 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK + + + G VTAG +++EV+NP I L A + ME + Sbjct: 83 KEIVLKSYTEQPQIGRLVATGAAHVTAGQFDLPSEVEVINPTQPIATLTEGAKLEMEFRI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYVP + E + + IDA++ P+ KV+Y+VES R + D+L + I T+G Sbjct: 143 EKGVGYVPVERSSDEPTALDFLQIDAVFMPVTKVNYSVESIRGEEGEAKDRLMLEIWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 S +++++ A+ IL D + + + V E + + NP +EEL+LSVR+ Sbjct: 203 SFNPKEALSRAADILVDLFNPLKDLNQLETAVPEYPDEE----NPQSQIPIEELQLSVRA 258 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 NCL+ I + DL+ ++ D+L + NFG+KS E V+ + LG+ LP Sbjct: 259 YNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEE---VIEALQKRLGITLP 308 >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 = 182 bits (461), Expect = 9e-44, Method: Compositional matrix adjust. Identities = 111/300 (37%), Positives = 169/300 (56%), Gaps = 10/300 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-----DGVLHEISS----IKGVHE 80 A P GF T+GN LRRVL+SS++G A+T V+I DGV H ISS I V E Sbjct: 30 FTASPFETGFGTTVGNCLRRVLLSSIQGYAVTGVRITSFDADGVAHFISSEFEQIPHVRE 89 Query: 81 DLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 D +I+ N K + + G T RG +T D +EVL+ D +I + Sbjct: 90 DTLEILNNFKRLRFLLPQGAESSTFTYEFRGAVSLTGKDFAKKFQLEVLSQDLLIMEMMD 149 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 A V +EL V G GYVPA+ H D +G+I +DA++SP+ +V Y ++S R GQ DYD Sbjct: 150 GAHVEVELHVEFGRGYVPAESHDRYADLVGVIPVDAIFSPVLRVRYDIQSCRVGQRGDYD 209 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 +LS+ + TDG++ ED++A A++I+++ +F+NF+E +++++ L K Sbjct: 210 QLSLEVWTDGTVRPEDAIAEAAKIIKEHFTVFVNFDETALDLEDEPEEDDPAVLELLNTK 269 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 + +++ SVR+ NCL I +G+L + +E + N G+KSL EI+G L L LGM Sbjct: 270 IADVDFSVRARNCLLTMGIKTLGELTRISEQTLANTRNVGKKSLSEIQGKLQEYNLRLGM 329 >gi|161511753|emb|CAP16887.1| DNA-directed RNA polymerase subunit alpha [Pediococcus damnosus] Length = 211 Score = 181 bits (460), Expect = 9e-44, Method: Compositional matrix adjust. Identities = 93/202 (46%), Positives = 136/202 (67%), Gaps = 3/202 (1%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 LGN+ V + + GAA+T++QIDGVLHE SSI+GV ED+T IILNIK ++LK+ D K Sbjct: 2 LGNSCV-VFVVIITGAAVTSIQIDGVLHEFSSIEGVVEDVTQIILNIKKVSLKIESDDEK 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 + I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A ++ Sbjct: 61 SLEIDVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAILTADTGRGYVSADENK 120 Query: 163 TEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 D PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSIT ++ +L+ Sbjct: 121 ARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSITPSEATSLS 180 Query: 221 SRILQDQLGMFINFEEPKKEVK 242 ++IL + L +F+N + K+ + Sbjct: 181 AKILTEHLALFVNLTDEAKDAE 202 >gi|154424753|emb|CAL18479.1| RNA polymerase alpha subunit [Streptococcus agalactiae] Length = 213 Score = 181 bits (460), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 88/197 (44%), Positives = 138/197 (70%) 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 ILQDQLGMFINFEEPKK 239 +L + L +F + E K Sbjct: 181 VLIEHLNLFTDLTEVAK 197 >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 = 181 bits (460), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 88/195 (45%), Positives = 134/195 (68%) 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 QDQLGMFINFEEPKK 239 L +F N E K Sbjct: 181 TQHLDLFTNLTEVAK 195 >gi|328675432|gb|AEB28107.1| DNA-directed RNA polymerase alpha subunit [Francisella cf. novicida 3523] Length = 323 Score = 181 bits (460), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 106/292 (36%), Positives = 171/292 (58%), Gaps = 7/292 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P+ +G AH LGN++RRVL+SSL GA+I V I VLHE S+++ V ED+ +I+ N+K + Sbjct: 31 PVEKGMAHILGNSIRRVLLSSLSGASIIKVNIANVLHEYSTLEDVKEDVVEIVSNLKKVA 90 Query: 94 LKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K+ G + + GVV+AGD +T +E++N D I L + TVS G Sbjct: 91 IKLDKGIDRLDLELSVNKSGVVSAGDFKTTQGVEIINKDQPIATLTNQRAFNLTATVSIG 150 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 TE + +G I +DA ++PIK+V++ V D + L + + T+G+I Sbjct: 151 RNVGILSAIPTELERVGDIAVDADFNPIKRVAFEVFDNG-----DSETLEVFVKTNGTIE 205 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 +V A +Q+ +F++ P D+ + S +P LLK +++LEL+VRS+NC Sbjct: 206 PLAAVTKALEYFCEQISVFVSLRVPSNGKTGDVLIDS-NIDPILLKPIDDLELTVRSSNC 264 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 LR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L L LG+ + ++ Sbjct: 265 LRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQILIDNNLSLGVQIDNF 316 >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 = 181 bits (460), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 107/296 (36%), Positives = 173/296 (58%), Gaps = 9/296 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 IA+P RG+A T+GNALRRVL+SS+ G AITA++IDGV +E ++ G+ ED +I+++ Sbjct: 30 FIAQPFERGYAVTVGNALRRVLLSSIPGYAITAIKIDGVSNEFENVPGMKEDTIVMIMHL 89 Query: 90 KGINLKMSGD-SHKRVTIFKRGPGVVTAGD-IQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K + + + K + + K GP +TAGD + N+ +V NPD+ I + M++ Sbjct: 90 KNVVVSLPDRLETKTIHMKKEGPCTITAGDLVANDNEAQVHNPDYYIATIAEGYTFEMDI 149 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + G+ YVPA+ + + + I IDA+YSPI V Y V+ R GQ +DY KL++ I+T Sbjct: 150 QIEGGYSYVPAEMNIELVEDVNAIAIDAIYSPIVSVKYNVDPIRVGQRIDYGKLTLEIET 209 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL----LKKVEEL 263 G+I E +++ A++IL+D L F++ EE +D ++ P + L K +EE+ Sbjct: 210 KGNIAPEKALSQAAKILRDNLKHFMDPEEAN---GDDEKIEETPKDSVLDSLKGKHIEEV 266 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 E SVR+ N L ++ + + ++E+D+LR+ + EIK L G LGM Sbjct: 267 EFSVRTANFLMASDLKTLDKVAVKSESDLLRLIGANEMIIEEIKEKLAEYGAHLGM 322 >gi|86438810|emb|CAJ43370.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 208 Score = 181 bits (460), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 90/193 (46%), Positives = 129/193 (66%) 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 LASRILQDQLGMF 231 A++I + +F Sbjct: 181 FAAKISVEHFKVF 193 >gi|150036822|emb|CAM98042.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax KCTC 3537] Length = 204 Score = 181 bits (460), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 92/203 (45%), Positives = 135/203 (66%), Gaps = 2/203 (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 GYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A ++ D PIG++ +D++Y+PI++V+Y VE+ R GQ DYDKL+ I T+GSI Sbjct: 121 GYSSADENKQLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGQRDDYDKLTFDIWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINF 234 D+++L ++IL + L +F + Sbjct: 181 KPSDALSLGAKILSEHLNLFTDI 203 >gi|297180267|gb|ADI16486.1| DNA-directed RNA polymerase, alpha subunit/40 kd subunit [uncultured bacterium HF4000_05M23] Length = 328 Score = 181 bits (460), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 112/307 (36%), Positives = 175/307 (57%), Gaps = 12/307 (3%) Query: 7 QELIKPNNIEY----IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 QEL+ P E I + + EE +AEPL RG TLGNALRR L++SL G AIT Sbjct: 6 QELLSPFTPEIPDLSIAIQENEEAYGRFVAEPLERGRGVTLGNALRRTLLNSLPGTAITW 65 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 V+IDG LHE S+I + E++ + +L +KGI L+ D R+ I G G V AGDI Sbjct: 66 VRIDGALHEYSTIPHMPEEVVEFLLKVKGIRLRSLADRPGRLRIEVDGEGEVRAGDIMAT 125 Query: 123 NDIEVLNPDHVICNLDVDAVVRM--ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 D E++NP+H + LD A+ R+ E V +G GY PA E PIG++ +DA+++PI Sbjct: 126 ADFEIVNPEHHLATLD-SAMARLSVEFNVEQGVGYQPAIQE--EGLPIGVLLVDAIFTPI 182 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +K +++VE+ R G D ++L + + TD +I +++ AS++L D F EP Sbjct: 183 RKSNFSVEATRAGHRSDLERLIVEVWTDRTIMPLEAMKSASKLLMDCFFPFTQVGEPVGG 242 Query: 241 VKEDINVKSLPFNPALLKK-VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + + + P + VE L LS R+ NCL+ +G+++ +++++++ FG Sbjct: 243 EDDKPGIDGV--TPEVFNTLVETLALSARTHNCLKRAGFNRVGEILLLPKSELMKIRGFG 300 Query: 300 RKSLVEI 306 +KSL E+ Sbjct: 301 QKSLDEL 307 >gi|119662301|emb|CAJ33138.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. delbrueckii] Length = 215 Score = 181 bits (460), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 90/199 (45%), Positives = 132/199 (66%) 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 GEDSVALASRILQDQLGMF 231 D++ A+R+L + +F Sbjct: 181 PNDALNFAARVLVEHFKVF 199 >gi|119662329|emb|CAJ33152.1| RNA polymerase alpha subunit [Lactobacillus mindensis] Length = 197 Score = 181 bits (459), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 85/195 (43%), Positives = 136/195 (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 RILQDQLGMFINFEE 236 +IL + L F+N E Sbjct: 181 KILTEHLNSFVNLTE 195 >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 = 181 bits (459), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 116/297 (39%), Positives = 171/297 (57%), Gaps = 21/297 (7%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQI--DGVLHEISSIKGVHEDLTDIILNIKG 91 PL RG+A T+GNALRRVL+SS+ AI V+ HE I+GV ED+ DIILN+K Sbjct: 33 PLERGYAITIGNALRRVLLSSIPSLAIVGVRFIKPEKYHEYDYIEGVKEDILDIILNLKK 92 Query: 92 INLKMSGDSHKRVT--IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 + +++ R+ + K+GPG + AGDI+T IEV NPD I L+ A + E+ Sbjct: 93 VQFRVNVTVKDRIKMEVEKKGPGELVAGDIKTPAGIEVANPDLHIATLNSKADLFFEIYA 152 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G G+VP R E +G I ID ++SP+ KV++ E+ R G+ DYDKL + + T Sbjct: 153 EVGKGFVPV-SERDERPEVGWIPIDGVFSPVMKVNFLTENVRVGKRTDYDKLILEVWTKK 211 Query: 210 SITGEDSVALASRILQDQLGM-------------FINFEEPKKEV---KEDINVKSLPFN 253 SI E+++ A+ IL + + +I EE ++E E + +S+ Sbjct: 212 SIRPEEALRKAADILINHFRIVMEGLPEMKISEEYIITEEDEEEALTAVEGEDQESVENL 271 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 KK++ELELSVRS NCL+ I +GDL+ +TE ++L++ NFG+KSL E+K L Sbjct: 272 DVYSKKIDELELSVRSLNCLKRAKIETIGDLMSKTEDELLKIKNFGQKSLDEVKKKL 328 >gi|119672807|emb|CAK95484.1| RNA polymerase alpha subunit [Lactobacillus fermentum] Length = 196 Score = 181 bits (459), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 92/196 (46%), Positives = 139/196 (70%), 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 SKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GY A ++T 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|167957552|ref|ZP_02544626.1| DNA-directed RNA polymerase subunit alpha [candidate division TM7 single-cell isolate TM7c] Length = 294 Score = 181 bits (459), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 109/280 (38%), Positives = 164/280 (58%), Gaps = 21/280 (7%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL G+ +TLGN+LRRVLMSS+ GAA+ + +I+G HE +++ G+ ED+ DI LN+K + Sbjct: 26 EPLRGGYGNTLGNSLRRVLMSSIHGAAVISFKIEGATHEFTTVPGIKEDVVDISLNLKSV 85 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +KM D + + K G G VTAGDIQ+ D+E++NP+ VIC + D A ++L + Sbjct: 86 KIKMHTDDPIELRLEKHGAGQVTAGDIQSHADVEIINPEQVICTVDDPSAKAVIDLVIDS 145 Query: 152 GHGYVP---AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GY+ + R +D I L DA++SP+ +V Y VES R GQ + +KL + IDTD Sbjct: 146 GRGYLSIEDSSETRLHSDHIAL---DAVFSPVIRVRYKVESTRVGQETNLEKLIVVIDTD 202 Query: 209 GSITGEDSVALASRILQDQL----GMFINFEEPK--KEVKEDINVKSLPFNPALLKKVEE 262 GSIT D+ A+ IL +Q G + P +E +E+ N L +E+ Sbjct: 203 GSITPRDAFEEAAAILVNQYTALAGSTVVESAPALGQEREEESN--------ELNTSIED 254 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 L+L+ R+ N L +I + DL+ TE D+ + FG K+ Sbjct: 255 LDLTARTANALINNDIRTVQDLVTLTEQDLRELKGFGSKA 294 >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 = 181 bits (459), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 118/331 (35%), Positives = 185/331 (55%), Gaps = 12/331 (3%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M +KN + KP +++ V +E+ IA P GF T+GN LRRVL+SS++G A Sbjct: 1 MARKNLLKGFKKPKGVDF-VAEVSDESHGKFIASPFETGFGTTIGNCLRRVLLSSIQGYA 59 Query: 60 ITAVQI-----DGVLHEISS----IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK-R 109 IT+V+I DGV H ISS I V ED +I+ N+K I L + + + F+ + 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 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 + N G+KSL EI+G L L LGM Sbjct: 300 QTLASTRNVGKKSLSEIQGKLQEYNLRLGMT 330 >gi|150036762|emb|CAM98031.1| DNA-directed RNA polymerase alpha chain [Leuconostoc carnosum] Length = 221 Score = 181 bits (459), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 93/203 (45%), Positives = 135/203 (66%), Gaps = 2/203 (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 TGEDSVALASRILQDQLGMFINF 234 D+++L S+IL + L +F++ Sbjct: 181 KPSDALSLGSKILAEHLNLFMDI 203 >gi|86438806|emb|CAJ43368.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 192 Score = 181 bits (458), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 90/190 (47%), Positives = 128/190 (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 LASRILQDQL 228 A++IL + Sbjct: 181 FATKILVEHF 190 >gi|317016853|gb|ADU85967.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 228 Score = 181 bits (458), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 93/209 (44%), Positives = 136/209 (65%), Gaps = 2/209 (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 GYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A ++ D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI Sbjct: 121 GYTSADENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGARDDYDKLTFDIWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKE 240 D+++L ++IL + L +F++ E Sbjct: 181 KPSDALSLGAKILAEHLNLFMDISPVAAE 209 >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 = 181 bits (458), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 106/295 (35%), Positives = 168/295 (56%), Gaps = 12/295 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG T+GNALRRV++S+L G A+T+V+I GV HE ++I+GV ED+ +I+LN+ Sbjct: 30 FILEPLDRGQGTTVGNALRRVMLSNLEGTAVTSVRIAGVNHEFATIEGVREDVLEILLNM 89 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK + + GP VTA ++++V++ I L + + ME + Sbjct: 90 KEVVLKSHSSQPQIGRLRVEGPATVTADRFDVPSEVDVIDRSQYIATLSPGSTLEMEFRI 149 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY R + + + IDA++ P++KV+Y+VE AR G + D+L M I T+G Sbjct: 150 ERGVGYRAVDRSRDDGGALDFLAIDAIFMPVRKVNYSVEDARVGGSTEKDRLIMEIWTNG 209 Query: 210 SITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 S+T +++++ A+ IL D I E + +V D +P +EEL+LSV Sbjct: 210 SLTPQEALSQAASILVDLFSPLKDITLESLRSDVGSDA-------DPTSQIPIEELQLSV 262 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ NCL+ I + DL+ T+ D+L + NFG+KS E V+ + LG+ LP Sbjct: 263 RAYNCLKRAQINSVADLLDYTQEDLLEIKNFGQKSAEE---VIEALQKRLGITLP 314 >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 = 181 bits (458), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 118/332 (35%), Positives = 177/332 (53%), Gaps = 16/332 (4%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRG 57 M +KN + KP +E+ Q+E + A P GF T+GN LRR+L+SS++G Sbjct: 1 MARKNLLKGFKKPKGLEF---AQQESTESYGKFTASPFETGFGTTIGNCLRRILLSSIQG 57 Query: 58 AAITAVQI-----DGVLHEISS----IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK 108 AI+AV I DGV H ISS I V ED +I+ +K I L++S +S + F+ Sbjct: 58 YAISAVLITSHDADGVPHTISSEFENIPNVSEDTLEILNKLKQIRLRLSDESEQGDFHFE 117 Query: 109 -RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 +GP +T+ D +E+L + L A V ++ V G GYVPA+ + + Sbjct: 118 FKGPASITSKDFAVEGQLEILGEPFYVMELMKGANVSFDVQVDFGRGYVPAEVNEKYIEI 177 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 +G I +DA+Y P+ KVSY +E R GQ DYDKL + I TD ++ ED + A++I +D Sbjct: 178 VGTIPMDAIYGPVLKVSYAIEPCRVGQRNDYDKLILEIWTDSTVRPEDVLGEAAKIAKDH 237 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 +FINF E +++ + + L + L+ SVR+ NCL I +G+L Q+ Sbjct: 238 FSIFINFNENDYLGEDEDDNEEAVIKQLLATSINTLDFSVRAKNCLDSAGIKTLGELAQK 297 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +E ++ M N GR +L EI L L LGM Sbjct: 298 SEDEIESMRNVGRMTLNEIHAKLAEYNLRLGM 329 >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 = 181 bits (458), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 106/292 (36%), Positives = 171/292 (58%), Gaps = 7/292 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P+ +G AH LGN++RRVL+SSL GA+I V I VLHE S+++ V ED+ +I+ N+K + Sbjct: 31 PVEKGMAHILGNSIRRVLLSSLSGASIIKVNIANVLHEYSTLEDVKEDVVEIVSNLKKVA 90 Query: 94 LKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K+ +G + + GVV AGD +T +E++N D I L + TVS G Sbjct: 91 IKLDTGIDRLDLELSVNKSGVVRAGDFKTTQGVEIINKDQPIATLTNQRAFSLTATVSVG 150 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 TE + +G I +DA ++PIK+V++ V D + L + + T+G+I Sbjct: 151 RNVGILSAIPTELERVGDIAVDADFNPIKRVAFEVFDNG-----DSETLEVFVKTNGTIG 205 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 +V A +Q+ +F++ P D+ + S +P LLK +++LEL+VRS+NC Sbjct: 206 PLAAVTKALEYFCEQISVFVSLRVPSNGKTGDVLIDS-NIDPILLKPIDDLELTVRSSNC 264 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 LR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L L LG+ + ++ Sbjct: 265 LRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQILIDNNLSLGVQIDNF 316 >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 = 181 bits (458), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 115/299 (38%), Positives = 165/299 (55%), Gaps = 16/299 (5%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 A PL RGFA TLGNALRR L+SS GA++ A++I G HE +SI G+ E++T I+LN+K Sbjct: 25 AAPLERGFAVTLGNALRRTLLSSTPGASVFAIKIAGAQHEFTSISGIEENVTRIVLNVKK 84 Query: 92 INLKMSG-----DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 + L++ D + + G VTAG + +EVLN D VI N+ + + Sbjct: 85 LILRIDSAIYNDDETVELKVGTSTIGPVTAGSLVLPAGVEVLNKDLVIANVAEGGNLDLV 144 Query: 147 LTVSKGHGYVPAKHHRTENDPI-GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 L GY K ++ D + G+ITID+ YSPI KV+Y G+ D++KL + + Sbjct: 145 LYAKNSRGYKTFKENKELKDVVPGMITIDSNYSPIIKVAYGSTPINLGKAQDFEKLILEV 204 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK----EDINVKSLPFNPALLKKVE 261 +TDGSI D+V+LAS+IL +F E +EV E + K L K VE Sbjct: 205 ETDGSILASDAVSLASKILISHFDVFTTLAEEVEEVAIMGVETVEEKELD------KPVE 258 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 ELE + RS NCL+ I + +L+ +TE ++ + N GRKSL EIK + + L N Sbjct: 259 ELEFTQRSLNCLKRAGISTLRELVSKTEDEIQDIRNLGRKSLKEIKDKVAALELTFKQN 317 >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 = 181 bits (458), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 116/297 (39%), Positives = 170/297 (57%), Gaps = 28/297 (9%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQI--DGVLHEISSIKGVHEDLTDIILNIKG 91 PL RG+A T+GNALRRVL+SS+ AI V+ HE I+GV ED+ DIILN+K Sbjct: 30 PLERGYAITIGNALRRVLLSSIPSLAIVGVRFIKPEKYHEYDYIEGVKEDILDIILNLKK 89 Query: 92 INLKM--SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 + ++ + ++ + K+GPG + AGDI+T IEV+NPD I L+ A + E+ Sbjct: 90 VQFRINVTVKGTIKMEVEKKGPGELVAGDIKTPAGIEVVNPDLHIATLNSKADLFFEVYA 149 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G G+VP R E +G I ID ++SP+ KV++ E+ R G+ DYDKL + I T Sbjct: 150 EVGKGFVPV-SEREERPDVGWIPIDGVFSPVIKVNFLTENVRVGKRTDYDKLILEIWTKK 208 Query: 210 SITGEDSVALASRILQDQLGM--------------FINFEE-----PKKEVKEDINVKSL 250 SI E+++ A+ IL + + I EE P E +E+ S Sbjct: 209 SIRPEEALRKAADILINHFKIVTEGLPELKISEEYIITSEEEEAEVPASEHEEEHRENSD 268 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 +N +K++ELELSVRS NCL+ I +GDL+ +TE ++L++ NFG+KSL E+K Sbjct: 269 VYN----RKIDELELSVRSLNCLKRAKIETIGDLLSKTEEELLKIKNFGQKSLDEVK 321 >gi|150036814|emb|CAM98040.1| DNA-directed RNA polymerase alpha chain [Leuconostoc kimchii] Length = 226 Score = 180 bits (457), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 92/211 (43%), Positives = 136/211 (64%), Gaps = 2/211 (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 GYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A ++ D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI Sbjct: 121 GYSSADENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVK 242 D+++L S+IL + L +F++ E Sbjct: 181 KPSDALSLGSKILAEHLNLFMDISPVAAEAS 211 >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 = 180 bits (457), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 103/278 (37%), Positives = 166/278 (59%), Gaps = 7/278 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P+ +G AH LGN++RR L+SSL GA+I V I GVLHE S+++ V ED+ +I+ N+K + Sbjct: 18 PVEKGMAHILGNSIRRFLLSSLSGASIIKVNISGVLHEYSTLEDVKEDVVEIVSNLKKVA 77 Query: 94 LKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K+ + K + + GVVTAGD +T IE++N D I L + + TVS G Sbjct: 78 IKLDKNVSKVELELSVTKSGVVTAGDFKTTQGIEIINKDQPIATLTNEREFSLVATVSVG 137 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 TE + +G I +DA ++PIK+V++ + + L+ + + T+G+I Sbjct: 138 RNVGILSALPTELEKVGDIAVDADFNPIKRVAFEIFDNGASETLE-----VFVKTNGTIE 192 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 +V A + +Q+ +F++ P D + S +P LLK +++LEL+VRS+NC Sbjct: 193 SLAAVTKALKYFCEQISVFVSLRVPSNGKTGDALLDS-NIDPILLKPIDDLELTVRSSNC 251 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 LR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L Sbjct: 252 LRAENIKYLGDLVQYSESQLIKIPNLGKKSLNEIKQIL 289 >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 = 180 bits (457), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 116/293 (39%), Positives = 168/293 (57%), Gaps = 9/293 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ +IILN+ Sbjct: 23 FVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDVVEIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKR--GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K + ++ D R T+ R GP V A D D+E++NPD I L+ + ME+ Sbjct: 83 KELVVRFL-DPRWRTTLILRAEGPKEVRAVDFTPSADVEIMNPDLHIATLEEGGKLYMEV 141 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 V +G GYVPA+ H + D I I +DA++SP+++V++ VE R GQ D DKL++ I T Sbjct: 142 RVDRGVGYVPAERHGIK-DRINAIPVDAIFSPVRRVAFQVEDTRLGQRTDLDKLTLRIWT 200 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEE---PKKEVKEDINVKSLPFNPALLKKVEELE 264 DGS+T +++ A IL++ L F N E P EV + +S + L +EEL Sbjct: 201 DGSVTPLEALNQAVAILKEHLNYFANPEASLLPTPEVSKGEKRESAEEDLDL--PLEELG 258 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS R + L+ E I + L+ D+ + G +SL EI+ L G L Sbjct: 259 LSTRVLHSLKEEGIESVRALLALNLKDLRNIPGIGERSLEEIRQALAKKGFTL 311 >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 = 180 bits (457), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 105/292 (35%), Positives = 171/292 (58%), Gaps = 7/292 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P+ +G AH LGN++RRVL+SSL GA+I V I VLHE S+++ V ED+ +I+ N+K + Sbjct: 31 PVEKGMAHILGNSIRRVLLSSLSGASIIKVNIANVLHEYSTLEDVKEDVVEIVSNLKKVA 90 Query: 94 LKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K+ + + + GVV+AGD +T +E++N D I L + TVS G Sbjct: 91 IKLDTAIDRLDLELSVNKSGVVSAGDFKTTQGVEIINKDQPIATLTNQRAFSLTATVSVG 150 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 TE + +G I +DA ++PIK+V++ V D + L + + T+G+I Sbjct: 151 RNVGILSAIPTELERVGDIAVDADFNPIKRVAFEVFDNG-----DSETLEVFVKTNGTIE 205 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 +V A +Q+ +F++ P D+ + S +P LLK +++LEL+VRS+NC Sbjct: 206 PLAAVTKALEYFCEQISVFVSLRVPSNGKTGDVLIDS-NIDPILLKPIDDLELTVRSSNC 264 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 LR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L L LG+ + ++ Sbjct: 265 LRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQILIDNNLSLGVQIDNF 316 >gi|150187019|emb|CAK30152.1| RNA polymerase alpha subunit [Streptococcus sobrinus] Length = 202 Score = 180 bits (457), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 88/195 (45%), Positives = 136/195 (69%) 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 QDQLGMFINFEEPKK 239 + L +F + E K Sbjct: 181 IEHLNLFTDLTEIAK 195 >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 = 180 bits (457), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 118/329 (35%), Positives = 187/329 (56%), Gaps = 29/329 (8%) Query: 9 LIKPNNIEYIVLG-QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 LIKP + Q+E N + PL +G+A TLGNALRRVL+SS+ AIT ++I G Sbjct: 4 LIKPEKFRIVQKEEQDEYNYSKYELFPLEKGYAITLGNALRRVLLSSIPSLAITGLRIPG 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG-------DSHKRVTIFKRGPG--VVTAGD 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 KEV-----------------KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYM 281 +V +E+ N+ LP + +++ L+L+ R+ NCL+ E I + Sbjct: 243 GQVGAIEQTEVSVEKEEEEEEEEENIFGLP-KDLMETQLDSLDLTKRAKNCLKREKIDTI 301 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVL 310 G+L++R AD+L++ NFGRKSL EIK L Sbjct: 302 GELLKRKPADLLKIKNFGRKSLDEIKNEL 330 >gi|119662837|emb|CAJ33211.1| RNA polymerase alpha subunit [Lactobacillus satsumensis] Length = 210 Score = 180 bits (457), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 88/198 (44%), Positives = 139/198 (70%), Gaps = 2/198 (1%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRR+L+SSL GAAIT++QIDGVLHE S+IKGV ED+T IILN+K + L++ + + Sbjct: 1 GNSLRRILLSSLPGAAITSIQIDGVLHEFSTIKGVLEDVTQIILNLKKVALRIDSEEDQT 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + I GP V AGDIQ +D+EVLNPD +C + A + + + G GYV A ++ Sbjct: 61 LEISVNGPLEVKAGDIQGSSDVEVLNPDLYLCTVAEGASFHVRMNANTGRGYVSADENKI 120 Query: 164 END--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 + D PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T+G+++ ++++L++ Sbjct: 121 KADDMPIGVLPIDSIYTPIERVNYQVEKTRVGQRDDYDKLTLDVWTNGAVSPSEAISLSA 180 Query: 222 RILQDQLGMFINFEEPKK 239 +IL + L +F++ + K Sbjct: 181 KILTEHLTLFVDLTDEAK 198 >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 = 180 bits (456), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 104/286 (36%), Positives = 166/286 (58%), Gaps = 8/286 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG T+GNALRRVL+S+L G A+TAV+I GV HE ++I GV ED+ DI+LN++ + Sbjct: 25 EPLARGQGTTVGNALRRVLLSNLEGTAVTAVRIGGVNHEFATIPGVREDVLDILLNVREL 84 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 + + + GP VTA D+ ++EV+NP+H I +L A + MEL V G Sbjct: 85 VVHAHSPQPQIGRLRVVGPATVTAADVDFGPEVEVINPNHYIASLSEGATLEMELKVEWG 144 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GY E + + +DA++ P+++V+Y+VE AR G+ D+L + + T+GS++ Sbjct: 145 TGYRAIDRSHDETTALDFLQLDAVFMPVRRVNYSVEDARVGESTAIDRLVLEVWTNGSLS 204 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF-NPALLKKVEELELSVRSTN 271 +++++ A+ L + +F EP K V + P P +E+L+LSVR+ N Sbjct: 205 PQEALSQAASCL---VALF----EPLKNVSVGSTHTADPEPTPESQTPIEDLQLSVRAYN 257 Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 CL+ + + DL+ T D+L + NFG+KS E+ L +G+ L Sbjct: 258 CLKRAQVNSVADLLSYTYEDLLEIKNFGQKSAEEVVEALERIGIKL 303 >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 = 180 bits (456), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 95/218 (43%), Positives = 143/218 (65%), Gaps = 8/218 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQ 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 HDGDVEIVNPEHVICHLTSDNAAIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 +SP+ K++Y+VE+AR Q D DKL + ++T+G++ E Sbjct: 178 FSPVDKIAYSVEAARVEQRTDLDKLVIDMETNGTLEPE 215 >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 = 180 bits (456), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 112/293 (38%), Positives = 172/293 (58%), Gaps = 13/293 (4%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG T+GNALRRVL+S+L GAA+TA++I GV HE ++I GV ED+ +I+LN+K + Sbjct: 26 EPLDRGQGTTVGNALRRVLLSNLPGAAVTAIRIAGVNHEFATILGVREDVLEIMLNMKEL 85 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LK D + + GPG VTA + +++EV++P+ I L A + ME V +G Sbjct: 86 VLKSYTDQPQIGRLTAIGPGTVTAAQFEVPSEVEVIDPNQYIATLAEGAKLEMEFRVERG 145 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GY + + EN + + ID+++ P+ KV+YTVE R + D+L + I T+GSI Sbjct: 146 VGYRVIERGKDENSSLDFLQIDSVFMPVTKVNYTVEDIRADGMSPKDRLILDIWTNGSIQ 205 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS---LPFNPALLKKVEELELSVRS 269 ++++ AS I+ + +FI P K++ E S NP +EEL+LSVR+ Sbjct: 206 PREALSEASDIIAN---LFI----PLKDLNELEAAHSDYQDEVNPESQIPIEELQLSVRA 258 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 NCL+ I + DL++ ++ D+L + NFG KS E V+ + LG+ LP Sbjct: 259 YNCLKRAQINSVADLLEYSQEDLLEIKNFGLKSAEE---VIEALQKRLGITLP 308 >gi|195973794|gb|ACG63462.1| DNA-directed RNA polymerase subunit alpha [Francisella philomiragia subsp. philomiragia ATCC 25015] Length = 290 Score = 180 bits (456), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 103/278 (37%), Positives = 166/278 (59%), Gaps = 7/278 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P+ +G AH LGN++RR L+SSL GA+I V IDGVLHE S+++ V ED+ +I+ N+K + Sbjct: 18 PVEKGMAHILGNSIRRFLLSSLSGASIIKVNIDGVLHEYSTLEDVKEDVVEIVSNLKKVA 77 Query: 94 LKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K+ + K + + GVVTAGD +T IE++N D I L + + TVS G Sbjct: 78 IKLDKNVSKVELELSVTKSGVVTAGDFKTTQGIEIINKDQPIATLTNERKFSLTATVSVG 137 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 TE + +G I +D+ ++PIK+V++ + + L+ + + T+G+I Sbjct: 138 RNVGILSALPTELEKVGDIAVDSDFNPIKRVAFEIFDNGTNETLE-----VFVKTNGTIE 192 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 +V A +Q+ +F++ P D + S +P LLK +++LEL+VRS+NC Sbjct: 193 PLVAVTKALEYFCEQISVFVSLRVPSNGKTGDALLDS-NIDPILLKPIDDLELTVRSSNC 251 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 LR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L Sbjct: 252 LRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQIL 289 >gi|325473246|gb|EGC76441.1| DNA-directed RNA polymerase subunit alpha [Treponema denticola F0402] Length = 351 Score = 180 bits (456), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 118/332 (35%), Positives = 177/332 (53%), Gaps = 16/332 (4%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTL--MIAEPLPRGFAHTLGNALRRVLMSSLRG 57 M +KN + KP +E+ Q+E + A P GF T+GN LRR+L+SS++G Sbjct: 1 MARKNLLKGFKKPKGLEF---AQQESTESYGKFTASPFETGFGTTIGNCLRRILLSSIQG 57 Query: 58 AAITAVQI-----DGVLHEISS----IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK 108 AI+AV I DGV H ISS I V ED +I+ +K I L++S +S + F+ Sbjct: 58 YAISAVLITSHDADGVPHTISSEFENIPNVSEDTLEILNKLKQIRLRLSDESEQGDFHFE 117 Query: 109 -RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 +GP +T+ D +E+L + L A V ++ V G GYVPA+ + + Sbjct: 118 FKGPASITSKDFAVEGQLEILGEPFHVMELMKGANVSFDVQVDFGRGYVPAEVNEKYIEI 177 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 +G I +DA+Y P+ KVSY +E R GQ DYDKL + I TD ++ ED + A++I +D Sbjct: 178 VGTIPMDAIYGPVLKVSYAIEPCRVGQRNDYDKLILEIWTDSTVRPEDVLGEAAKIAKDH 237 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 +FINF E +++ + + L + L+ SVR+ NCL I +G+L Q+ Sbjct: 238 FSIFINFNENDYLGEDEDDNEEAVIKQLLATSINTLDFSVRAKNCLDSAGIKTLGELAQK 297 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +E ++ M N GR +L EI L L LGM Sbjct: 298 SEDEIESMRNVGRMTLNEIHAKLAEYNLRLGM 329 >gi|119668295|emb|CAK95502.1| RNA polymerase alpha subunit [Lactobacillus crispatus] Length = 203 Score = 179 bits (455), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 89/188 (47%), Positives = 127/188 (67%) 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 LQDQLGMF 231 L + +F Sbjct: 181 LVEHFKVF 188 >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 = 179 bits (455), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 103/278 (37%), Positives = 166/278 (59%), Gaps = 7/278 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P+ +G AH LGN++RR L+SSL GA+I V IDGVLHE S+++ V ED+ +I+ N+K + Sbjct: 18 PVEKGMAHILGNSIRRFLLSSLSGASIIKVNIDGVLHEYSTLEDVKEDVVEIVSNLKKVA 77 Query: 94 LKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K+ + K + + GVVTAGD +T IE++N D I L + + TVS G Sbjct: 78 IKLDKNVSKVELELSVTKSGVVTAGDFKTTQGIEIINKDQPIATLTNEREFSLTATVSVG 137 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 TE + +G I +D+ ++PIK+V++ + + L+ + + T+G+I Sbjct: 138 RNVGILSALPTELEKVGDIAVDSDFNPIKRVAFEIFDNGTNETLE-----VFVKTNGTIE 192 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 +V A +Q+ +F++ P D + S +P LLK +++LEL+VRS+NC Sbjct: 193 PLVAVTKALEYFCEQISVFVSLRVPSNGKTGDALLDS-NIDPILLKPIDDLELTVRSSNC 251 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 LR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L Sbjct: 252 LRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQIL 289 >gi|119662815|emb|CAJ33199.1| RNA polymerase alpha subunit [Lactobacillus kefiranofaciens subsp. kefiranofaciens] Length = 203 Score = 179 bits (455), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 89/188 (47%), Positives = 127/188 (67%) 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 LQDQLGMF 231 L + +F Sbjct: 181 LVEHFKVF 188 >gi|119668373|emb|CAK95478.1| RNA polymerase alpha subunit [Lactobacillus sakei subsp. carnosus] Length = 203 Score = 179 bits (455), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 87/195 (44%), Positives = 137/195 (70%) 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 QDQLGMFINFEEPKK 239 + L +F++ + K Sbjct: 181 TEHLAIFVDLTDEAK 195 >gi|119662369|emb|CAJ33173.1| RNA polymerase alpha subunit [Lactobacillus versmoldensis] Length = 215 Score = 179 bits (455), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 85/202 (42%), Positives = 139/202 (68%), Gaps = 1/202 (0%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRRVL++SL G A++ +QIDGVLHE +I GV ED+T I+LNIK ++LK Sbjct: 1 YGTTLGNSLRRVLLASLPGTAVSDIQIDGVLHEFFAIDGVIEDVTQIVLNIKKLSLKSYA 60 Query: 99 DSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP 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 ALASRILQDQLGMFINFEEPKK 239 +L+++IL + L F+N E K Sbjct: 181 SLSAKILTEHLTSFVNLTEEAK 202 >gi|119668337|emb|CAK95467.1| RNA polymerase alpha subunit [Lactobacillus johnsonii] Length = 187 Score = 179 bits (455), Expect = 5e-43, Method: Compositional matrix adjust. Identities = 89/183 (48%), Positives = 129/183 (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 FIN 233 F++ Sbjct: 181 FMS 183 >gi|119668345|emb|CAK95469.1| RNA polymerase alpha subunit [Lactobacillus paracasei subsp. paracasei] Length = 186 Score = 179 bits (454), Expect = 6e-43, Method: Compositional matrix adjust. 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|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 = 179 bits (454), Expect = 6e-43, Method: Compositional matrix adjust. Identities = 106/303 (34%), Positives = 175/303 (57%), Gaps = 8/303 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 +PL RG+ T+GNALRRVL+SSL GAAI V+I GV E ++I GV+ED+ IILN+K I Sbjct: 27 KPLERGYGITVGNALRRVLLSSLPGAAIVNVKIQGVEQEFTTIPGVYEDVMTIILNLKKI 86 Query: 93 NLKM---SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 + S D +++ + +GP +TA + ++++NPDH I L D M +T+ Sbjct: 87 VFAVDDESDDFEEKLELIAKGPQRLTAASFELPAGVKIINPDHYITTLSDDVCFHMTVTI 146 Query: 150 SKGHGYVPAKHHRTE-NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 KG GYV AK ++ + +G+I ID+L++P+ VSY VE ++ + D+L++ I T+ Sbjct: 147 KKGIGYVGAKENKVHIENQVGVIAIDSLFTPVVNVSYQVEK----KLGNKDELTIEITTN 202 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ ++++A A+ IL D + + + V+ K N L ++E+L+LSVR Sbjct: 203 GALLAKEALATAASILVDHFNVLVELSQKPAHVEFVSESKKEAHNYVLDLEIEQLDLSVR 262 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPES 328 N L+ I + L++ +E +++++ + GRKS E+K GL L + S Sbjct: 263 LFNSLKRAGIDTVASLVKLSEKEVVKLKSLGRKSFQELKDKFLEYGLEFNDYLKEALHHS 322 Query: 329 IEE 331 +EE Sbjct: 323 VEE 325 >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 = 179 bits (454), Expect = 6e-43, Method: Compositional matrix adjust. Identities = 114/302 (37%), Positives = 168/302 (55%), Gaps = 26/302 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ +IILN+ Sbjct: 23 FVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDVVEIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKR--GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K + ++ T+ R GP V A D D+E++NPD I L+ + ME+ Sbjct: 83 KELVVRFLDPKMASTTLILRAEGPKEVRAVDFTPSADVEIMNPDLHIATLEEGGKLYMEV 142 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 V +G GYVPA+ H + D I I +DA++SP+++V++ VE R GQ D DKL++ I T Sbjct: 143 RVDRGVGYVPAERHGIK-DRINAIPVDAIFSPVRRVAFQVEDTRLGQRTDLDKLTLRIWT 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFE------------EPKKEVKEDINVKSLPFNPA 255 DGS+T +++ A IL++ L F N E E ++ +ED++ LP Sbjct: 202 DGSVTPLEALNQAVAILKEHLNYFANPEASSLPTPEVSKGEKRESAEEDLD---LP---- 254 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 +EEL LS R + L+ E I + L+ D+ + G +SL EI+ L G Sbjct: 255 ----LEELGLSTRVLHSLKEEGIESVRALLALNLKDLRNIPGIGERSLEEIRQALAKKGF 310 Query: 316 FL 317 L Sbjct: 311 TL 312 >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 = 179 bits (454), Expect = 6e-43, Method: Compositional matrix adjust. Identities = 105/297 (35%), Positives = 171/297 (57%), Gaps = 15/297 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG T+GNALRRVL+S+L GAA+TA++I GV HE ++I GV ED+ ++ILN+ Sbjct: 23 FILEPLDRGQGTTVGNALRRVLLSNLEGAAVTALRIAGVNHEFATISGVREDVMELILNM 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK + + GP VTA ++IEV++P + L + + ME V Sbjct: 83 KEITLKSYTSQPQIGRLVATGPATVTAAQFDVPSEIEVVDPSQYVATLSDGSKLEMEFRV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GY + + + + + ID+++ P+ KV+Y+VE R D+L++ I T+G Sbjct: 143 EKGKGYRAIERGKDDTTSLDFLQIDSVFMPVTKVNYSVEDVRVDGTGSKDRLTLEIWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEE---PKKEVKEDINVKS-LPFNPALLKKVEELEL 265 SI +++++ A+ I+ D + E + + ++++N +S +P +EEL+L Sbjct: 203 SINPKEALSEAAAIIVDLFSPLKDLNELEATQSDYQDEVNPESQIP--------IEELQL 254 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 SVR+ NCL+ I + DL+ ++ D+L + NFG+KS E V+ + LG+ LP Sbjct: 255 SVRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEE---VIEALQKRLGITLP 308 >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 = 179 bits (453), Expect = 6e-43, Method: Compositional matrix adjust. Identities = 116/297 (39%), Positives = 172/297 (57%), Gaps = 28/297 (9%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQI--DGVLHEISSIKGVHEDLTDIILNIKG 91 PL RG+A T+GNALRRVL+SS+ AI V+ HE I+GV ED+ DIILN+K Sbjct: 30 PLERGYAITIGNALRRVLLSSIPSLAIVGVRFIKPEKYHEYDYIEGVKEDILDIILNLKK 89 Query: 92 INLKM--SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 + ++ + ++ + K+GPG + AGDI+T IEV NPD I L+ A + E+ Sbjct: 90 VQFRVNVTVKGTIKMEVEKKGPGELVAGDIKTPAGIEVANPDLHIATLNSKADLFFEVYA 149 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G G+VP R E +G I ID ++SP+ KV++ E+ R G+ DYDKL + I T Sbjct: 150 EVGKGFVPV-SEREERPDVGWIPIDGVFSPVIKVNFLTENVRVGKRTDYDKLILEIWTKK 208 Query: 210 SITGEDSVALASRILQDQLGM--------------FINFEEPKKEV----KEDINVKSLP 251 SI E+++ A+ IL + + I EE + E+ E+ N ++L Sbjct: 209 SIRPEEALRKAADILINHFKIVTEGLPELKISEEYIITSEEEEAEIPAVDHEEENRENLD 268 Query: 252 -FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 +N +K++ELELSVRS NCL+ I +GDL+ +TE ++L++ NFG+KSL E+K Sbjct: 269 VYN----RKIDELELSVRSLNCLKRAKIETIGDLLSKTEEELLKIKNFGQKSLDEVK 321 >gi|154424857|emb|CAL18531.1| RNA polymerase alpha subunit [Streptococcus sanguinis] Length = 194 Score = 179 bits (453), Expect = 6e-43, Method: Compositional matrix adjust. Identities = 87/192 (45%), Positives = 131/192 (68%) 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 QDQLGMFINFEE 236 + L +F N E Sbjct: 181 TEHLNLFTNLTE 192 >gi|311990468|gb|ADQ26364.1| RNA polymerase alpha subunit [Lactobacillus fermentum] Length = 220 Score = 179 bits (453), Expect = 6e-43, Method: Compositional matrix adjust. Identities = 91/198 (45%), Positives = 139/198 (70%), Gaps = 2/198 (1%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRRV+++SL GAAIT++QIDGVLHE S+++GV ED+T IILN+K + LK+ + K Sbjct: 1 GNSLRRVMLASLPGAAITSIQIDGVLHEFSTVQGVTEDVTQIILNLKQVALKIDSEDAKD 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + I +GP VTA DIQ D+ +LN D I + A + +++T KG GY A ++T Sbjct: 61 LEIDVKGPAEVTAADIQGDGDVTILNSDLHIATVSDGAELHVKMTADKGRGYSSADDNKT 120 Query: 164 --ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 E IG++ ID++Y+PI++V+YTVE+ R GQ DYDKL++ + T+GS+T ++++LA+ Sbjct: 121 RMEGLAIGVLPIDSIYTPIERVNYTVENTRVGQSNDYDKLTLDVWTNGSLTPTEAISLAA 180 Query: 222 RILQDQLGMFINFEEPKK 239 +IL + L MF+N E + Sbjct: 181 KILTEHLTMFVNLTEEAQ 198 >gi|119662357|emb|CAJ33167.1| RNA polymerase alpha subunit [Lactobacillus salivarius] Length = 194 Score = 179 bits (453), Expect = 7e-43, Method: Compositional matrix adjust. Identities = 91/192 (47%), Positives = 135/192 (70%), Gaps = 2/192 (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 FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND 166 GP VTAGDIQ+ +D+EVLNP+ IC + A + + + +KG GYV A ++ D Sbjct: 61 NVTGPMEVTAGDIQSNSDVEVLNPEQYICTVADGAELHVRMNANKGRGYVSANDNKALAD 120 Query: 167 --PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T+GSIT ++++L+++IL Sbjct: 121 DMPIGVLPIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWTNGSITPSEAISLSAKIL 180 Query: 225 QDQLGMFINFEE 236 + L +F++ + Sbjct: 181 TEHLALFVDLTD 192 >gi|150186952|emb|CAK30135.1| RNA polymerase alpha subunit [Streptococcus equi subsp. zooepidemicus] Length = 205 Score = 179 bits (453), Expect = 7e-43, Method: Compositional matrix adjust. Identities = 87/196 (44%), Positives = 137/196 (69%) 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 LQDQLGMFINFEEPKK 239 L + L +F + + K Sbjct: 181 LIEHLNLFTDLTDVAK 196 >gi|119668349|emb|CAK95511.1| RNA polymerase alpha subunit [Lactobacillus paraplantarum] Length = 177 Score = 179 bits (453), Expect = 7e-43, Method: Compositional matrix adjust. Identities = 93/176 (52%), Positives = 127/176 (72%), Gaps = 2/176 (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 K--HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 + HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL++ + T+GSIT Sbjct: 121 EDNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDKLTLDVWTNGSIT 176 >gi|119668309|emb|CAK95455.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. delbrueckii] Length = 200 Score = 179 bits (453), Expect = 7e-43, Method: Compositional matrix adjust. Identities = 89/198 (44%), Positives = 130/198 (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 ITGEDSVALASRILQDQL 228 I D++ A+R+L + Sbjct: 181 IAPNDALNFAARVLVEHF 198 >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 = 178 bits (452), Expect = 8e-43, Method: Compositional matrix adjust. Identities = 116/297 (39%), Positives = 172/297 (57%), Gaps = 28/297 (9%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQI--DGVLHEISSIKGVHEDLTDIILNIKG 91 PL RG+A T+GNALRRVL+SS+ AI V+ HE I+GV ED+ DIILN+K Sbjct: 30 PLERGYAITIGNALRRVLLSSIPSLAIIGVRFIKPEKYHEYDYIEGVKEDILDIILNLKK 89 Query: 92 INLKM--SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 + ++ + ++ + K+GPG + AGDI+T IEV NPD I L+ A + E+ Sbjct: 90 VQFRVNVTVKGTIKMEVEKKGPGELVAGDIKTPAGIEVANPDLHIATLNSKADLFFEVYA 149 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G G+VP R E +G I ID ++SP+ KV++ E+ R G+ DYDKL + I T Sbjct: 150 EVGKGFVPV-SEREERPDVGWIPIDGVFSPVIKVNFLTENVRVGKRTDYDKLILEIWTKK 208 Query: 210 SITGEDSVALASRILQDQLGM--------------FINFEEPKKEV----KEDINVKSLP 251 SI E+++ A+ IL + + I EE + E+ E+ N ++L Sbjct: 209 SIRPEEALRKAADILINHFKIVTEGLPELKISEEYIITSEEEEAEIPAVDHEEENRENLD 268 Query: 252 -FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 +N +K++ELELSVRS NCL+ I +GDL+ +TE ++L++ NFG+KSL E+K Sbjct: 269 VYN----RKIDELELSVRSLNCLKRAKIETIGDLLSKTEEELLKIKNFGQKSLDEVK 321 >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 = 178 bits (452), Expect = 9e-43, Method: Compositional matrix adjust. Identities = 115/314 (36%), Positives = 172/314 (54%), Gaps = 27/314 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ T+GN +RR+LMSS+ G A+T+V I+ VLHE S+I GV ED+ +ILN+ Sbjct: 19 FVLEPLTRGYGVTIGNPIRRILMSSIPGTAVTSVYIEDVLHEFSTIPGVKEDVIQLILNL 78 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + ++ K +T+ +G GVV A + +D E++NPD I L D + ME+ V Sbjct: 79 KELVVRFHTSGPKTLTLRAQGEGVVKASAFEVPSDAEIVNPDLTIATLAEDGKLVMEVRV 138 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYVPA H T+ D I I +DA++SP+++V+Y VE+ R GQ D D+L + + TDG Sbjct: 139 EEGEGYVPADKHATK-DRINSIPVDAVFSPVRRVAYHVENTRVGQQTDLDRLILRVWTDG 197 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI-----------NVKSLPFN----- 253 S +D++ + IL+D+L +F N E V + NV LP Sbjct: 198 STGPQDALDKSVEILRDELTVFGNVEALPALVSDVAPVYTPTPVPAHNVYDLPPTSGSVN 257 Query: 254 ------PALLKK----VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 PA L +E L L+ R + L+ E I + L ++ D+ ++ G +SL Sbjct: 258 LNPGDYPAELDSPRVTLEGLGLTTRVLHSLKEEGIDSVDALCALSDRDLKKVPGIGERSL 317 Query: 304 VEIKGVLGTMGLFL 317 EIK L GL L Sbjct: 318 DEIKQQLAQFGLAL 331 >gi|150186939|emb|CAK30132.1| RNA polymerase alpha subunit [Streptococcus equinus] Length = 185 Score = 178 bits (452), Expect = 9e-43, Method: Compositional matrix adjust. 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|150187122|emb|CAK30175.1| RNA polymerase alpha subunit [Streptococcus lutetiensis] Length = 201 Score = 178 bits (452), Expect = 9e-43, Method: Compositional matrix adjust. Identities = 88/194 (45%), Positives = 135/194 (69%) 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 DQLGMFINFEEPKK 239 + L +F + E K Sbjct: 181 EHLNLFTDLTEVAK 194 >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 = 178 bits (452), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 112/299 (37%), Positives = 175/299 (58%), Gaps = 15/299 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 IA+P RG+A T+GNALRRVL+SS+ G AIT ++IDGV +E ++ G+ ED +I+++ Sbjct: 30 FIAQPFERGYAVTVGNALRRVLLSSIPGYAITTIKIDGVSNEFENVPGMKEDTIVMIMHL 89 Query: 90 KGINLKMSGDSH---KRVTIFKRGPGVVTAGDIQTVNDIE--VLNPDHVICNLDVDAVVR 144 K N+ +S SH K + + K GP V+TAGD+ +D E V NPD+ I + Sbjct: 90 K--NVVVSLPSHMDTKTIHMKKEGPCVITAGDL-VADDTEAQVHNPDYYIATIAEGYTFE 146 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 M++ + G+ YVPA+ + + I I IDA+YSPI V Y V+ R GQ +DY KL++ Sbjct: 147 MDIQIEGGYSYVPAEMNIELLEDINAIAIDAIYSPIVSVKYNVDPIRVGQRIDYGKLTLE 206 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL----LKKV 260 I+T G+I + +++ A++IL+D L F++ EE +D ++ P + L K + Sbjct: 207 IETKGNIAPDKALSQAAKILRDNLKHFMDPEEAN---GDDEKIEETPKDSVLDSLKGKHI 263 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 EE+E SVR+ N L ++ + + +T+AD+LR+ + EIK L LGM Sbjct: 264 EEVEFSVRTANFLMASDLKTLDKVAVKTDADLLRLIGANEMIIEEIKEKLAEYNAHLGM 322 >gi|150036754|emb|CAM98262.1| DNA-directed RNA polymerase alpha chain [Fructobacillus durionis] Length = 220 Score = 178 bits (452), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 95/211 (45%), Positives = 133/211 (63%), Gaps = 2/211 (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 GYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A+ ++ D PIG++T+D++Y+PI++V+Y VE R G D+DKL+M + T+GSI Sbjct: 121 GYASAEENKQLRDEMPIGVLTVDSIYTPIERVNYHVEQKRVGSRDDFDKLTMEVWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVK 242 D+++L S+IL + L +F + +E K Sbjct: 181 KPSDALSLGSKILTEHLNLFTDISPVAQETK 211 >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 = 178 bits (451), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 102/278 (36%), Positives = 165/278 (59%), Gaps = 7/278 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P+ +G AH LGN++RR L+SSL GA+I V I G+LHE S+++ V ED+ +I+ N+K + Sbjct: 18 PVEKGMAHILGNSIRRFLLSSLSGASIIKVNISGILHEYSTLEDVKEDVVEIVSNLKKVA 77 Query: 94 LKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K+ + K + + GVVTAGD +T IE++N D I L + + TVS G Sbjct: 78 IKLDKNVSKVELELSVTKSGVVTAGDFKTTQGIEIINKDQPIATLTNEREFSLVATVSVG 137 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 TE + +G I +DA ++PIK+V++ + + L+ + + T+G+I Sbjct: 138 RNVGILSALPTELEKVGDIAVDADFNPIKRVAFEIFDNGASETLE-----VFVKTNGTIE 192 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 +V A +Q+ +F++ P D + S +P LLK +++LEL+VRS+NC Sbjct: 193 PLAAVTKALEYFCEQISVFVSLRVPSNGKTGDALLDS-NIDPILLKPIDDLELTVRSSNC 251 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 LR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L Sbjct: 252 LRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQIL 289 >gi|195973802|gb|ACG63466.1| DNA-directed RNA polymerase subunit alpha [Francisella philomiragia] Length = 290 Score = 178 bits (451), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 102/278 (36%), Positives = 165/278 (59%), Gaps = 7/278 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P+ +G AH LGN++RR L+SSL GA+I V IDGVLHE S+++ V ED+ +I+ N+K + Sbjct: 18 PVEKGMAHILGNSIRRFLLSSLSGASIIKVNIDGVLHEYSTLEDVKEDVVEIVSNLKKVA 77 Query: 94 LKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K+ + K + + G VTAGD +T IE++N D I L + + TVS G Sbjct: 78 IKLDKNVSKVELELSVTKSGAVTAGDFKTTQGIEIINKDQPIATLTNEREFSLTATVSVG 137 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 TE + +G I +D+ ++PIK+V++ + + L+ + + T+G+I Sbjct: 138 RNVGILSALPTELEKVGDIAVDSDFNPIKRVAFEIFDNGTNETLE-----VFVKTNGTIE 192 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 +V A +Q+ +F++ P D + S +P LLK +++LEL+VRS+NC Sbjct: 193 PLVAVTKALEYFCEQISVFVSLRVPSNGKTGDALLDS-NIDPILLKPIDDLELTVRSSNC 251 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 LR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L Sbjct: 252 LRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQIL 289 >gi|119662315|emb|CAJ33145.1| RNA polymerase alpha subunit [Lactobacillus iners DSM 13335] Length = 209 Score = 178 bits (451), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 91/191 (47%), Positives = 137/191 (71%) 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 ILQDQLGMFIN 233 IL++ +F++ Sbjct: 181 ILEEHFKVFMS 191 >gi|150187043|emb|CAK30158.1| RNA polymerase alpha subunit [Streptococcus anginosus] Length = 203 Score = 178 bits (451), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 86/192 (44%), Positives = 132/192 (68%) 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 LGMFINFEEPKK 239 L +F N E K Sbjct: 181 LDLFTNLTEVAK 192 >gi|154424861|emb|CAL18533.1| RNA polymerase alpha subunit [Streptococcus suis] Length = 203 Score = 178 bits (451), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 90/201 (44%), Positives = 139/201 (69%), Gaps = 2/201 (0%) 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 FINFEEPKK--EVKEDINVKS 249 F + E K EV ++ V S Sbjct: 181 FTDLTEVAKSAEVMKEAEVAS 201 >gi|161511717|emb|CAP16869.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus dextrinicus] Length = 205 Score = 178 bits (451), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 87/186 (46%), Positives = 131/186 (70%) 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 FEEPKK 239 + K Sbjct: 181 LSDEAK 186 >gi|150187166|emb|CAK30185.1| RNA polymerase alpha subunit [Streptococcus marimammalium] Length = 210 Score = 177 bits (450), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 89/191 (46%), Positives = 132/191 (69%) 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 GMFINFEEPKK 239 +F + E K Sbjct: 181 NLFTDLTEIAK 191 >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 = 177 bits (450), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 112/316 (35%), Positives = 177/316 (56%), Gaps = 19/316 (6%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P IE + + EN +IA P G+A TL + LRR+L +S G A TAV+IDGV HE Sbjct: 11 PTEIEVVNVS---ENVAKIIAYPFETGYAVTLAHPLRRLLYTSTVGFAPTAVKIDGVAHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDI-EVLN 129 S++G+ ED+T I+N+K + K+ DS + V + +GP +T D+ NDI E++N Sbjct: 68 FDSMRGMLEDVTLFIINLKNLRFKLKNDSKREVIEYSFKGPKEITGIDLN--NDIVEIVN 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 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV-- 247 DY+K+ +T+ TDG ++ ++ + + Q+ +F N + D+N+ Sbjct: 185 VLVEDNPDYEKIVLTVTTDGQVSPIEAFKHSIEAMYKQMSIFNNV------LNIDVNMAL 238 Query: 248 ---KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 ++ + LL+ VE L LS RS NCL +I Y+G+L E+++ + N G+KSL Sbjct: 239 TSSQNSNEHSKLLESVENLNLSARSFNCLDKADIRYIGELALMEESELKDLKNLGKKSLD 298 Query: 305 EIKGVLGTMGLFLGMN 320 EIK V+ +G G N Sbjct: 299 EIKAVMAEIGYPFGEN 314 >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 = 177 bits (450), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 104/296 (35%), Positives = 171/296 (57%), Gaps = 13/296 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG T+GNALRRVL+S+L GAA+TA++I GV HE ++I GV ED+ ++ILN+ Sbjct: 23 FILEPLDRGQGTTVGNALRRVLLSNLEGAAVTALRIAGVNHEFATISGVREDVMELILNM 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK + + GP VTAG +++E+++P + L + + ME + Sbjct: 83 KEITLKSYTSQPQIGRLVATGPATVTAGQFDLPSEVEIVDPSQYVATLAEGSKLEMEFRI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GY + + ++ + + ID+++ P+ KV+Y+VE R D+L++ I T+G Sbjct: 143 EKGKGYRAIERGKDDSTSLDFLQIDSVFMPVTKVNYSVEDVRVDGTSSKDRLTIEIWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKE-DINVKSLP--FNPALLKKVEELELS 266 S+ +++++ A+ I+ D +F P +++ E + P NP +EEL+LS Sbjct: 203 SVNPKEALSEAAAIIVD---LF----SPLRDLNELEATQSDYPDEVNPESQIPIEELQLS 255 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 VR+ NCL+ I + DL+ ++ D+L + NFG+KS E V+ + LG+ LP Sbjct: 256 VRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEE---VIEALQKRLGITLP 308 >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 = 177 bits (450), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 82/196 (41%), Positives = 135/196 (68%) 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 LQDQLGMFINFEEPKK 239 L + L F+N E K Sbjct: 181 LTEHLNSFVNLTEEAK 196 >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 = 177 bits (450), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 109/297 (36%), Positives = 170/297 (57%), Gaps = 14/297 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG TLGN+LRR+L+S+L G A+TA++I GV HE ++I GV ED +IILN+ Sbjct: 23 FVFEPLERGQGTTLGNSLRRILLSNLEGTAVTALRIGGVNHEFATIPGVREDALEIILNM 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK + + GPG VTA +++EV++P I L A + ME + Sbjct: 83 KEIILKSYTHQPQIGRLTATGPGQVTAAQFDLPSEVEVVDPTQYIATLADGAKLEMEFRI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR-EGQVLDYDKLSMTIDTD 208 KG Y + +R E + + IDA++ P+ KV+Y+V+S EG + D+L++ I T+ Sbjct: 143 EKGKSYRAVQRNRDEATALDFLQIDAVFMPVTKVNYSVDSIHSEGDAV-RDRLTLEIWTN 201 Query: 209 GSITGEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 GSI E++++ A+ I + + E + E++ED +P +EEL+LS Sbjct: 202 GSIKPEEALSQAAAIAVELFNPLKDLTLEAIQDELQED-------EDPTSQIPIEELQLS 254 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 VR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L T LG+ LP+ Sbjct: 255 VRAYNCLKRAQINSVADLLDYSQEDLLEIKNFGQKSAEEVIDALKTR---LGITLPE 308 >gi|150186968|emb|CAK30138.1| RNA polymerase alpha subunit [Streptococcus mutans] Length = 192 Score = 177 bits (450), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 87/190 (45%), Positives = 134/190 (70%) 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 QLGMFINFEE 236 L +F + E Sbjct: 181 HLNLFTDLTE 190 >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 = 177 bits (449), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 113/333 (33%), Positives = 185/333 (55%), Gaps = 11/333 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + IKP +E I E I +PL RG+ T+GNALRRVL+SSL G AI V+I G Sbjct: 5 KFIKPFFVEEI---DENPISGKFIIKPLERGYGITVGNALRRVLLSSLPGTAIVNVKIQG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKM---SGDSHKRVTIFKRGPGVVTAGDIQTVND 124 V E ++I GV+ED+ IILN+K I + S D +++ + +GP +TA + Sbjct: 62 VEQEFTTIPGVYEDVMTIILNLKKIVFAVDDESDDFEEKLELIAKGPQRLTASSFELPAG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKV 183 ++++NPDH I L D M +T+ KG GYV AK ++ + +G+I ID+L++P+ V Sbjct: 122 VKIINPDHYITTLSDDVCFHMTVTLKKGIGYVGAKDNKVHGENQVGVIAIDSLFTPVVNV 181 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VE ++ + D+L++ I T+G++ ++++A A+ IL D + + + V+ Sbjct: 182 SYQVEK----KLGNKDELTIEITTNGALLAKEALATAASILVDHFNVLVELSQKPAHVEF 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 K N L ++E+L+LSVR N L+ I + L++ +E +++++ + GRKS Sbjct: 238 VSESKKEAHNSVLDLEIEQLDLSVRLFNSLKRAGIDTVAALVKLSEKEVVKLKSLGRKSF 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKY 336 E+K GL L + S+EE K+ Sbjct: 298 QELKDKFLEYGLEFNDYLKEVLHHSVEEDKDKH 330 >gi|150036808|emb|CAM98277.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 235 Score = 177 bits (448), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 98/235 (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 GYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A+ ++ D 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|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 = 177 bits (448), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 102/302 (33%), Positives = 169/302 (55%), Gaps = 11/302 (3%) Query: 24 EENR---TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 EE+R + I EPL RG T+GNALRRVL+S+L G A+TAV+I GV HE +++ GV E Sbjct: 14 EESRNHYSKFILEPLERGQGTTVGNALRRVLLSNLEGTAVTAVRIAGVSHEFATVPGVRE 73 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 D+ +II+ +K + LK + + GP +TA +++EV++P + + Sbjct: 74 DVLEIIMRMKEVILKSYSSQAQIGRLLVNGPTTITASHFDLPSEVEVIDPTQYVATIAEG 133 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + ME + +G GY + R E + + ID+++ P++KV+Y+VE R + D+ Sbjct: 134 GKLEMEFRIERGKGYRTVERGREEATSLDFLQIDSIFMPVRKVNYSVEEVRADGSIPKDR 193 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + + T+GSI+ +++++ A+ IL D + + DI P +P + Sbjct: 194 LLLEVWTNGSISPQEALSSAAGILVDLFNPLKDISLEPTDTNSDI-----PDDPTAQIPI 248 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 EEL+LSVR+ NCL+ + + DL+ T+ D+L + NFG+KS E V+ + LG+ Sbjct: 249 EELQLSVRAYNCLKRAQVNSVADLLDYTQEDLLEIKNFGQKSAEE---VVEALQRRLGIT 305 Query: 321 LP 322 LP Sbjct: 306 LP 307 >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 = 177 bits (448), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 102/302 (33%), Positives = 169/302 (55%), Gaps = 11/302 (3%) Query: 24 EENR---TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 EE+R + I EPL RG T+GNALRRVL+S+L G A+TAV+I GV HE +++ GV E Sbjct: 14 EESRNHYSKFILEPLERGQGTTVGNALRRVLLSNLEGTAVTAVRIAGVSHEFATVPGVRE 73 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 D+ +II+ +K + LK + + GP +TA +++EV++P + + Sbjct: 74 DVLEIIMRMKEVILKSYSSQAQIGRLLVNGPTTITASHFDLPSEVEVIDPTQYVATIAEG 133 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + ME + +G GY + R E + + ID+++ P++KV+Y+VE R + D+ Sbjct: 134 GKLEMEFRIERGKGYRTVERGREEATSLDFLQIDSIFMPVRKVNYSVEEVRADGSIPKDR 193 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + + T+GSI+ +++++ A+ IL D + + DI P +P + Sbjct: 194 LLLEVWTNGSISPQEALSSAAGILVDLFNPLKDISLEPTDTNSDI-----PDDPTAQIPI 248 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 EEL+LSVR+ NCL+ + + DL+ T+ D+L + NFG+KS E V+ + LG+ Sbjct: 249 EELQLSVRAYNCLKRAQVNSVADLLDYTQEDLLEIKNFGQKSAEE---VVEALQRRLGIT 305 Query: 321 LP 322 LP Sbjct: 306 LP 307 >gi|195973808|gb|ACG63469.1| DNA-directed RNA polymerase subunit alpha [Francisella noatunensis] Length = 290 Score = 177 bits (448), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 102/278 (36%), Positives = 165/278 (59%), Gaps = 7/278 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P+ +G AH LGN++RR L+SSL GA+I V I GVLHE S+++ V ED+ +I+ N+K + Sbjct: 18 PVEKGMAHILGNSIRRFLLSSLSGASIIKVNISGVLHEYSTLEDVKEDVVEIVSNLKKVA 77 Query: 94 LKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K+ + K + + GVVTAGD +T IE++N D I L + + TVS G Sbjct: 78 IKLDKNVSKVELELSVTKSGVVTAGDFKTTQGIEIINKDQPIATLTNEREFSLVATVSVG 137 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 E + +G I +DA ++PIK+V++ + + L+ + + T+G+I Sbjct: 138 RNVGILSALPIELEKVGDIAVDADFNPIKRVAFEIFDNGASETLE-----VFVKTNGTIE 192 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 +V A +Q+ +F++ + P D + S +P LLK +++LEL+VRS+NC Sbjct: 193 PLAAVTKALEYFCEQISVFVSLKVPSNGKTGDALLDS-NIDPILLKPIDDLELTVRSSNC 251 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 LR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L Sbjct: 252 LRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQIL 289 >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 = 177 bits (448), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 115/303 (37%), Positives = 168/303 (55%), Gaps = 12/303 (3%) 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 + D I I +DALYSP+++V+Y VE R GQ D DKL + Sbjct: 136 VMEVRVDEGVGYVPAEKHGIK-DRINSIPVDALYSPVRRVAYHVEDTRLGQRTDLDKLIL 194 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMF---------INFEEPKKEVKEDINVKSLPFNP 254 I TDGS++ D++ A IL++ LG F E + + P Sbjct: 195 RIWTDGSVSPLDALQSAVGILREHLGFFDQAAVVAEAEAEPVEAAPEVEAVGAEEAAERP 254 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 AL +++L LS R + L+ E I + +L+ TE ++ ++ G +S+ EIK L G Sbjct: 255 AL--TLDDLGLSTRVLHNLKEEGIDSIENLLALTERELKKVPGIGERSVEEIKERLAEHG 312 Query: 315 LFL 317 L L Sbjct: 313 LSL 315 >gi|72534426|emb|CAH59048.1| DNA-directed RNA polymerase alpha chain [Enterococcus sp. LMG 22681] Length = 213 Score = 177 bits (448), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 88/185 (47%), Positives = 126/185 (68%) 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 EEPKK 239 + K Sbjct: 189 TDEAK 193 >gi|150186989|emb|CAK30143.1| RNA polymerase alpha subunit [Streptococcus gordonii] Length = 202 Score = 176 bits (447), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 87/195 (44%), Positives = 132/195 (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 QDQLGMFINFEEPKK 239 + L +F + E K Sbjct: 181 TEHLDLFTDLTEVAK 195 >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 = 176 bits (447), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 109/314 (34%), Positives = 178/314 (56%), Gaps = 9/314 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 N +E I+ + + +I EPL R T+GNALRRVL+S+L G A+T+V+I G HE Sbjct: 7 NCVESIIEDDQSQFSRFVI-EPLGRSQGTTVGNALRRVLLSNLEGTAVTSVRIAGASHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 S+I GV ED+ DI+LN+K LK + + +GP VTA + +++E+++ D Sbjct: 66 STIPGVREDVLDILLNMKETVLKSYSAQPQIGRLVVQGPAKVTAANFDLPSEVELISTDR 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I ++ + ME + +G GY R E + + IDA++ P++KV+Y+VE+ + Sbjct: 126 YIASVAAGHKLEMEFRIERGKGYKAIDRSREETGGVEFMQIDAVFMPVRKVNYSVENFID 185 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 + D+L M I T+GS+T + +++ A+ +L D MF ++ E K D + K Sbjct: 186 PEGFPKDRLVMEIWTNGSLTAQQAMSEAAALLVD---MFNPLKDVTLEPKRDEDTKEE-- 240 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E V+ Sbjct: 241 DPTYQIPIEELQLSVRAYNCLKRAQINAVSDLLDYSQEDLLEIKNFGQKSAEE---VVEA 297 Query: 313 MGLFLGMNLPDWPP 326 + + LG+ LP P Sbjct: 298 LQIHLGIMLPLEKP 311 >gi|119662285|emb|CAJ33129.1| RNA polymerase alpha subunit [Lactobacillus brevis] Length = 190 Score = 176 bits (446), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 88/189 (46%), Positives = 133/189 (70%), Gaps = 4/189 (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 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--P 167 GP +TAGDI D+++LNPD I + A M +T KG GYV A ++T N 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 LGMFINFEE 236 L MF++ + Sbjct: 181 LAMFVDLTD 189 >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 = 176 bits (446), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 101/302 (33%), Positives = 171/302 (56%), Gaps = 11/302 (3%) Query: 24 EENR---TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 EE+R + + EPL RG T+GNALRRVL+S+L G A+TAV+I GV HE +++ GV E Sbjct: 14 EESRNHYSKFVLEPLERGQGTTVGNALRRVLLSNLEGTAVTAVRIAGVSHEFATVPGVRE 73 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 D+ +I++ +K + LK + + GP +TA +++EV++P + + Sbjct: 74 DVLEILMRMKEVILKNYSSQPQIGRLLVSGPTTITAAHFDLPSEVEVIDPTQYVATIAEG 133 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + ME + KG GY + R E + + ID+++ P++KV+Y+VE +R ++ D+ Sbjct: 134 GKLEMEFRIEKGKGYRTVERGREEATSLDFLQIDSIFMPVRKVNYSVEESRGEGLIPKDR 193 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + + T+GSI+ +++++ A+ IL D + + DI P +P + Sbjct: 194 LLLEVWTNGSISPQEALSSAAGILVDLFNPLKDISLEPTDTGSDI-----PDDPTAQIPI 248 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 EEL+LSVR+ NCL+ + + DL+ T+ D+L + NFG+KS E V+ + LG+ Sbjct: 249 EELQLSVRAYNCLKRAQVNSVADLLDYTQEDLLEIKNFGQKSAEE---VVEALQRRLGIT 305 Query: 321 LP 322 LP Sbjct: 306 LP 307 >gi|150036810|emb|CAM98038.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 235 Score = 176 bits (446), Expect = 5e-42, Method: Compositional matrix adjust. Identities = 98/235 (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 KHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 + ++ D 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|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 = 176 bits (446), Expect = 5e-42, Method: Compositional matrix adjust. Identities = 106/298 (35%), Positives = 168/298 (56%), Gaps = 18/298 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG T+GNALRRVL+S+L G AITAV+I GV HE ++I G+ ED+ +I+LN+ Sbjct: 23 FVLEPLDRGQGTTVGNALRRVLLSNLEGTAITAVRIAGVNHEFATIAGIREDVLEILLNM 82 Query: 90 KGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K + LK G RV I GP V + +D+E ++P I L A + ME Sbjct: 83 KEVVLKSYTPGPHIGRVMI--TGPSTVRSAQFDLPSDVEFVDPGQYIATLADGAKLEMEF 140 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + +G GY + R E + + +DA++ P+ KV+Y+VE R L+ D+L + + T Sbjct: 141 RIERGKGYRSVERGRDETSSVDFLQLDAVFMPVTKVNYSVEDTRVDGSLEKDRLILDVWT 200 Query: 208 DGSITGEDSVALASRILQDQLGMFINFE---EPKKEVKEDINVKSLPFNPALLKKVEELE 264 +GS++ +++++ A+ IL D + E EP +++ +P +EEL+ Sbjct: 201 NGSVSPQEALSQAANILVDLFNPLKDIELKPEPVGRPEDEDPTSQIP--------IEELQ 252 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E V+ + LG+ LP Sbjct: 253 LSVRAYNCLKRAQINSVADLLDYSQEDLLEIKNFGQKSAEE---VIDALQKRLGITLP 307 >gi|119662283|emb|CAJ33128.1| RNA polymerase alpha subunit [Lactobacillus antri] Length = 203 Score = 176 bits (446), Expect = 5e-42, Method: Compositional matrix adjust. Identities = 90/193 (46%), Positives = 137/193 (70%), Gaps = 2/193 (1%) Query: 52 MSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGP 111 ++SL GAAIT +QIDGVLHE S++KGV ED+T IILN+K ++LK++ + K + + +GP Sbjct: 1 IASLPGAAITTMQIDGVLHEFSTVKGVTEDVTQIILNLKKVSLKINSEDQKDLELDVKGP 60 Query: 112 GVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIG 169 VTAGDIQ +++ VLNPD I + A + +++T KG GY+ A + R E+ IG Sbjct: 61 AEVTAGDIQGDSEVSVLNPDLHIATVADGAELHIKMTADKGRGYLSANDNKARMEDLAIG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 ++ ID++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGSIT ++V+L ++IL + L Sbjct: 121 VLPIDSIYTPIERVNYTVENARVGQRSDYDKLTLDVWTDGSITPTEAVSLGAKILTEHLA 180 Query: 230 MFINFEEPKKEVK 242 MF+N E + + Sbjct: 181 MFVNLTETAQNAQ 193 >gi|150036778|emb|CAM98268.1| DNA-directed RNA polymerase alpha chain [Fructobacillus fructosus KCTC 3544] Length = 206 Score = 176 bits (445), Expect = 5e-42, Method: Compositional matrix adjust. Identities = 93/206 (45%), 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 SKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GY A+ ++ D 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|34849417|gb|AAP58916.1| DNA-directed RNA polymerase alpha subunit [Spiroplasma kunkelii CR2-3x] Length = 317 Score = 176 bits (445), Expect = 6e-42, Method: Compositional matrix adjust. Identities = 108/316 (34%), Positives = 177/316 (56%), Gaps = 10/316 (3%) Query: 6 WQELIKPNNIEYIVLGQEEENRT-LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 ++ I+P E+ + +++ N + EPL RGF TLGNA+RR L+S+ GAA+ AV+ Sbjct: 1 MKQFIRP---EFKLQAEDKANNYGKFLVEPLERGFGVTLGNAIRRTLLSATPGAAVFAVR 57 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-----SHKRVTIFKRGPGVVTAGDI 119 I G HE ++I GV E +T IILNIK + LK++ D + +F G + A D+ Sbjct: 58 IKGSSHEFTAIPGVVEHVTKIILNIKNLVLKINQDIIPDGESVILKVFSSKEGEIYARDL 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 +EV+N D ++ + + +EL GY ++ E LI ID+ Y P Sbjct: 118 VVPTGVEVINGDLLLATIAKGGELDLELHARNSRGYKSFTDNKKEKKYADLIVIDSNYCP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I++V+Y VE + G+ D +KL + I TD SIT ++VA+A++++ + L F+N E K Sbjct: 178 IQRVAYNVEPTKVGKNADLEKLELEIQTDSSITPVNAVAMAAKVITEHLEFFVNLNEAIK 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + I+ ++ L + ++ELE + RS NCL+ I + DL+ ++E ++ + N G Sbjct: 238 -ATQIISSEAEAEEDELDRSIDELEFTQRSQNCLKRAKIDTLRDLVSKSEDEIQEIRNLG 296 Query: 300 RKSLVEIKGVLGTMGL 315 +KSL EIK + +GL Sbjct: 297 KKSLTEIKDKVAQLGL 312 >gi|119662835|emb|CAJ33210.1| RNA polymerase alpha subunit [Lactobacillus rossiae] Length = 173 Score = 176 bits (445), Expect = 6e-42, Method: Compositional matrix adjust. Identities = 87/173 (50%), Positives = 124/173 (71%), Gaps = 2/173 (1%) Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 QIDGVLHE S+++GV ED+T IILN+K ++LKM+ D K + I +GP VTAGDIQT Sbjct: 1 QIDGVLHEFSTVEGVVEDVTQIILNMKKVSLKMATDEEKGMDIDVKGPATVTAGDIQTDA 60 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIK 181 D+EV+NPD IC + A M LT +KG GYV A ++ D PIG++ ID++Y+PI+ Sbjct: 61 DVEVMNPDLYICTVADGATFHMHLTANKGRGYVSADENKARQDDMPIGVLPIDSIYTPIE 120 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 +V+Y VE+ R GQ DYDKL++ + TDGSIT ++++LA++IL + L MF++ Sbjct: 121 RVNYQVENTRVGQRDDYDKLTLDVWTDGSITPSEAISLAAKILTEHLAMFVDL 173 >gi|154424797|emb|CAL18501.1| RNA polymerase alpha subunit [Streptococcus gordonii] Length = 194 Score = 176 bits (445), Expect = 6e-42, Method: Compositional matrix adjust. Identities = 86/192 (44%), Positives = 131/192 (68%) 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 QDQLGMFINFEE 236 + L +F + E Sbjct: 181 TEHLDLFTDLTE 192 >gi|150187089|emb|CAK30168.1| RNA polymerase alpha subunit [Streptococcus alactolyticus] Length = 202 Score = 176 bits (445), Expect = 6e-42, Method: Compositional matrix adjust. Identities = 87/195 (44%), Positives = 135/195 (69%) 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 QDQLGMFINFEEPKK 239 + L +F + E K Sbjct: 181 IEHLNLFTDLTEVAK 195 >gi|119662825|emb|CAJ33205.1| RNA polymerase alpha subunit [Lactobacillus fermentum] Length = 190 Score = 175 bits (444), Expect = 7e-42, Method: Compositional matrix adjust. Identities = 90/190 (47%), Positives = 135/190 (71%), 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 GYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A ++T 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|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 = 175 bits (444), Expect = 7e-42, Method: Compositional matrix adjust. 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|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 = 175 bits (444), Expect = 8e-42, Method: Compositional matrix adjust. Identities = 102/280 (36%), Positives = 162/280 (57%), Gaps = 10/280 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG T+GNALRRVL+++L G A+TA++I GV HE ++I GV ED+ +IILN+ Sbjct: 23 FVLEPLERGQGITVGNALRRVLLANLEGTAVTAIRIGGVNHEFATIPGVREDVLEIILNM 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK D + + G VTA +++E++NP I L A + ME + Sbjct: 83 KEIVLKSHTDQIQIGRLVAVGAAHVTAAQFDLPSEVEIINPTQPIATLTDGAKLEMEFRI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYVP + + + + + IDA++ P+ KV+Y+VE+ R + D L + I T+G Sbjct: 143 EKGMGYVPVERGKEKQGALDFLQIDAVFMPVTKVNYSVENIRGERNEVKDSLMLEIWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKE-DINVKSLP--FNPALLKKVEELELS 266 S+ +++++ A+ +L +N P K + + + V P NP +EEL+LS Sbjct: 203 SVNPKEALSQATEVL-------VNLFSPLKNINQIETVVPEYPDEENPQSQIPIEELQLS 255 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 VR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ Sbjct: 256 VRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEEV 295 >gi|150187139|emb|CAK30179.1| RNA polymerase alpha subunit [Streptococcus peroris ATCC 700780] Length = 181 Score = 175 bits (444), Expect = 8e-42, Method: Compositional matrix adjust. 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|315451273|gb|ADU24721.1| RNA polymerase alpha subunit [Lactobacillus sp. YM 0097] Length = 212 Score = 175 bits (444), Expect = 8e-42, Method: Compositional matrix adjust. Identities = 81/195 (41%), Positives = 134/195 (68%) 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 QDQLGMFINFEEPKK 239 + L F+N E K Sbjct: 181 TEHLNSFVNLTEEAK 195 >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 = 175 bits (444), Expect = 8e-42, Method: Compositional matrix adjust. Identities = 111/324 (34%), Positives = 173/324 (53%), Gaps = 39/324 (12%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ T+GN +RR+LMSS+ G A+T+V I+ VLHE S+I GV ED+ +ILN+ Sbjct: 19 FVLEPLARGYGVTIGNPIRRILMSSIPGTAVTSVYIEDVLHEFSTIPGVREDVIRLILNL 78 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + +K K +T+ +G G V A + D E++NPD VI NL D + ME+ V Sbjct: 79 KELVVKFHAPGPKTLTLRAQGEGEVRASAFEVPTDAEIVNPDLVIANLAEDGKLVMEVRV 138 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYV A H T+ D I I +DA++SP+++V+Y VE+ R GQ D D+L + + TDG Sbjct: 139 EEGEGYVSADKHATK-DRINSIPVDAMFSPVRRVAYHVENTRVGQQTDLDRLILRVWTDG 197 Query: 210 SITGEDSVALASRILQDQLGMFIN-------------------------------FEEPK 238 S ++++ A IL+D+L +F N ++ P+ Sbjct: 198 SAGPQEALDKAVEILRDELSVFGNVEPMPALESSYAAATPAAVYDPATATLPASVYDSPR 257 Query: 239 KEVKEDINVKSLPF-----NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 + +++ PF P + +E L L+ R + L+ E I + L ++ D+ Sbjct: 258 QPDLGSLSINPQPFPTDQDTPRV--TLEGLGLTTRVLHSLKEEGIDSVDALCALSDRDLK 315 Query: 294 RMANFGRKSLVEIKGVLGTMGLFL 317 ++ G +SL EIK L GL L Sbjct: 316 KVPGIGERSLDEIKQQLAQFGLAL 339 >gi|213612397|ref|ZP_03370223.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] Length = 195 Score = 175 bits (444), Expect = 8e-42, Method: Compositional matrix adjust. Identities = 87/191 (45%), Positives = 129/191 (67%), Gaps = 8/191 (4%) Query: 143 VRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M + V +G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D D Sbjct: 6 ISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLD 65 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLK 258 KL + ++T+G+I E+++ A+ IL +QL F++ + ++ EVKE+ F+P LL+ Sbjct: 66 KLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKEE----KPEFDPILLR 121 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 122 PVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 181 Query: 319 MNLPDWPPESI 329 M L +WPP SI Sbjct: 182 MRLENWPPASI 192 >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 = 175 bits (443), Expect = 9e-42, Method: Compositional matrix adjust. Identities = 113/315 (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+ D I I +DA+++P+++V+Y VE+ R G+ D DKL + Sbjct: 133 VMEVRVEEGEGYVPADKHATK-DRINSIPVDAMFNPVRRVAYHVENTRVGRQTDLDKLIL 191 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEE-------------PKKEVKEDINVKSL 250 I TDGS + +D + A IL+++L +F + EE + V+ + V Sbjct: 192 RIWTDGSASPQDVLDQAIDILREELLVFGSVEELEDSESSALDYTISAETVQPEAEVAPE 251 Query: 251 PFNPALLK--------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 PA +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|119662821|emb|CAJ33203.1| RNA polymerase alpha subunit [Lactobacillus parakefiri] Length = 203 Score = 175 bits (443), Expect = 9e-42, Method: Compositional matrix adjust. Identities = 95/192 (49%), Positives = 132/192 (68%), Gaps = 4/192 (2%) 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 LGMFINFEEPKK 239 L MF++ + K Sbjct: 181 LEMFVDLTDEAK 192 >gi|150186942|emb|CAK30133.1| RNA polymerase alpha subunit [Streptococcus canis] Length = 204 Score = 175 bits (443), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 86/194 (44%), Positives = 135/194 (69%) 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 DQLGMFINFEEPKK 239 + L +F + + K Sbjct: 181 EHLNLFTDLTDVAK 194 >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 = 174 bits (442), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 110/295 (37%), Positives = 168/295 (56%), Gaps = 10/295 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN +RR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ +ILN+ Sbjct: 22 FVLEPLERGFGVTLGNPIRRILLSSIPGTAVTSVYIEDVLHEFSTINGVKEDVVQLILNL 81 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + +K K +T+ +GP V A D++ D EV+NPD + L A + ME+ V Sbjct: 82 KELVVKFHTPGSKTLTLRAQGPRSVYARDLEVPADAEVVNPDLYLATLGEGARLVMEVRV 141 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GYVPA+ H + D I I +DAL+SP+++V++ VE R GQ D DKL++ I TDG Sbjct: 142 DEGVGYVPAEKHGIK-DRISSIPVDALFSPVRRVAFQVEDTRLGQRTDLDKLTLRIWTDG 200 Query: 210 SITGEDSVALASRILQDQLGMF-----INFEEPKKEVKEDINVKSLPFNPALLK----KV 260 S++ + + + IL++QL F I E+ K S A + Sbjct: 201 SVSPMEVLQRSVAILREQLSFFDQSPVIRVEKEKPAPVAAAPAPSPATPAAAAVSTGLTL 260 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 ++L L+ R + L+ E I + L+ +E ++ ++ G +SL EIK +L GL Sbjct: 261 DDLGLTTRVLHNLKEEGIESVESLLALSERELKKVPGIGERSLQEIKDILAQHGL 315 >gi|150187039|emb|CAK30157.1| RNA polymerase alpha subunit [Streptococcus agalactiae ATCC 13813] Length = 188 Score = 174 bits (442), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 84/187 (44%), Positives = 133/187 (71%) 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 QDQLGMF 231 + L +F Sbjct: 181 IEHLNLF 187 >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 = 174 bits (442), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 111/305 (36%), Positives = 174/305 (57%), Gaps = 21/305 (6%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI--DGVLHEISSIKGVHEDLTDIILN 88 + PL +G+A T+GN LRRVL+SS+ AIT V+ HE +I+GV ED+ +I+LN Sbjct: 26 VLSPLEKGYATTIGNTLRRVLLSSIPSLAITDVKFVRPEKYHEFDTIEGVKEDILEILLN 85 Query: 89 IKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 +K + L M + +TI +G G + AGDI + V NP+ I L+ DA + ++ Sbjct: 86 LKKVQLSMEDYVEDPVELTIQHKGAGEIKAGDIIVPAGVSVTNPNLHIATLNEDADLEIK 145 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 L + G G+VPA R E IG I +D +Y+P+ KV++ E+ R G+ DYDKL + I Sbjct: 146 LYATIGKGFVPAAE-RNEKPDIGWIVLDGVYNPVLKVNWIAENVRVGKKTDYDKLVLEIW 204 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV------------KSLPFNP 254 T +I D++ A +I+ D F EE E E+ ++ + + N Sbjct: 205 TKKNIKPSDALKKAVKIINDH---FRIIEESFGEFDEENDIAEVSEVSTVEEEEVVDEND 261 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK-GVLGTM 313 L +K++EL+LS+R+ NCL+ + I +GDL+ R E ++L++ NFG+KSL E+K ++ Sbjct: 262 ILSRKIDELDLSMRALNCLKRDKIETIGDLLSRGEEELLKIKNFGQKSLDEVKEKLMEKF 321 Query: 314 GLFLG 318 GL G Sbjct: 322 GLSFG 326 >gi|150187098|emb|CAK30170.1| RNA polymerase alpha subunit [Streptococcus criceti] Length = 181 Score = 174 bits (442), Expect = 1e-41, Method: Compositional matrix adjust. 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|150036760|emb|CAM98030.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 223 Score = 174 bits (442), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 90/205 (43%), Positives = 133/205 (64%), Gaps = 2/205 (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 AKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 A ++ D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D Sbjct: 121 ADENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGARDDYDKLTFDIWTNGSIKPSD 180 Query: 216 SVALASRILQDQLGMFINFEEPKKE 240 +++L ++IL + L +F++ E Sbjct: 181 ALSLGAKILAEHLNLFMDISPVAAE 205 >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 = 174 bits (442), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 111/309 (35%), Positives = 171/309 (55%), Gaps = 14/309 (4%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ V + +I PL RG A TLGNALRRVL+ L G+AITAV+I GV HE Sbjct: 7 DRIEHHVAEDRAQTGVFLIG-PLDRGQATTLGNALRRVLIGGLEGSAITAVRISGVNHEY 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 GQVLDY-DKLSMTIDTDGSITGEDSVALASR---ILQDQLGMFINFEEPKKEVKEDINVK 248 G+ ++L + I+T+GSIT +D++A A+ L L EEP +E + + Sbjct: 186 GEGGSARERLRLEIETNGSITPDDAMAQAANQLIALFQPLATLSVVEEPGQEPEPSAEAQ 245 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 +P EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ Sbjct: 246 -IPL--------EELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIE 296 Query: 309 VLGTMGLFL 317 L +G+ L Sbjct: 297 ALERIGITL 305 >gi|72534423|emb|CAH59047.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 190 Score = 174 bits (441), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 87/182 (47%), Positives = 125/182 (68%) 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 KK 239 K Sbjct: 181 AK 182 >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 = 174 bits (441), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 104/302 (34%), Positives = 171/302 (56%), Gaps = 12/302 (3%) Query: 24 EENRT---LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 EE+R+ + EPL RG T+GNALRRVL+S+L G A+TAV+IDGV HE +++ GV E Sbjct: 14 EESRSHYSKFVLEPLERGQGITVGNALRRVLLSNLEGTAVTAVRIDGVSHEFATVPGVRE 73 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 D+ +I++ +K + LK + + GP VTA +++EV++P + + Sbjct: 74 DVLEILMRMKEVILKNYSSQPQIGRLLVNGPVTVTAAHFDLPSEVEVIDPTQYVATIADG 133 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + ME + +G GY + R E + + ID+++ P++KV+Y+VE AR L D+ Sbjct: 134 GKLEMEFRIERGKGYRTVERGREEATSLDFLQIDSVFMPVRKVNYSVEEARGDGSLK-DR 192 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + + T+GSI+ +++++ A+ IL D + + DI P +P + Sbjct: 193 LLLEVWTNGSISPQEALSSAAGILVDLFNPLKDISLEPTDTGSDI-----PDDPTAQIPI 247 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 EEL+LSVR+ NCL+ + + DL+ T+ D+L + NFG+KS E V+ + LG+ Sbjct: 248 EELQLSVRAYNCLKRAQVNSVADLLDYTQEDLLEIKNFGQKSAEE---VVEALQRRLGIT 304 Query: 321 LP 322 LP Sbjct: 305 LP 306 >gi|110004254|emb|CAK98592.1| probable dna-directed rna polymerase alpha chain protein [Spiroplasma citri] Length = 317 Score = 174 bits (440), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 107/316 (33%), Positives = 176/316 (55%), Gaps = 10/316 (3%) Query: 6 WQELIKPNNIEYIVLGQEEENRT-LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 ++ I+P E+ + +++ N + EPL RGF TLGNA+RR L+S+ GAA+ AV+ Sbjct: 1 MKQFIRP---EFKLQAEDKANNYGKFLVEPLERGFGVTLGNAIRRTLLSATPGAAVFAVR 57 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-----SHKRVTIFKRGPGVVTAGDI 119 I G HE ++I GV E +T IILNIK + LK++ D + + G + A D+ Sbjct: 58 IKGASHEFTAIPGVVEHVTKIILNIKNLVLKINQDIIPDGESVILKVVSSKEGEIYARDL 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 +EV+N D ++ + + +EL GY ++ E LI ID+ Y P Sbjct: 118 VVPTGVEVINGDLLLATIAKGGELDLELYARNSRGYKSFTDNKKEKKYADLIVIDSNYCP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I++V+Y VE + G+ D +KL + I TD SIT ++VA+A++++ + L F+N E K Sbjct: 178 IQRVAYNVEPTKVGKNADLEKLELEIQTDSSITPVNAVAMAAKVITEHLEFFVNLNEAIK 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + I+ ++ L + ++ELE + RS NCL+ I + DL+ ++E ++ + N G Sbjct: 238 -ATQIISSEAEAEEDELERSIDELEFTQRSQNCLKRAKIDTLRDLVSKSEDEIQEIRNLG 296 Query: 300 RKSLVEIKGVLGTMGL 315 +KSL EIK + +GL Sbjct: 297 KKSLTEIKDKVAQLGL 312 >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 = 174 bits (440), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 105/301 (34%), Positives = 166/301 (55%), Gaps = 15/301 (4%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 EN +IA P G+A TL + LRR+L +S G A TAV+I+GV HE S++G+ ED+ Sbjct: 12 ENVAKIIAYPFETGYAVTLAHPLRRLLYTSTVGFAPTAVKIEGVSHEFDSMRGMLEDMAA 71 Query: 85 IILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 I+N+KG+ K+ GDS + V + +GP + D+ + +E++NP + ++ DA + Sbjct: 72 FIINLKGLRFKIKGDSLREVVEYSFKGPKEIYGSDLNN-DAVEIVNPSAYLATINEDADL 130 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 + L + KG GYVP++ R EN I +DA ++P+ K Y +E+ DY+K+ Sbjct: 131 KFTLIIEKGIGYVPSEEIR-ENLDADFIALDAFFTPVTKAVYDIENVFVEDNPDYEKVVF 189 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMF---INFEEPKKEVKEDINVKSLPFN---PALL 257 TI TDG I+ D+ A + QL +F +N D +++P N L Sbjct: 190 TITTDGQISAIDAFKNALEAMYQQLAVFKGIVNISAA------DTFGRAIPANSEFAKLF 243 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + V L LS RS NCL +I ++G+L E+++ + N G+KSL EIK V+ +G + Sbjct: 244 ESVSNLSLSARSFNCLDRADIRFIGELAIMEESELKDLKNLGKKSLEEIKAVMEEIGYPI 303 Query: 318 G 318 G Sbjct: 304 G 304 >gi|119668347|emb|CAK95470.1| RNA polymerase alpha subunit [Lactobacillus paracasei subsp. paracasei] Length = 180 Score = 174 bits (440), Expect = 2e-41, Method: Compositional matrix adjust. 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|154424839|emb|CAL18522.1| RNA polymerase alpha subunit [Streptococcus pluranimalium] Length = 203 Score = 174 bits (440), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 85/196 (43%), Positives = 135/196 (68%) 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 LQDQLGMFINFEEPKK 239 L + L +F + E K Sbjct: 181 LIEHLNLFTDLTEVAK 196 >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 = 173 bits (439), Expect = 3e-41, Method: Compositional matrix adjust. Identities = 102/314 (32%), Positives = 172/314 (54%), Gaps = 23/314 (7%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 + +I PL RG+ T+GNALRRVL+SS++GA +TAV+++G LHE +++ GV ED+ ++ Sbjct: 13 TKARLIIGPLERGYGVTIGNALRRVLLSSIKGAGVTAVRVEGALHEFTTLPGVREDIIEL 72 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 LN+K I ++ + + + GP VT DIQ ++IE ++P+ IC L + M Sbjct: 73 QLNLKHIPVRSHSVEVRVLRLEATGPKKVTVADIQPDSEIEFIDPNFYICTLAEGHSISM 132 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 EL + +G GY A R + P+ + +D ++PI +V Y V++ R G DY+K+ M I Sbjct: 133 ELYIEQGVGYATADRPRPDYLPVDALMVDPNFAPISRVKYDVQAERVGHKTDYEKVVMDI 192 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF------------- 252 ++G I + +VA A+++L++ + + +E K + + P Sbjct: 193 YSNGVIAPDMAVAEAAKLLREYFSIVV--KEILKRYPASAEMAASPVEMEQEQPSLGQAI 250 Query: 253 --------NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 N L V +LELS+RS NCL I +G+L+ R++ ++L++ N G+ SL Sbjct: 251 VHSDDGAENSLLGHGVRDLELSIRSENCLLRGGIHTIGELVSRSKEELLKIRNLGKISLR 310 Query: 305 EIKGVLGTMGLFLG 318 EI+ + L L Sbjct: 311 EIEEKMAKYNLSLA 324 >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 = 173 bits (439), Expect = 3e-41, Method: Compositional matrix adjust. Identities = 108/327 (33%), Positives = 184/327 (56%), Gaps = 20/327 (6%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI- 65 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKIN 60 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVND 124 DG + + + E + DIILN+K +++ ++ D F+ G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLSVTLAEDVETGTITFELSGSEEEIFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG G+ PA+ +N G +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQ----DNFKDGEFLLDATFSPVVFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK----E 240 + ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K E Sbjct: 177 FEIKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGIFVE 236 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +DIN P LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+ Sbjct: 237 DPKDIN-------PILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGK 289 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPE 327 KSL EIK L +GL LG + +WP + Sbjct: 290 KSLTEIKDKLSELGLSLGTLIENWPQD 316 >gi|150036834|emb|CAM98282.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax] Length = 228 Score = 173 bits (439), Expect = 3e-41, Method: Compositional matrix adjust. Identities = 93/226 (41%), Positives = 143/226 (63%), Gaps = 2/226 (0%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T +ILN+K + L + D Sbjct: 3 TLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQLILNLKKVVLAIDSDEE 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + I +GP VTA D+Q DIEVLNP+ + + + M +T KG GY A + Sbjct: 63 KSLEIDVQGPAEVTAADLQGSADIEVLNPELHLATVAAGKSLHMTVTAVKGRGYSSADEN 122 Query: 162 RTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 + D PIG++ +D++Y+PI++V+Y VE+ R GQ DYDKL+ I T+GSI D+++L Sbjct: 123 KQLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGQRDDYDKLTFDIWTNGSIKPSDALSL 182 Query: 220 ASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 ++IL + L +F + E + ++V+ + +E+L+L Sbjct: 183 GAKILSEHLNLFTDISSVAAETEVMVDVEQTVSSVQDSAPIEDLDL 228 >gi|150036798|emb|CAM98035.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax] Length = 208 Score = 173 bits (439), Expect = 3e-41, Method: Compositional matrix adjust. Identities = 89/206 (43%), Positives = 133/206 (64%), Gaps = 2/206 (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 KHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ D PIG++ +D++Y+PI++V+Y VE+ R GQ DYDKL+ I T+GSI D+ Sbjct: 121 DENKQLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGQRDDYDKLTFDIWTNGSIKPSDA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVK 242 ++L ++IL + L +F + E + Sbjct: 181 LSLGAKILSEHLNLFTDISSVAAETE 206 >gi|71056848|emb|CAH58979.1| DNA-directed RNA polymerase alpha chain [Enterococcus haemoperoxidus] Length = 199 Score = 173 bits (439), Expect = 3e-41, Method: Compositional matrix adjust. Identities = 84/180 (46%), Positives = 126/180 (70%) 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 >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 = 173 bits (438), Expect = 3e-41, Method: Compositional matrix adjust. Identities = 106/321 (33%), Positives = 182/321 (56%), Gaps = 11/321 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI- 65 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKIN 60 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVND 124 DG + + + E + DIILN+K + + ++ G +T G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLPVTLAEGVETGTITFELSGSEEEIFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG G+ PA+ + E G +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQDNFKE----GEFLLDATFSPVVFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + + Sbjct: 177 FEIKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGIFVE 236 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 K + NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL Sbjct: 237 DPTKDI--NPILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLT 294 Query: 305 EIKGVLGTMGLFLGMNLPDWP 325 EIK L +GL LG + +WP Sbjct: 295 EIKDKLSELGLSLGTLIENWP 315 >gi|154424761|emb|CAL18483.1| RNA polymerase alpha subunit [Streptococcus equinus] Length = 183 Score = 173 bits (438), Expect = 4e-41, Method: Compositional matrix adjust. Identities = 85/180 (47%), Positives = 129/180 (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 >gi|154424829|emb|CAL18517.1| RNA polymerase alpha subunit [Streptococcus alactolyticus] Length = 200 Score = 173 bits (438), Expect = 4e-41, Method: Compositional matrix adjust. Identities = 86/193 (44%), Positives = 133/193 (68%) 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 QLGMFINFEEPKK 239 L +F + E K Sbjct: 181 HLNLFTDLTEVAK 193 >gi|150036838|emb|CAM98284.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis] Length = 228 Score = 173 bits (438), Expect = 4e-41, Method: Compositional matrix adjust. Identities = 92/226 (40%), Positives = 142/226 (62%), Gaps = 2/226 (0%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D Sbjct: 3 TLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDE 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 + + I +GP VTA D+Q D+EVLNPD I + + M +T KG GY A + Sbjct: 63 RSLEIDVQGPAEVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYSSADEN 122 Query: 162 RT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 + E PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L Sbjct: 123 KQLREEMPIGVLAVDSIYTPIERVNYHVENTRVGARDDYDKLTFDIWTNGSIKPSDALSL 182 Query: 220 ASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 ++IL + L +F++ E + + + + + +E+L+L Sbjct: 183 GAKILAEHLNLFMDISPVAAEANVMVEAEPVAVSASDSAPIEDLDL 228 >gi|255027946|ref|ZP_05299932.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes FSL J2-003] Length = 219 Score = 173 bits (438), Expect = 4e-41, Method: Compositional matrix adjust. 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|150036816|emb|CAM98278.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax] Length = 220 Score = 172 bits (437), Expect = 5e-41, Method: Compositional matrix adjust. Identities = 90/209 (43%), Positives = 136/209 (65%), Gaps = 2/209 (0%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T +ILN+K + L + D Sbjct: 3 TLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQLILNLKKVVLAIDSDEE 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + I +GP VTA D+Q DIEVLNP+ + + + M +T KG GY A + Sbjct: 63 KSLEIDVQGPAEVTAADLQGSADIEVLNPELHLATVAAGKSLHMTVTAVKGRGYSSADEN 122 Query: 162 RTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 + D PIG++ +D++Y+PI++V+Y VE+ R GQ DYDKL+ I T+GSI D+++L Sbjct: 123 KQLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGQRDDYDKLTFDIWTNGSIKPSDALSL 182 Query: 220 ASRILQDQLGMFINFEEPKKEVKEDINVK 248 ++IL + L +F + E + ++V+ Sbjct: 183 GAKILSEHLNLFTDISSVAAETEVMVDVE 211 >gi|150036774|emb|CAN89786.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gasicomitatum] Length = 219 Score = 172 bits (437), Expect = 5e-41, Method: Compositional matrix adjust. Identities = 89/204 (43%), Positives = 132/204 (64%), Gaps = 2/204 (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 KHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+ Sbjct: 121 DENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDA 180 Query: 217 VALASRILQDQLGMFINFEEPKKE 240 ++L S+IL + L +F++ E Sbjct: 181 LSLGSKILAEHLNLFMDISPVAAE 204 >gi|154424833|emb|CAL18519.1| RNA polymerase alpha subunit [Streptococcus parauberis] Length = 194 Score = 172 bits (437), Expect = 5e-41, Method: Compositional matrix adjust. Identities = 84/192 (43%), Positives = 133/192 (69%) 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 LGMFINFEEPKK 239 L +F + E K Sbjct: 181 LNLFTDLTEVAK 192 >gi|119672815|emb|CAK95519.1| RNA polymerase alpha subunit [Lactobacillus gasseri] Length = 165 Score = 172 bits (437), Expect = 6e-41, Method: Compositional matrix adjust. 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|150186960|emb|CAK30137.1| RNA polymerase alpha subunit [Streptococcus infantis ATCC 700779] Length = 173 Score = 172 bits (437), Expect = 6e-41, Method: Compositional matrix adjust. 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|150036740|emb|CAM98259.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. dextranicum] Length = 195 Score = 172 bits (436), Expect = 6e-41, Method: Compositional matrix adjust. Identities = 89/195 (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 KHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ D 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|154424855|emb|CAL18530.1| RNA polymerase alpha subunit [Streptococcus sanguinis] Length = 198 Score = 172 bits (436), Expect = 6e-41, Method: Compositional matrix adjust. Identities = 84/188 (44%), Positives = 127/188 (67%) 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 GMFINFEE 236 +F N E Sbjct: 181 NLFTNLTE 188 >gi|261886106|ref|ZP_06010145.1| DNA-directed RNA polymerase subunit alpha [Campylobacter fetus subsp. venerealis str. Azul-94] Length = 326 Score = 172 bits (436), Expect = 6e-41, Method: Compositional matrix adjust. Identities = 107/303 (35%), Positives = 171/303 (56%), Gaps = 16/303 (5%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 EN +IA P +A TL + LRR+L +S G A TAV+IDGV HE S++G+ ED+T Sbjct: 15 ENVAKIIAYPFETVYAVTLAHPLRRLLYTSTVGFAPTAVKIDGVAHEFDSMRGMLEDVTL 74 Query: 85 IILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDI-EVLNPDHVICNLDVDAV 142 I+N+K + K+ DS + V + +GP +T D+ NDI E++NPD + ++ DA Sbjct: 75 FIINLKNLRFKLKNDSKREVIEYSFKGPKEITGIDLN--NDIVEIVNPDSYLATINEDAE 132 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 ++ L V KG GYVP++ R D I +DA ++P+KK Y +E+ DY+K+ Sbjct: 133 LKFSLIVEKGIGYVPSEEIRDYIDS-EYIALDAFFTPVKKAVYEIENVLVEDNPDYEKIV 191 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV-----KSLPFNPALL 257 +++ TDG ++ ++ + + Q+ +F N + D+N+ ++ + LL Sbjct: 192 LSVSTDGQVSPIEAFKHSIEAMYKQMSIFNNV------LNIDVNMALTSSQNSNEHSKLL 245 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + VE L LS RS NCL +I Y+G+L E+++ + N G+KSL EIK V+ +G Sbjct: 246 ESVENLNLSARSFNCLDKADIRYIGELALMEESELKDLKNLGKKSLDEIKAVMAEIGYPF 305 Query: 318 GMN 320 G N Sbjct: 306 GEN 308 >gi|332178481|gb|AEE14170.1| DNA-directed RNA polymerase subunit alpha [Thermodesulfobium narugense DSM 14796] Length = 341 Score = 172 bits (436), Expect = 6e-41, Method: Compositional matrix adjust. Identities = 106/304 (34%), Positives = 178/304 (58%), Gaps = 18/304 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPLP G+ T+GNALRRVL++S+ G+A+ AV++D HE ++ G+ ED+ + LN+ Sbjct: 27 FVLEPLPPGYGATIGNALRRVLLTSIPGSAVIAVRVDDAPHEYMTLPGMVEDILEFHLNL 86 Query: 90 KGINLKMSGD----SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 K + + +S D +++ + +GP +V A DIQ +++++N D + L+ + +R Sbjct: 87 KKLVVVVSPDISEEETRKLILDVKGPKIVKASDIQPNAEVQIINKDLYLATLEENGELRA 146 Query: 146 ELTVSKGHGYVPAKHHRTENDPI--GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 E+TV KG GY+ + + + G I +DA + PI +V+Y+VES R GQ D+DKL Sbjct: 147 EITVKKGKGYISIEKMKENTRWLSPGSIPLDANFLPITRVNYSVESTRVGQETDWDKLIF 206 Query: 204 TIDTDGSITGEDSVALAS-------RILQDQLGMFINFEEP---KKEVKEDINVKSLPFN 253 I T+G+I +++ +A+ RI + G F++ E+P KE K+D ++S Sbjct: 207 EIWTNGAIEPVNALRIAAEDLISHFRIFA-EYGTFLDSEKPVSDYKETKKDSYLRSQA-K 264 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 L + +EE+ L R N L+ I +GDLI +T D+L + +FG+KSL E++ +L Sbjct: 265 MDLEQSIEEIGLQTRIANVLKRSGISTLGDLISKTREDILNVPSFGKKSLDELEEILHAK 324 Query: 314 GLFL 317 G L Sbjct: 325 GYRL 328 >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 = 172 bits (436), Expect = 7e-41, Method: Compositional matrix adjust. Identities = 106/327 (32%), Positives = 185/327 (56%), Gaps = 20/327 (6%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI- 65 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKIN 60 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVND 124 DG + + + E + DIILN+K +++ ++ D F+ G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLSVTLAEDVETGTITFELSGSEEEIFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG G+ PA+ + + + + +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQDNFKDCEFL----LDATFSPVVFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK----E 240 + ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K E Sbjct: 177 FEIKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGIFVE 236 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +DIN P LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+ Sbjct: 237 DPKDIN-------PILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGK 289 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPE 327 KSL EIK L +GL LG + +WP + Sbjct: 290 KSLTEIKDKLSELGLSLGTLIENWPQD 316 >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 = 172 bits (436), Expect = 7e-41, Method: Compositional matrix adjust. Identities = 105/321 (32%), Positives = 182/321 (56%), Gaps = 11/321 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI- 65 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+V+I Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGYALKQTMLYSIHGACVTSVKIN 60 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVND 124 DG + + + E + DIILN+K + + ++ V F+ G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLPVTLAEGVDTGVITFELSGSEEEVFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG GY A+ + + + +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGIGYRQAQENFKNEEFL----LDAAFSPVSFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y ++ AR G+ D DKL + I T+G+++ E+++ +A+ +Q+QL ++ EE K + + Sbjct: 177 YEIKDARVGRRTDLDKLELNIKTNGNVSCEEALRIAATKIQNQLRNIVDVEEINKGIFVE 236 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 K + NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL Sbjct: 237 DPTKDI--NPLLLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLT 294 Query: 305 EIKGVLGTMGLFLGMNLPDWP 325 EIK L +GL LG + +WP Sbjct: 295 EIKDKLSELGLSLGTMIDNWP 315 >gi|86438816|emb|CAJ43373.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 203 Score = 172 bits (436), Expect = 7e-41, Method: Compositional matrix adjust. Identities = 85/184 (46%), Positives = 123/184 (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 LGMF 231 +F Sbjct: 181 FKVF 184 >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 = 172 bits (435), Expect = 8e-41, Method: Compositional matrix adjust. Identities = 103/304 (33%), Positives = 170/304 (55%), Gaps = 16/304 (5%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EE N I EPL RGF T+GN + R L++S+ G I ++ G + + + G+ ED+ Sbjct: 21 EENNTGSYIFEPLERGFGITIGNTICRTLLTSVPGTRIVGFKVSGFDGKATMVDGILEDI 80 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 I LN+K + L G+ + + I K+GP + A DI +EV++P+ VIC L+ A Sbjct: 81 YRISLNLKAVQLYNDGEGFQTLHISKKGPATIQAADIICPEAVEVVDPEQVICTLEKGAS 140 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIG--LITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + ME+ G GY + ++ D G ++ +DA ++PI+K Y E AR G YDK Sbjct: 141 LEMEIYAVTGTGYKSSIENKVSYD-FGEDVVVLDATFTPIRKADYLSEPARVGLDKKYDK 199 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL--LK 258 + + ++TDG+IT ++ +A+++ + L + + E++E V+ P + +K Sbjct: 200 VHINVETDGTITPLQAITMAAKVCMENLDEVLTVSDL--ELEESFMVQ----KPQVEDVK 253 Query: 259 KV-----EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 KV E+L+LSVRS NCL+ I + +L Q+TE +M+ + N G+KSL E+K + + Sbjct: 254 KVNTMMIEDLDLSVRSYNCLKRAGIQTVDELTQKTEDEMMHVKNLGKKSLKEVKDKMYQL 313 Query: 314 GLFL 317 GLF Sbjct: 314 GLFF 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 = 172 bits (435), Expect = 8e-41, Method: Compositional matrix adjust. Identities = 106/321 (33%), Positives = 182/321 (56%), Gaps = 11/321 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI- 65 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKIN 60 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVND 124 DG + + + E + DIILN+K + + ++ G +T G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLPVTLAEGVETGTITFELSGSEEEIFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG G+ PA+ +N G +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQ----DNFKDGEFLLDATFSPVVFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + + Sbjct: 177 FEIKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGIFVE 236 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 K + NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL Sbjct: 237 DPTKDI--NPILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLT 294 Query: 305 EIKGVLGTMGLFLGMNLPDWP 325 EIK L +GL LG + +WP Sbjct: 295 EIKDKLSELGLSLGTLIENWP 315 >gi|119668307|emb|CAK95506.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. delbrueckii] Length = 209 Score = 172 bits (435), Expect = 8e-41, Method: Compositional matrix adjust. Identities = 86/194 (44%), Positives = 126/194 (64%) 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 ALASRILQDQLGMF 231 A+R+L + F Sbjct: 181 NFAARVLVEHFKAF 194 >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 = 172 bits (435), Expect = 8e-41, Method: Compositional matrix adjust. Identities = 85/184 (46%), Positives = 123/184 (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 LGMF 231 +F Sbjct: 181 FKVF 184 >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 = 172 bits (435), Expect = 9e-41, Method: Compositional matrix adjust. Identities = 108/325 (33%), Positives = 182/325 (56%), Gaps = 20/325 (6%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI- 65 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKIN 60 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVND 124 DG + + + E + DIILN+K + + ++ D F+ G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLPVTLAEDVEMGTITFELSGSEEEIFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG G+ PA+ +N G +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQ----DNFKDGEFLLDATFSPVVFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK----E 240 + ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K E Sbjct: 177 FEIKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGIFVE 236 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +DIN P LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+ Sbjct: 237 DPKDIN-------PILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGK 289 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL EIK L +GL LG + +WP Sbjct: 290 KSLTEIKDKLSELGLSLGTLIENWP 314 >gi|150036772|emb|CAN89785.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gasicomitatum LMG 18811] Length = 203 Score = 172 bits (435), Expect = 9e-41, Method: Compositional matrix adjust. Identities = 88/198 (44%), Positives = 131/198 (66%), Gaps = 2/198 (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 KHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+ Sbjct: 121 DENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDA 180 Query: 217 VALASRILQDQLGMFINF 234 ++L S+IL + L +F++ Sbjct: 181 LSLGSKILAEHLNLFMDI 198 >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 = 172 bits (435), Expect = 9e-41, Method: Compositional matrix adjust. Identities = 106/321 (33%), Positives = 182/321 (56%), Gaps = 11/321 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI- 65 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKIN 60 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVND 124 DG + + + E + DIILN+K + + ++ G +T G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLPVTLAEGVETGTITFELSGSEEEIFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG G+ PA+ +N G +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQ----DNFKNGEFLLDATFSPVVFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + + Sbjct: 177 FEIKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGIFVE 236 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 K + NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL Sbjct: 237 DPTKDI--NPILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLT 294 Query: 305 EIKGVLGTMGLFLGMNLPDWP 325 EIK L +GL LG + +WP Sbjct: 295 EIKDKLSELGLSLGTLIENWP 315 >gi|150036784|emb|CAM98269.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis] Length = 211 Score = 171 bits (434), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 89/204 (43%), Positives = 132/204 (64%), Gaps = 2/204 (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 VALASRILQDQLGMFINFEEPKKE 240 ++L ++IL + L +F++ E Sbjct: 181 LSLGAKILAEHLNLFMDISPVAAE 204 >gi|119668327|emb|CAK95463.1| RNA polymerase alpha subunit [Lactobacillus hilgardii] Length = 198 Score = 171 bits (434), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 94/193 (48%), Positives = 132/193 (68%), Gaps = 4/193 (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 QLGMFINFEEPKK 239 L MF++ + K Sbjct: 181 HLEMFVDLTDEAK 193 >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 = 171 bits (434), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 106/292 (36%), Positives = 167/292 (57%), Gaps = 11/292 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I + L + T+GN LRRVL+SSL GA I V+I GV HE S+I GV+ED+ I+LN+ Sbjct: 25 FIIQNLEPSYGVTIGNPLRRVLLSSLPGAGIVYVEIKGVDHEFSTIPGVYEDVMSIVLNL 84 Query: 90 KGINLKMSG---DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRM 145 K + + + D + + +F G VTA + V I+++NP+ I NL +A ++M Sbjct: 85 KQVVISVDSIDDDFEQEMELFVTGKQKVTASCFEQVEGIKIINPEQEIANLVSENASLKM 144 Query: 146 ELTVSKGHGYVPAKHHRT-ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 + + +G GYV A+ ++ GLI+ID LY+P+ KVSY +E ++ D ++L++ Sbjct: 145 TVLIKRGIGYVSAEENKIYTKKKKGLISIDTLYTPVSKVSYDIEK----KLGDKEELAIE 200 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN-VKSLPFNPALLKKVEEL 263 I T+ S T +D++ AS+IL D N E K ++ K LP N +L ++++L Sbjct: 201 ITTNKSTTAKDALTTASKILFDHFSFLANLNEKKDQISFIYKPKKELP-NKSLELRIDQL 259 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 ELSVR NCL+ I + DL+ E ++ ++ + GRKS E+K GL Sbjct: 260 ELSVRLFNCLKKSGIEKVSDLVLLKEEEVFKLKSLGRKSFNELKEKFKQHGL 311 >gi|119662299|emb|CAJ33137.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. bulgaricus] Length = 214 Score = 171 bits (434), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 85/193 (44%), Positives = 125/193 (64%) 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 LASRILQDQLGMF 231 A+R+L + F Sbjct: 181 FAARVLVEHFKAF 193 >gi|119662373|emb|CAJ33175.1| RNA polymerase alpha subunit [Lactobacillus panis] Length = 190 Score = 171 bits (434), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 87/190 (45%), Positives = 134/190 (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 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLIT 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|150036756|emb|CAM98263.1| DNA-directed RNA polymerase alpha chain [Leuconostoc inhae KCTC 3774] Length = 214 Score = 171 bits (434), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 89/201 (44%), Positives = 131/201 (65%), Gaps = 2/201 (0%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D Sbjct: 3 TLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDEE 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 + + + +GP VTA D+Q D+EVLNPD I + + M +T KG GY A + Sbjct: 63 RSLEVDIQGPADVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTITAVKGRGYSSADEN 122 Query: 162 RTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 + D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L Sbjct: 123 KQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDALSL 182 Query: 220 ASRILQDQLGMFINFEEPKKE 240 S+IL + L +F++ E Sbjct: 183 GSKILAEHLNLFMDISPVAAE 203 >gi|150036830|emb|CAM98044.1| DNA-directed RNA polymerase alpha chain [Leuconostoc kimchii] Length = 216 Score = 171 bits (434), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 88/204 (43%), Positives = 132/204 (64%), Gaps = 2/204 (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 KHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+ Sbjct: 121 DENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDA 180 Query: 217 VALASRILQDQLGMFINFEEPKKE 240 ++L S+IL + L +F++ E Sbjct: 181 LSLGSKILAEHLNLFMDISPVAAE 204 >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 = 171 bits (434), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 106/321 (33%), Positives = 182/321 (56%), Gaps = 11/321 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI- 65 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKIN 60 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVND 124 DG + + + E + DIILN+K + + ++ G +T G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLPVTLAEGVETGTITFELSGSEEEIFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG G+ PA+ +N G +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQ----DNFKDGEFLLDATFSPVVFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + + Sbjct: 177 FEIKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNILDIEEINKGIFVE 236 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 K + NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL Sbjct: 237 DPTKDI--NPILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLT 294 Query: 305 EIKGVLGTMGLFLGMNLPDWP 325 EIK L +GL LG + +WP Sbjct: 295 EIKDKLSELGLSLGTLIENWP 315 >gi|119668331|emb|CAK95465.1| RNA polymerase alpha subunit [Lactobacillus iners] Length = 201 Score = 171 bits (433), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 88/187 (47%), Positives = 133/187 (71%) 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 QLGMFIN 233 +F++ Sbjct: 181 HFKVFMS 187 >gi|150036786|emb|CAM98270.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 221 Score = 171 bits (433), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 89/201 (44%), Positives = 131/201 (65%), Gaps = 2/201 (0%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D Sbjct: 3 TLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDE 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 + + I +GP VTA D+Q D+EVLNPD I + + M +T KG GY A + Sbjct: 63 RSLEIDVQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYTSADEN 122 Query: 162 RTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 + D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L Sbjct: 123 KKLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGARDDYDKLTFDIWTNGSIKPSDALSL 182 Query: 220 ASRILQDQLGMFINFEEPKKE 240 ++IL + L +F++ E Sbjct: 183 GAKILAEHLNLFMDISPVAAE 203 >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 = 171 bits (432), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 112/327 (34%), Positives = 181/327 (55%), Gaps = 24/327 (7%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 EN +IA P G+A TL + LRR+L +S G A TAV+IDGV HE S++G+ ED+ Sbjct: 21 ENVAKIIAYPFETGYAVTLAHPLRRLLYTSTVGYAPTAVKIDGVSHEFDSMRGMLEDVAI 80 Query: 85 IILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDI-EVLNPDHVICNLDVDAV 142 I+N+KGI K+ GDS + V + GP +T D+ NDI E++NPD + ++ DA Sbjct: 81 FIINLKGIRFKIKGDSKREVIEYNFTGPKEITGKDLN--NDIVEIVNPDAYLATINEDAD 138 Query: 143 VRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 ++ + + KG GYVP++ R +D I L DA ++P+ + Y +E+ DY+K Sbjct: 139 LKFSVVIEKGIGYVPSESIRDYVSSDYIAL---DAFFTPVIRAIYDIENVFVEDNPDYEK 195 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMF---INFEEPKKEVKEDINVKSLPF--NPA 255 + TI TDG ++ D+ A + Q+ +F ++ + K K+ +P + Sbjct: 196 IIFTITTDGQVSAVDAFKNALEAMYQQMSVFKGIVDIDTGKSFTKQ------IPSGEHSK 249 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 L + +E L LS RS NCL +I ++G+++ E+++ + N G+KSL EIK V+ +G Sbjct: 250 LFESIENLNLSARSFNCLEKADIKFVGEIVIMDESELKGIKNLGKKSLEEIKSVMEEIGY 309 Query: 316 FLG----MNLPDWPPESIEELAKKYED 338 +G + + + I EL KK +D Sbjct: 310 PIGNEEIKDKKEVLSKKIAELKKKAKD 336 >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 = 171 bits (432), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 106/319 (33%), Positives = 177/319 (55%), Gaps = 16/319 (5%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 EN + A P G+A TL + LRR+L SS G A T V+I+GV HE S++G+ ED+ Sbjct: 12 ENVARITAYPFETGYAVTLAHPLRRLLYSSTVGFAATGVKIEGVSHEFDSMRGMLEDVAQ 71 Query: 85 IILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 I+N+K I K+ +S + V + +GP + AGD+++ + ++++NPD + ++ DA + Sbjct: 72 FIINLKNIRFKLKNESEREVVEYSFKGPKEIKAGDLKS-DVVDIVNPDAYLATINEDAEL 130 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 + + + KG GYVP++ R + + G I +DA ++P+KK Y + + DY+K+ Sbjct: 131 KFSVIIQKGIGYVPSEEIRGDTEE-GYIALDAFFTPVKKAVYELVNVLVEDNPDYEKIIF 189 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMF---INFEEPKKEVKEDINVKSLPFNPA-LLKK 259 T+ TDG + ++ A + Q+ +F +N ++ +N ++ A LL+ Sbjct: 190 TVTTDGQVGAIEAFKHAIEAMYQQMSVFKGVLNI-----DISAGLNAQTSGSEHAKLLQS 244 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 VEEL LS RS NCL I ++G+L E ++ + N G+KSL EIK V+ +G +G Sbjct: 245 VEELNLSARSFNCLDKAEIRFIGELALMDENELKELKNLGKKSLEEIKAVMQEIGYPVGG 304 Query: 320 NLPDWPPESIEELAKKYED 338 +L E+L KK D Sbjct: 305 DLGGGK----EQLKKKIAD 319 >gi|119662333|emb|CAJ33155.1| RNA polymerase alpha subunit [Lactobacillus oris] Length = 200 Score = 171 bits (432), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 87/190 (45%), Positives = 134/190 (70%), Gaps = 2/190 (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 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLIT 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 NFEEPKKEVK 242 N E + + Sbjct: 181 NLTETAQNAQ 190 >gi|150036844|emb|CAM98287.1| DNA-directed RNA polymerase alpha chain [Leuconostoc holzapfelii] Length = 199 Score = 171 bits (432), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 89/195 (45%), Positives = 130/195 (66%), Gaps = 2/195 (1%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D Sbjct: 3 TLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDE 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 + + I +GP VTA D+Q D+EVLNPD I + + M +T KG GY A + Sbjct: 63 RSLEIDVQGPADVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYSSADEN 122 Query: 162 RT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 + E PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L Sbjct: 123 KQLREEMPIGVLAVDSIYTPIERVNYHVENTRVGARDDYDKLTFDIWTNGSIKPSDALSL 182 Query: 220 ASRILQDQLGMFINF 234 S+IL + L +F++ Sbjct: 183 GSKILAEHLNLFMDI 197 >gi|119672791|emb|CAK95479.1| RNA polymerase alpha subunit [Lactobacillus sakei subsp. sakei] Length = 176 Score = 171 bits (432), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 85/175 (48%), Positives = 124/175 (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 AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 A +++++ PIG++ ID++Y+PI +V+Y VES R G+ D+DKL++ + T+GSI+ Sbjct: 121 AVQNKSDDMPIGVLPIDSIYTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSIS 175 >gi|150036802|emb|CAM98037.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 231 Score = 170 bits (431), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 95/231 (41%), 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 KHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 + ++ D 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|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 = 170 bits (431), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 98/289 (33%), Positives = 160/289 (55%), Gaps = 5/289 (1%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 A P G+ TL + LRR+L +S G A TA+ IDGV HE S++G+ ED+ I+N+K Sbjct: 28 AWPFEIGYGITLAHPLRRLLYTSTIGYAPTAIHIDGVAHEFDSMRGMLEDVALFIINLKK 87 Query: 92 INLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + K+ DS+K + F +GP + D+ + +EV+N D + ++ DA ++ L + Sbjct: 88 LQFKLKSDSNKEIVEFSFKGPKEIYGKDLNN-DQVEVVNTDAYLATINEDAELKFTLIIE 146 Query: 151 KGHGYVPAKH-HRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYVP++ NDP I +DA ++P+++ +Y +E DY+K+ +T+ TDG Sbjct: 147 KGIGYVPSEEIKELLNDP-KFIALDAFFTPVREATYDIEKVLFEDNPDYEKVVLTVTTDG 205 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 IT ++ A + QL +F + +K L N LL+ + +L LS RS Sbjct: 206 QITPNEAFQNALEAMYKQLSVFDKITNVRSIIKSQATSNELE-NTKLLQNITDLNLSARS 264 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 NCL IVY+G+L + ++ + N G+KSL EIK ++ ++G +G Sbjct: 265 YNCLEKAGIVYIGELALMSVNELAGLKNLGKKSLDEIKSIMESIGFPVG 313 >gi|296044726|gb|ADG85772.1| RpoA [Vibrio sp. WH134] Length = 200 Score = 170 bits (431), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 87/199 (43%), Positives = 136/199 (68%), Gaps = 5/199 (2%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKR 103 NALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ ++++ G Sbjct: 1 NALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVF 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK--- 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 ASRILQDQLGMFINFEEPK 238 A+ IL +QL F++ + + Sbjct: 181 AATILAEQLDAFVDLRDVR 199 >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 = 170 bits (431), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 101/303 (33%), Positives = 170/303 (56%), Gaps = 13/303 (4%) Query: 24 EENRT---LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 EE+R+ + EPL RG T+GNALRRVL+S+L G A+TAV+I GV HE +++ GV E Sbjct: 14 EESRSHYSKFVLEPLERGQGTTVGNALRRVLLSNLEGTAVTAVRIAGVSHEFATVPGVRE 73 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 D+ +I++ +K + L+ + + GP VT +++EV++ + L Sbjct: 74 DVLEILMKMKEVILRSYSSQPQIGRLLVNGPATVTVAHFDLPSEVEVIDQTQYVATLAEG 133 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + ME + KG GY + R E + + ID+++ P++KV+Y+VE AR + D+ Sbjct: 134 GKLEMEFRIEKGKGYRTVERGREEATSLDFLQIDSVFMPVRKVNYSVEEARGESSIPKDR 193 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EPKKEVKEDINVKSLPFNPALLKK 259 L + + T+GSI+ +++++ A+ IL + + EP + E +P +P Sbjct: 194 LLLEVWTNGSISPQEALSSAAGILVELFNPLKDISLEPTETGAE------VPDDPTAQIP 247 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +EEL+LSVR+ NCL+ + + DL+ T+ D+L + NFG+KS E V+ + LG+ Sbjct: 248 IEELQLSVRAYNCLKRAQVNSVADLLDFTQEDLLEIKNFGQKSAEE---VVEALQRRLGI 304 Query: 320 NLP 322 LP Sbjct: 305 TLP 307 >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 = 170 bits (431), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 105/321 (32%), Positives = 181/321 (56%), Gaps = 11/321 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI- 65 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKIN 60 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVND 124 DG + + + E + DIILN+K + + ++ G +T G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLPVTLTEGVETGTITFELSGSEEEIFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG G+ PA+ +N G +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQ----DNFKDGEFLLDATFSPVVFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + + Sbjct: 177 FEIKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGIFVE 236 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 K + NP LLK EEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL Sbjct: 237 DPTKDI--NPILLKHAEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLT 294 Query: 305 EIKGVLGTMGLFLGMNLPDWP 325 EIK L +GL LG + +WP Sbjct: 295 EIKDKLSELGLSLGTLIENWP 315 >gi|119662851|emb|CAJ33218.1| RNA polymerase alpha subunit [Lactobacillus fuchuensis] Length = 202 Score = 170 bits (431), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 82/190 (43%), Positives = 131/190 (68%) 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 MFINFEEPKK 239 +F++ + K Sbjct: 181 IFVDLTDEAK 190 >gi|119662377|emb|CAJ33177.1| RNA polymerase alpha subunit [Lactobacillus paraplantarum] Length = 176 Score = 170 bits (431), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 89/176 (50%), Positives = 127/176 (72%), 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 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK--HHRTENDPI 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|119668371|emb|CAK95515.1| RNA polymerase alpha subunit [Lactobacillus sakei subsp. carnosus] Length = 196 Score = 170 bits (431), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 83/190 (43%), Positives = 132/190 (69%) 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 MFINFEEPKK 239 +F++ + K Sbjct: 181 IFVDLTDEAK 190 >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 = 170 bits (431), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 100/296 (33%), Positives = 168/296 (56%), Gaps = 15/296 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG T+GNALRRVL+S+L G A+TAV+I GV HE +++ GV ED+ +II+ + Sbjct: 23 FVLEPLERGQGTTVGNALRRVLLSNLEGTAVTAVRIAGVTHEFATVPGVREDVMEIIMRM 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK + + GP VTA ++EV++P + L + ME + Sbjct: 83 KEVILKSYSHQPQIGRLLVTGPTTVTAAHFDLPGEVEVIDPTQYVATLAEGGKLEMEFRI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY + R E + + ID+++ P++KV+Y+VE +R L D+L + + T+G Sbjct: 143 ERGKGYRTVEKGREEATSLDFLQIDSVFMPVRKVNYSVEESRGDGSLK-DRLLLEVWTNG 201 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVK---EDINVKSLPFNPALLKKVEELELS 266 SI+ +++++ ++ IL + P K++ D+ + +P +P +EEL+LS Sbjct: 202 SISPQEALSSSAAIL-------VELFNPLKDISLEPTDMGL-DMPDDPTAQIPIEELQLS 253 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 VR+ NCL+ + + DL+ T+ D+L + NFG+KS E V+ + LG+ LP Sbjct: 254 VRAYNCLKRAQVNSVADLLDYTQEDLLEIKNFGQKSAEE---VVEALQRRLGITLP 306 >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 = 170 bits (430), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 100/296 (33%), Positives = 168/296 (56%), Gaps = 15/296 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG T+GNALRRVL+S+L G A+TAV+I GV HE +++ GV ED+ +II+ + Sbjct: 23 FVLEPLERGQGTTVGNALRRVLLSNLEGTAVTAVRIAGVTHEFATVPGVREDVMEIIMRM 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK + + GP VTA ++EV++P + L + ME + Sbjct: 83 KEVILKSYSHQPQIGRLLVTGPTTVTAAHFDLPGEVEVIDPTQYVATLAEGGKLEMEFRI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +G GY + R E + + ID+++ P++KV+Y+VE +R L D+L + + T+G Sbjct: 143 ERGKGYRTVEKGREEATSLDFLQIDSVFMPVRKVNYSVEESRGDGSLK-DRLLLEVWTNG 201 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVK---EDINVKSLPFNPALLKKVEELELS 266 SI+ +++++ ++ IL + P K++ D+ + +P +P +EEL+LS Sbjct: 202 SISPQEALSSSAAIL-------VELFNPLKDISLEPTDMGL-DMPDDPTAQIPIEELQLS 253 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 VR+ NCL+ + + DL+ T+ D+L + NFG+KS E V+ + LG+ LP Sbjct: 254 VRAYNCLKRAQVNSVADLLDYTQEDLLEIKNFGQKSAEE---VVEALQRRLGITLP 306 >gi|119668333|emb|CAK95466.1| RNA polymerase alpha subunit [Lactobacillus intestinalis] Length = 191 Score = 170 bits (430), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 83/182 (45%), Positives = 123/182 (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 MF 231 +F Sbjct: 181 VF 182 >gi|119662833|emb|CAJ33209.1| RNA polymerase alpha subunit [Lactobacillus ingluviei] Length = 180 Score = 170 bits (430), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 86/180 (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 GYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GY A ++ D IG++ ID++Y+PI++V+YTVE+ R GQ DYDKL++ + TDGS+T Sbjct: 121 GYNSADVNKARMDLAIGVLPIDSIYTPIERVNYTVENTRVGQSNDYDKLTLDVWTDGSLT 180 >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 = 170 bits (430), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 98/289 (33%), Positives = 160/289 (55%), Gaps = 5/289 (1%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 A P G+ TL + LRR+L +S G A TA+ IDGV HE S++G+ ED+ I+N+K Sbjct: 28 AWPFEIGYGITLAHPLRRLLYTSTIGYAPTAIHIDGVAHEFDSMRGMLEDVALFIINLKK 87 Query: 92 INLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + K+ DS+K + F +GP + D+ + +EV+N D + ++ DA ++ L + Sbjct: 88 LRFKLKSDSNKEIVEFSFKGPKEIYGKDLNN-DQVEVVNTDAYLATINEDAELKFTLIIE 146 Query: 151 KGHGYVPAKH-HRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYVP++ NDP I +DA ++P+++ +Y +E DY+K+ +T+ TDG Sbjct: 147 KGIGYVPSEEIKELLNDP-KFIALDAFFTPVREATYDIEKVLFEDNPDYEKVVLTVTTDG 205 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 IT ++ A + QL +F + +K L N LL+ + +L LS RS Sbjct: 206 QITPNEAFQNALEAMYKQLSVFDKITNVRSIIKSQATSNELE-NTKLLQNITDLNLSARS 264 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 NCL IVY+G+L + ++ + N G+KSL EIK ++ ++G +G Sbjct: 265 YNCLEKAGIVYIGELALMSVNELAGLKNLGKKSLDEIKSIMESIGFPVG 313 >gi|150187144|emb|CAK30180.1| RNA polymerase alpha subunit [Streptococcus phocae] Length = 204 Score = 170 bits (430), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 83/190 (43%), Positives = 131/190 (68%) 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 MFINFEEPKK 239 +F + + K Sbjct: 181 LFTDLTDVAK 190 >gi|154424827|emb|CAL18516.1| RNA polymerase alpha subunit [Streptococcus parasanguinis] Length = 194 Score = 170 bits (430), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 83/187 (44%), Positives = 127/187 (67%) 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 MFINFEE 236 +F N E Sbjct: 181 LFTNLTE 187 >gi|151416836|emb|CAO78489.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gelidum] Length = 193 Score = 170 bits (430), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 88/192 (45%), Positives = 128/192 (66%), Gaps = 2/192 (1%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D Sbjct: 2 TLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLXIDSDEE 61 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 + + + +GP VTA D+Q D+EVLNPD I + + M +T KG GY A + Sbjct: 62 RSLEVDIQGPADVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTITAFKGRGYSSADEN 121 Query: 162 RTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 + D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L Sbjct: 122 KQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDALSL 181 Query: 220 ASRILQDQLGMF 231 S+IL + L +F Sbjct: 182 GSKILAEHLNLF 193 >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 = 170 bits (430), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 98/289 (33%), Positives = 162/289 (56%), Gaps = 5/289 (1%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 A P G+ TL + LRR+L +S G A TA+ IDGV HE S++G+ ED+ I+N+K Sbjct: 28 AWPFEIGYGITLAHPLRRLLYTSTIGYAPTAIHIDGVAHEFDSMRGMLEDVALFIINLKK 87 Query: 92 INLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + K+ GDS+K + F +G + D+ + +EV+N D + ++ DA ++ L V Sbjct: 88 LRFKIKGDSNKEIVEFSFKGSKEIYGKDLNN-DQVEVVNKDAYLATINEDAELKFTLIVE 146 Query: 151 KGHGYVPAKHHRTE-NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYVP++ + NDP I +DA ++P+++ +Y +E DY+K+ +T+ TDG Sbjct: 147 KGIGYVPSEEIKELINDP-KFIALDAFFTPVREATYDIEKVLFEDNPDYEKVVLTVTTDG 205 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 IT ++ A + QL +F + +K L N LL+ + +L LS RS Sbjct: 206 QITPNEAFQNALEAMYKQLSVFDKITNVRSVIKNQATSNELE-NTKLLQNITDLNLSARS 264 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 NCL +VY+G+L + +++ + N G+KSL EIK ++ ++G +G Sbjct: 265 YNCLEKAGVVYIGELALMSVSELAGLKNLGKKSLDEIKNIMESIGFPVG 313 >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 = 169 bits (429), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 85/200 (42%), Positives = 129/200 (64%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + +AEP RGF T+ N+LRR+L+SSL G+++T V+I GV HE ++I GV ED+T+I LN Sbjct: 7 MFVAEPFERGFGATIANSLRRILLSSLEGSSVTRVKIQGVQHEFTTIPGVVEDITEICLN 66 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 +K + +K S + K + I K GVVT D+ T + +EV+N D VI + D + MELT Sbjct: 67 LKSLIVKNSSSTSKTLRIEKHERGVVTGADVITDDQVEVINKDLVIATMTDDVPLNMELT 126 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + G GY PA H + +G+I +DA +SP+ +V Y +E R GQ +YDKL + I T+ Sbjct: 127 IENGRGYSPASEHAQHDSEVGVIPLDATFSPVVRVRYKIEDTRVGQRTNYDKLILEIWTN 186 Query: 209 GSITGEDSVALASRILQDQL 228 G++ + ++ AS+IL+ L Sbjct: 187 GTVKPDMALVEASKILRKHL 206 >gi|119662305|emb|CAJ33140.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. lactis] Length = 214 Score = 169 bits (429), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 85/193 (44%), Positives = 125/193 (64%) 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 LASRILQDQLGMF 231 A+R+L + F Sbjct: 181 FAARVLVEHFKAF 193 >gi|332184519|gb|AEE26773.1| DNA-directed RNA polymerase alpha subunit [Francisella cf. novicida 3523] Length = 318 Score = 169 bits (429), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 104/321 (32%), Positives = 181/321 (56%), Gaps = 11/321 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI- 65 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKIN 60 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVND 124 DG + + + E + DIILN+K + + ++ + F+ G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLPVTLAEGVETGIITFELSGSEEEIFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG G+ PA+ +N G +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQ----DNFKDGEFLLDATFSPVVFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + + Sbjct: 177 FEIKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGIFVE 236 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 K + NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL Sbjct: 237 DPTKDI--NPILLKHVEELNLTARSSNCLKAVNIKLIGELVQKTENELLKAPNFGKKSLT 294 Query: 305 EIKGVLGTMGLFLGMNLPDWP 325 EIK L + L LG + +WP Sbjct: 295 EIKDKLSELSLSLGTIIENWP 315 >gi|161511725|emb|CAP16873.1| DNA-directed RNA polymerase subunit alpha [Pediococcus acidilactici] Length = 199 Score = 169 bits (429), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 90/189 (47%), Positives = 125/189 (66%), Gaps = 2/189 (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 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDP 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 LGMFINFEE 236 L +F+N + Sbjct: 189 LAIFVNLND 197 >gi|150036728|emb|CAM98255.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 194 Score = 169 bits (428), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 88/194 (45%), 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 KHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ D 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|159027085|emb|CAO89270.1| rpoA [Microcystis aeruginosa PCC 7806] Length = 313 Score = 169 bits (428), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 99/296 (33%), Positives = 164/296 (55%), Gaps = 13/296 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG T+GNALRR+L+S+L GAA+TA++I GV HE ++++GV ED+ +++LN+ Sbjct: 23 FVLEPLERGQGTTVGNALRRILISNLEGAAVTALRIAGVNHEFATVEGVREDVMELMLNM 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK + + + GP V A +++E+++ + + L A + ME V Sbjct: 83 KEITLKSYTNQTQIGRLVATGPATVVAAQFDLPSEVEIVDRNQYVATLAEGAKLEMEFRV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GY + E + + ID+++ P+ KV+Y+VE R D+L + I T+G Sbjct: 143 EKGKGYRAIDRSKEEATSLDFLQIDSIFMPVTKVNYSVEDIRSESGQARDRLLLEIWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALLKKVEELELS 266 SI +++++ A+ M +N P K+ ++ N N +EEL+LS Sbjct: 203 SINPKEALSQAA-------DMLVNLFNPLKDLNALESSGNFDDQEINQENQIPIEELQLS 255 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 VR+ NCL+ I + DL+ ++ D+L + NFG+KS E V+ + LG+ LP Sbjct: 256 VRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEE---VIEALQKRLGITLP 308 >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 = 169 bits (428), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 115/305 (37%), Positives = 166/305 (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 + D I I +DAL+SPIK+V++ VE R GQ D DKL + Sbjct: 137 VMEVRVDEGVGYVAAEKHGIK-DRINSIPVDALFSPIKRVAFHVEDTRLGQRTDLDKLIL 195 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK----- 258 I TDGS+T + ++A A IL+ QLG F E + PA + Sbjct: 196 RIWTDGSVTPDAALAQAVEILRGQLGYFDQLAPQAAPEPEAAEAPAPEAAPAEPEEAAAE 255 Query: 259 ------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 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|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 = 169 bits (428), Expect = 6e-40, Method: Compositional matrix adjust. Identities = 104/303 (34%), Positives = 164/303 (54%), Gaps = 7/303 (2%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 A P G+A TL + LRR+L SS G A T V+I GV HE S++G+ ED+ I+N+K Sbjct: 28 AWPFEIGYAITLAHPLRRLLYSSTVGFAPTGVKIKGVAHEFDSMRGMLEDVALFIINLKK 87 Query: 92 INLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVND-IEVLNPDHVICNLDVDAVVRMELTV 149 + K+ DS K + F +GP + D+ ND +EV+N D + ++ DA + L + Sbjct: 88 LRFKLKTDSEKEIVTFSFKGPKEICGKDLD--NDVVEVVNADSYLATINEDADLEFTLII 145 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYVP++ + DP I +DA ++P+K Y +E DY+K+ TI TDG Sbjct: 146 EKGIGYVPSEEVQNFLDP-EFIALDAFFTPVKHAVYDIEKVLFEDNPDYEKVVFTITTDG 204 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 I+ D+ A + QL +F + V+ + + LL+ + EL L RS Sbjct: 205 QISPSDAFKNALEAMYKQLSVFDKITNAQSVVRSQTQNNEVE-HVKLLQNITELNLGARS 263 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN-LPDWPPES 328 NCL N+VY+G+L +++ + N G+KSL EIK V+ ++G +G + L D E+ Sbjct: 264 FNCLEKANVVYIGELALMNASELADLKNLGKKSLDEIKSVMESIGFPIGNSKLSDSAKET 323 Query: 329 IEE 331 +++ Sbjct: 324 LKK 326 >gi|119662391|emb|CAJ33185.1| RNA polymerase alpha subunit [Lactobacillus amylophilus] Length = 174 Score = 169 bits (427), Expect = 7e-40, Method: Compositional matrix adjust. 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|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 = 169 bits (427), Expect = 7e-40, Method: Compositional matrix adjust. Identities = 99/296 (33%), Positives = 164/296 (55%), Gaps = 13/296 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG T+GNALRR+L+S+L GAA+TA++I GV HE ++++GV ED+ +++LN+ Sbjct: 23 FVLEPLERGQGTTVGNALRRILISNLEGAAVTALRIAGVNHEFATVQGVREDVMELMLNM 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK + + + GP V A +++E+++ + + L A + ME V Sbjct: 83 KEIILKSYTNQTQIGRLVATGPATVVAAQFDLPSEVEIVDRNQYVATLAEGAKLEMEFRV 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GY + E + + ID+++ P+ KV+Y+VE R D+L + I T+G Sbjct: 143 EKGKGYRAIDRSKDEATSLDFLQIDSIFMPVTKVNYSVEDIRSESGQARDRLLLEIWTNG 202 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALLKKVEELELS 266 SI +++++ A+ M +N P K+ ++ N N +EEL+LS Sbjct: 203 SINPKEALSQAA-------DMLVNLFNPLKDLNALESSSNFDDQEINQENQIPIEELQLS 255 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 VR+ NCL+ I + DL+ ++ D+L + NFG+KS E V+ + LG+ LP Sbjct: 256 VRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEE---VIEALQKRLGITLP 308 >gi|154424837|emb|CAL18521.1| RNA polymerase alpha subunit [Streptococcus pluranimalium] Length = 204 Score = 169 bits (427), Expect = 7e-40, Method: Compositional matrix adjust. Identities = 83/193 (43%), Positives = 132/193 (68%) 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 QLGMFINFEEPKK 239 L +F + E K Sbjct: 181 HLNLFTDLTEVAK 193 >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 = 169 bits (427), Expect = 8e-40, Method: Compositional matrix adjust. Identities = 81/183 (44%), Positives = 127/183 (69%) 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 EVK 242 +V+ Sbjct: 181 KVE 183 >gi|270265493|emb|CBI68383.1| RNA polymerase alpha-subunit [Vibrio tapetis] Length = 200 Score = 168 bits (426), Expect = 9e-40, Method: Compositional matrix adjust. Identities = 87/203 (42%), Positives = 132/203 (65%), Gaps = 7/203 (3%) Query: 114 VTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---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++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 121 AFVDLRDIRVPEE---KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 177 Query: 290 ADMLRMANFGRKSLVEIKGVLGT 312 ++L+ N G KSL EIK VL + Sbjct: 178 VELLKTPNLGNKSLTEIKDVLAS 200 >gi|119662831|emb|CAJ33208.1| RNA polymerase alpha subunit [Lactobacillus mucosae] Length = 180 Score = 168 bits (426), Expect = 9e-40, Method: Compositional matrix adjust. Identities = 87/173 (50%), Positives = 124/173 (71%), Gaps = 2/173 (1%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRRV+M+SL GAAIT++QIDGVLHE S+++GV ED+T IILN+K ++LK+ + Sbjct: 3 TLGNSLRRVMMASLPGAAITSIQIDGVLHEFSTVQGVTEDVTQIILNLKKVSLKIESEDA 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + + +GP VTAGDIQ D+ +LNPD I + A + + +T KG GYVPA + Sbjct: 63 KDLELDVKGPAEVTAGDIQGDGDVTILNPDLHIATVADGAELHIMMTADKGRGYVPADQN 122 Query: 162 --RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 R IG + ID++Y+PI++V+YTVE+ R GQ D+DKL++ + TDGS+T Sbjct: 123 KLRLSGLEIGTLPIDSIYTPIERVNYTVENTRVGQSNDFDKLTLDVWTDGSLT 175 >gi|150036804|emb|CAM98275.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 230 Score = 168 bits (426), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 94/230 (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 KHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 + ++ D 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|71056955|emb|CAH59038.1| DNA-directed RNA polymerase alpha chain [Enterococcus avium] Length = 177 Score = 168 bits (426), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 83/176 (47%), Positives = 121/176 (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 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 +KV+Y VE+ R G+ D+DKL+M I TDGSI +++++LA++IL + L +F+N + Sbjct: 121 RKVNYQVENTRVGRRDDFDKLTMEIWTDGSIIAQEALSLAAKILTEHLDIFVNLTD 176 >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 = 168 bits (426), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 96/289 (33%), Positives = 160/289 (55%), Gaps = 5/289 (1%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 A P G+ TL + LRR+L +S G A TA+ IDGV HE S++G+ ED+ I+N+K Sbjct: 28 AWPFEIGYGITLAHPLRRLLYTSTIGYAPTAIHIDGVAHEFDSMRGMLEDVALFIINLKK 87 Query: 92 INLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + K+ GDS+K + F +G + D+ + +EV+N D + ++ D ++ L + Sbjct: 88 LRFKIKGDSNKEIVEFNFKGSKEIYGKDLNN-DQVEVVNKDAYLATINEDTELKFTLIIE 146 Query: 151 KGHGYVPAKH-HRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYVP++ NDP I +DA ++P+++ +Y +E DY+K+ +T+ TDG Sbjct: 147 KGIGYVPSEEIKELLNDP-KFIALDAFFTPVREATYDIEKVLFEDNPDYEKVVLTVTTDG 205 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 IT ++ A + QL +F + +K L N LL+ + +L LS RS Sbjct: 206 QITPNEAFQNALEAMYKQLSVFDKITNVRSAIKNQATSNELE-NTKLLQNITDLNLSARS 264 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 NCL +VY+G+L + +++ + N G+KSL EIK ++ ++G +G Sbjct: 265 YNCLEKAGVVYIGELALMSVSELAGLKNLGKKSLDEIKNIMESIGFPVG 313 >gi|150187022|emb|CAK30153.1| RNA polymerase alpha subunit [Streptococcus thoraltensis] Length = 184 Score = 168 bits (425), Expect = 1e-39, Method: Compositional matrix adjust. 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|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 = 168 bits (425), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 91/206 (44%), Positives = 133/206 (64%), Gaps = 3/206 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ +IILN+ Sbjct: 23 FVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDVVEIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKR--GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K + ++ S + VT+ + GP V A D V D+E++NPD I L+ + ME+ Sbjct: 83 KELVVRFLNPSLQTVTLLLKAEGPKEVKARDFLPVADVEIMNPDLHIATLEEGGRLNMEV 142 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 V +G GYVPA+ H + D I I +DA++SP+++V++ VE R GQ D DKL++ I T Sbjct: 143 RVDRGVGYVPAEKHGIK-DRINAIPVDAVFSPVRRVAFQVEDTRLGQRTDLDKLTLRIWT 201 Query: 208 DGSITGEDSVALASRILQDQLGMFIN 233 DGS+T +++ A IL++ L F N Sbjct: 202 DGSVTPLEALNQAVEILREHLTYFSN 227 >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 = 168 bits (425), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 97/289 (33%), Positives = 162/289 (56%), Gaps = 5/289 (1%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 A P G+ TL + LRR+L +S G A TA+ IDGV HE S++G+ ED+ I+N+K Sbjct: 28 AWPFEIGYGITLAHPLRRLLYTSTIGYAPTAIHIDGVAHEFDSMRGMLEDVALFIINLKK 87 Query: 92 INLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + K+ G+S+K + F +G + D+ + +EV+N D + ++ DA ++ L V Sbjct: 88 LRFKIKGESNKEIVEFSFKGSKEIYGKDLNN-DQVEVVNKDAYLATINEDAELKFTLIVE 146 Query: 151 KGHGYVPAKHHRTE-NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYVP++ + NDP I +DA ++P+++ +Y +E DY+K+ +T+ TDG Sbjct: 147 KGIGYVPSEEIKELINDP-KFIALDAFFTPVREATYDIEKVLFEDNPDYEKVVLTVTTDG 205 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 IT ++ A + QL +F + +K L N LL+ + +L LS RS Sbjct: 206 QITPNEAFQNALEAMYKQLSVFDKITNVRSVIKNQATSNELE-NTKLLQNITDLNLSARS 264 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 NCL +VY+G+L + +++ + N G+KSL EIK ++ ++G +G Sbjct: 265 YNCLEKAGVVYIGELALMSVSELAGLKNLGKKSLDEIKNIMESIGFPVG 313 >gi|23012374|ref|ZP_00052476.1| COG0202: DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Magnetospirillum magnetotacticum MS-1] Length = 146 Score = 168 bits (425), Expect = 1e-39, Method: Compositional matrix adjust. 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|119662341|emb|CAJ33159.1| RNA polymerase alpha subunit [Lactobacillus parabuchneri] Length = 200 Score = 168 bits (425), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 90/187 (48%), Positives = 128/187 (68%), Gaps = 4/187 (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 NFEEPKK 239 + + K Sbjct: 181 DLTDEAK 187 >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 = 168 bits (425), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 97/289 (33%), Positives = 162/289 (56%), Gaps = 5/289 (1%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 A P G+ TL + LRR+L +S G A TA+ IDGV HE S++G+ ED+ I+N+K Sbjct: 28 AWPFEIGYGITLAHPLRRLLYTSTIGYAPTAIHIDGVAHEFDSMRGMLEDVALFIINLKK 87 Query: 92 INLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + K+ G+S+K + F +G + D+ + +EV+N D + ++ DA ++ L V Sbjct: 88 LRFKIKGESNKEIVEFSFKGSKEIYGKDLNN-DQVEVVNKDTYLATINEDAELKFTLIVE 146 Query: 151 KGHGYVPAKHHRTE-NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYVP++ + NDP I +DA ++P+++ +Y +E DY+K+ +T+ TDG Sbjct: 147 KGIGYVPSEEIKELINDP-KFIALDAFFTPVREATYDIEKVLFEDNPDYEKVVLTVTTDG 205 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 IT ++ A + QL +F + +K L N LL+ + +L LS RS Sbjct: 206 QITPNEAFQNALEAMYKQLSVFDKITNVRSVIKNQATSNELE-NTKLLQNITDLNLSARS 264 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 NCL +VY+G+L + +++ + N G+KSL EIK ++ ++G +G Sbjct: 265 YNCLEKAGVVYIGELALMSVSELAGLKNLGKKSLDEIKNIMESIGFPVG 313 >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 = 168 bits (425), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 97/289 (33%), Positives = 162/289 (56%), Gaps = 5/289 (1%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 A P G+ TL + LRR+L +S G A TA+ IDGV HE S++G+ ED+ I+N+K Sbjct: 28 AWPFEIGYGITLAHPLRRLLYTSTIGYAPTAIHIDGVAHEFDSMRGMLEDVALFIINLKK 87 Query: 92 INLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + K+ G+S+K + F +G + D+ + +EV+N D + ++ DA ++ L V Sbjct: 88 LRFKIKGESNKEIVEFSFKGSKEIYGKDLNN-DQVEVVNKDAYLATINEDAELKFTLIVE 146 Query: 151 KGHGYVPAKHHRTE-NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYVP++ + NDP I +DA ++P+++ +Y +E DY+K+ +T+ TDG Sbjct: 147 KGIGYVPSEEIKELINDP-KFIALDAFFTPVREATYDIEKVLFEDNPDYEKVVLTVTTDG 205 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 IT ++ A + QL +F + +K L N LL+ + +L LS RS Sbjct: 206 QITPNEAFQNALEAMYKQLSVFDKITNVRSVIKNQATSNELE-NTKLLQNITDLNLSARS 264 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 NCL +VY+G+L + +++ + N G+KSL EIK ++ ++G +G Sbjct: 265 YNCLEKAGVVYIGELALMSVSELAGLKNLGKKSLDEIKNIMESIGFPVG 313 >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 = 168 bits (425), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 102/303 (33%), Positives = 170/303 (56%), Gaps = 15/303 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG T+GNALRRVL+++L+GAA+TA++I GV HE ++I GV ED+ +I+LN+ Sbjct: 25 FVLEPLARGQGTTVGNALRRVLLANLQGAAVTAIRIAGVNHEFATIPGVREDVLEIMLNM 84 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK D + + G VTA + + +++EV++P + L + + ME + Sbjct: 85 KEIVLKSYSDQAQIGRLVATSAGTVTAANFELPSEVEVVDPTQYVATLTEGSKLEMEFRI 144 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GY + + + + + IDA++ P+ KV+Y VE R D+L + I T+G Sbjct: 145 ETGTGYKGVERGKDDGTSLDFLEIDAVFMPVTKVNYIVEDIRGEHGEAQDRLILEIWTNG 204 Query: 210 SITGEDSVALASRILQDQLGMFIN---FEEPKKEVKEDINVKS-LPFNPALLKKVEELEL 265 S +++++ A+ I+ D + E + ++D N +S +P +EEL+L Sbjct: 205 SFNPKEALSEAAEIVVDLFSPLKDLNQLETTTPDYQDDENPQSQIP--------IEELQL 256 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 SVR+ NCL+ I + DL+ ++ D+L + NFG+KS E V+ + LG+ LP Sbjct: 257 SVRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEE---VIEALQKRLGITLPQEK 313 Query: 326 PES 328 +S Sbjct: 314 AKS 316 >gi|150036748|emb|CAM98027.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 210 Score = 167 bits (424), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 87/199 (43%), Positives = 129/199 (64%), Gaps = 2/199 (1%) 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 END--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L + Sbjct: 121 LRDEMPIGVLAVDSIYTPIERVNYQVENTRVGARDDYDKLTFDIWTNGSIKPSDALSLGA 180 Query: 222 RILQDQLGMFINFEEPKKE 240 +IL + L +F++ E Sbjct: 181 KILAEHLNLFMDISPVAAE 199 >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 = 167 bits (424), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 112/320 (35%), Positives = 173/320 (54%), Gaps = 19/320 (5%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 N+ + A P GFA TL + LRR+L+ S G+A TAV+I+GV HE S++G+ ED+ Sbjct: 22 NKVQISAYPFESGFAVTLAHPLRRLLLGSTIGSAPTAVKIEGVTHEFDSMRGMLEDVALF 81 Query: 86 ILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 I+N+K I K+ GD + V GP + D+ + IE++ PD + ++ DA Sbjct: 82 IINLKNIRFKIKGDEKRVEVNYSFSGPKEIKGSDLAN-SHIEIVTPDTYLATINEDAEFN 140 Query: 145 MELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 L + KG GYVP+++ R +D I L DA ++P+K+ Y +E+ +Y+K+ Sbjct: 141 FSLIIEKGIGYVPSENIRDLLTDDYIAL---DAFFTPVKRAVYDIENVLVEDNPNYEKIV 197 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEE----PKKEVKEDINVKSLPFNPALLK 258 TI+TDG ++ ++ A + Q+ +F + PK E D NV+ LL+ Sbjct: 198 FTIETDGLVSPIEAFKNALEAMYAQMSVFNGILDIAVAPKNETSHD-NVEL----GKLLQ 252 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 VEEL LS RS NCL + Y+G+L +E ++ + N G+KSL EI+ V+ G +G Sbjct: 253 SVEELNLSARSFNCLDRAEVKYIGELALMSETELKDLKNLGKKSLEEIRQVMEESGYPVG 312 Query: 319 MNLPDWPPESIEELAKKYED 338 N D E+ L KK ED Sbjct: 313 YNFSD---ETASLLKKKIED 329 >gi|150036828|emb|CAM98281.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis] Length = 208 Score = 167 bits (424), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 86/193 (44%), Positives = 128/193 (66%), Gaps = 2/193 (1%) 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 RILQDQLGMFINF 234 +IL + L +F++ Sbjct: 181 KILAEHLNLFMDI 193 >gi|150036768|emb|CAM98265.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. cremoris] Length = 212 Score = 167 bits (424), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 86/192 (44%), Positives = 128/192 (66%), Gaps = 2/192 (1%) 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 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 I +GP VTA D+Q D+EVLNPD I + + M +T KG GY A ++ Sbjct: 61 EIDIQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYTSADENKKL 120 Query: 165 ND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L ++ Sbjct: 121 RDEMPIGVLAVDSIYTPIERVNYQVENTRIGARDDYDKLTFDIWTNGSIKPSDALSLGAK 180 Query: 223 ILQDQLGMFINF 234 IL + LG+F++ Sbjct: 181 ILAEHLGLFMDI 192 >gi|150036776|emb|CAM98267.1| DNA-directed RNA polymerase alpha chain [Weissella viridescens] Length = 175 Score = 167 bits (423), Expect = 2e-39, Method: Compositional matrix adjust. 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|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 = 167 bits (423), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 110/305 (36%), Positives = 177/305 (58%), Gaps = 21/305 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI--DGVLHEISSIKGVHEDLTDIIL 87 + PL +G+A T+GN LRRVL+SS+ AIT V+ HE +I+GV ED+ +I+L Sbjct: 25 FVLSPLEKGYATTIGNTLRRVLLSSIPSLAITDVKFVRPEKYHEFDTIEGVKEDIIEILL 84 Query: 88 NIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 N+K + LKM ++ +TI +G G + AGDI + V NP+ I L+ DA + + Sbjct: 85 NLKKVQLKMESYVNTPVELTIQHKGEGEIKAGDIVVPAGVTVTNPNLHIATLNEDADIEI 144 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 ++ + G G+VPA R E IG I +D +Y+PI KV++ +E+ R G+ DYDKL + + Sbjct: 145 KMYATVGKGFVPAAE-RNERPDIGWIVLDGVYNPILKVNWKIENVRVGKKTDYDKLILEV 203 Query: 206 DTDGSITGEDSVALASRILQDQLGMF-----------INFEEPKKEVKEDINVKSLPFNP 254 T +I +++ A +I+ D + I E K E+ E+ + N Sbjct: 204 WTKKNIKPVEALKQAVKIINDHFKLIEESFGDMEDAGIVIETTKAEIVEE----KIDENE 259 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK-GVLGTM 313 L KK++EL+LS+R+ NCL+ + I +GDL++R E ++L++ NFG+KSL E+K ++ Sbjct: 260 ILNKKIDELDLSMRALNCLKRDKIETIGDLLERGEEELLKIKNFGQKSLDEVKEKLMEKF 319 Query: 314 GLFLG 318 G+ G Sbjct: 320 GISFG 324 >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 = 167 bits (423), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 107/304 (35%), Positives = 174/304 (57%), Gaps = 17/304 (5%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 ++N I +PL +GF TLGNALRRV++S L G+++ A++I G+ HE I GV ED+T Sbjct: 32 DKNYGKYIVKPLEKGFGITLGNALRRVMLSHLPGSSVFALKIKGISHEFGFIPGVKEDVT 91 Query: 84 DIILNIKGINLKMSG-------------DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 IILNIK + + +S + +TI G++ AGDI+ EV N Sbjct: 92 QIILNIKNLVVWISDNMITDETLSETPIEKWPVMTIRANKAGIIKAGDIECPLGFEVFNK 151 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D IC L DA V +++ ++G G+ A +R+E + +I ID+ ++PI KV Y VE Sbjct: 152 DLEICTLSEDAEVAIDIYATRGRGFKTAAENRSEIGSLSIIPIDSNFNPIIKVGYHVE-- 209 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 E + DKL + + T+G I D++A+AS+IL D L I+ + ++ + +N K++ Sbjct: 210 EETSDVITDKLIIEVGTNGLIKSGDAIAIASKILSDHLKPLIDINKSLHDI-QVLNEKNV 268 Query: 251 -PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 N L +E+L+L+VRS NCL+ I + +L+ R+++++ + N G+KS+ EI Sbjct: 269 EEKNKKLSIPIEQLDLTVRSYNCLKRHGIQTVEELVTRSKSEIENIRNLGKKSVREINKK 328 Query: 310 LGTM 313 L + Sbjct: 329 LSEL 332 >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 = 167 bits (423), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 102/311 (32%), Positives = 168/311 (54%), Gaps = 7/311 (2%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 A P G+ TL + LRR+L +S G A TA+ I+GV HE S++G+ ED+ I+N+K Sbjct: 28 AWPFEIGYGITLAHPLRRLLYTSTVGYAPTAIYIEGVAHEFDSMRGMLEDVALFIINLKK 87 Query: 92 INLKMSGDSHKR-VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + K+ DS+K V + +GP + D+ + + V+N D + ++ DA ++ L + Sbjct: 88 LRFKLKSDSNKEIVEFYFKGPKEIHGRDLDN-DQVSVVNEDAYLATINEDAELKFTLIIE 146 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVP++ + D I +DA ++PI++ +Y +E DY+K+ +TI TDG Sbjct: 147 KGIGYVPSEEIKELLDDNKFIALDAFFTPIREATYDIEKVLFEDNPDYEKVVLTITTDGQ 206 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 IT ++ A + QL +F + +K + L N LL+ + +L LS RS Sbjct: 207 ITPNEAFQNALEAMYKQLSVFDKITNVRSMIKTQASHNELE-NTKLLQNITDLNLSARSY 265 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL----PDWPP 326 NCL +VY+G+L + ++ + N G+KSL EIK V+ ++G +G + D Sbjct: 266 NCLEKAGVVYIGELALMSVNELAGLKNLGKKSLDEIKSVMESIGFAVGTSKLSDNKDLLK 325 Query: 327 ESIEELAKKYE 337 + IEEL + E Sbjct: 326 KKIEELKAQNE 336 >gi|119668367|emb|CAK95476.1| RNA polymerase alpha subunit [Lactobacillus rhamnosus] Length = 198 Score = 167 bits (422), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 82/182 (45%), Positives = 126/182 (69%) 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 KK 239 K Sbjct: 181 AK 182 >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 = 167 bits (422), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 107/319 (33%), Positives = 176/319 (55%), Gaps = 16/319 (5%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 EN + A P G+A TL + LRR+L SS G A T V+I+GV HE S++G+ ED+ Sbjct: 12 ENVARITAYPFETGYAVTLAHPLRRLLYSSTVGFAATGVKIEGVSHEFDSMRGMLEDVAQ 71 Query: 85 IILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 I+N+K I K+ +S + V + +GP + AGD+++ + ++++N D + ++ DA + Sbjct: 72 FIINLKNIRFKLKNESEREVVEYSFKGPKEIKAGDLKS-DVVDIVNLDAYLATINEDAEL 130 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 + + + KG GYVP++ R +N G I +DA ++P+KK Y + + DY+K+ Sbjct: 131 KFSVIIQKGIGYVPSEEIR-DNTEEGYIALDAFFTPVKKAVYELVNVLVEDNPDYEKIIF 189 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMF---INFEEPKKEVKEDINVKSLPFNPA-LLKK 259 T+ TDG + ++ A + Q+ +F +N +V +N ++ A LL+ Sbjct: 190 TVTTDGQVGAIEAFKHAIEAMYQQMSVFKGVLNI-----DVSAGLNAQTSGSEHAKLLQS 244 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 VEEL LS RS NCL I ++G+L E ++ + N G+KSL EIK V+ +G +G Sbjct: 245 VEELNLSARSFNCLDKAEIRFIGELALMDENELKELKNLGKKSLDEIKAVMQEIGYPVGG 304 Query: 320 NLPDWPPESIEELAKKYED 338 +L E+L KK D Sbjct: 305 DLGGGK----EQLKKKIAD 319 >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 = 167 bits (422), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 107/304 (35%), Positives = 174/304 (57%), Gaps = 17/304 (5%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 ++N I +PL +GF TLGNALRRV++S L G+++ A++I G+ HE I GV ED+T Sbjct: 17 DKNYGKYIVKPLEKGFGITLGNALRRVMLSHLPGSSVFALKIKGISHEFGFIPGVKEDVT 76 Query: 84 DIILNIKGINLKMSG-------------DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 IILNIK + + +S + +TI G++ AGDI+ EV N Sbjct: 77 QIILNIKNLVVWISDNMITDETLSETPIEKWPVMTIRANKAGIIKAGDIECPLGFEVFNK 136 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D IC L DA V +++ ++G G+ A +R+E + +I ID+ ++PI KV Y VE Sbjct: 137 DLEICTLSEDAEVAIDIYATRGRGFKTAAENRSEIGSLSIIPIDSNFNPIIKVGYHVE-- 194 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 E + DKL + + T+G I D++A+AS+IL D L I+ + ++ + +N K++ Sbjct: 195 EETSDVITDKLIIEVGTNGLIKSGDAIAIASKILSDHLKPLIDINKSLHDI-QVLNEKNV 253 Query: 251 -PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 N L +E+L+L+VRS NCL+ I + +L+ R+++++ + N G+KS+ EI Sbjct: 254 EEKNKKLSIPIEQLDLTVRSYNCLKRHGIQTVEELVTRSKSEIENIRNLGKKSVREINKK 313 Query: 310 LGTM 313 L + Sbjct: 314 LSEL 317 >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 = 167 bits (422), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 106/299 (35%), Positives = 174/299 (58%), Gaps = 21/299 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL G T+GN+LRRVL+S + G+AITAV+I GV HE SI GV ED+ +++LN+ Sbjct: 23 FIVEPLEPGQGITIGNSLRRVLLSDIEGSAITAVRIAGVNHEFCSIPGVKEDVLELLLNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK + + + +G VT + + +++E+++ + + +A++ ME + Sbjct: 83 KNIVLKSYTNEPQIGRLKIQGACKVTTANFELPSEVEIIHGTQYVATVAENAILEMEFKI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA--REGQVLDYDKLSMTIDT 207 KG GY +TEN I + IDA++ P++KV+Y VE R ++ ++L + I Sbjct: 143 EKGRGYKIIDKKQTENS-IDFLPIDAIFMPVRKVNYMVEEIFLRNSEI--KERLILEIWR 199 Query: 208 DGSITGEDSVALASRILQDQLGMF--INFE--EPKKEVKEDINVKSLPFNPALLKKVEEL 263 +GS+T +DS++ A+ +L + F INFE + E ED + +P +EEL Sbjct: 200 NGSVTPQDSISQAAEVLLNLFNPFKKINFENTDDSTEQTED-KISQIP--------IEEL 250 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 +LSVR+ NCL+ I +GDL+ ++ ++L + NFG+KS K V+ + LG++LP Sbjct: 251 QLSVRAYNCLKRAQIHSIGDLLNVSQEELLEIRNFGQKSA---KEVIDALQKRLGISLP 306 >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 = 166 bits (421), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 106/297 (35%), Positives = 171/297 (57%), Gaps = 23/297 (7%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL +G TLGNALRR L++ L G AI AV+I GV HE S+I G+ ED+ +I+LN+K + Sbjct: 26 EPLNQGQGTTLGNALRRTLLADLEGTAIVAVRIAGVSHEFSTIPGIREDVLEILLNLKEV 85 Query: 93 NLK----MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 LK SG RV +GP +VT ++ ++IE+++P+ I + + ++ ME Sbjct: 86 VLKSQIGTSGVGRLRV----QGPAIVTTNHLELPSEIELIDPNQYIATICGNNILEMEFR 141 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + G GY + E+ I + +DA++ P+KKV+Y + R L ++L++ + T+ Sbjct: 142 IETGKGYNLVERDSDESS-IDFLQVDAIFMPVKKVNYLSKDIRSENNLIQEQLTLEVWTN 200 Query: 209 GSITGEDSVALASRILQDQLGMF--INFEEPKKE-VKEDINVKSLPFNPALLKKVEELEL 265 GSI +D+V+ A +IL + L INF+ E + ED + + +EEL+L Sbjct: 201 GSIDPQDAVSQAGKILTELLFPLKEINFKPDDSESIIEDSKINQI--------LIEELQL 252 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 SVR+ NCL+ I + DL+ ++ D++ + NFG+KS E V+ + LG+NLP Sbjct: 253 SVRAYNCLKRAQIHSVADLLDYSQEDLIEIKNFGQKSAEE---VIDALQKRLGINLP 306 >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 = 166 bits (421), Expect = 4e-39, Method: Compositional matrix adjust. Identities = 108/288 (37%), Positives = 173/288 (60%), Gaps = 11/288 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL +GF TLGNALRRVL+SSL GAA+ V+I+GV HE S + G ED D +LN+K + Sbjct: 24 EPLEKGFGTTLGNALRRVLLSSLSGAAVAQVRIEGVQHEFSPLPGAKEDTMDFLLNLKNL 83 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSK 151 +LK R+ + +GP VTA DI+ ++ E+ NPD + L D ++ + +E+ V Sbjct: 84 HLKPLFGRPGRLILDVKGPREVTAADIEASSEYEIANPDLYLVTLDDAESHLYVEMEVEV 143 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G G+V A +N IG I DA+++P++KV+Y +E GQ + Y++L + I TDG++ Sbjct: 144 GRGFVEAT--SADNVAIGTIPQDAIFNPVEKVNYEIEPVHMGQEMSYERLHLRIWTDGTL 201 Query: 212 TGEDSVALASRILQDQLGMF--INFEEP--KKEVKEDINVKSLPFNPALLKKVEELELSV 267 D++A ++ IL + F I P +++ +E +++ +N +E+L+LSV Sbjct: 202 APTDALAQSAAILVNHFQPFTAIGGSLPIIQEKKQEKLSIPDEKYN----MPIEQLDLSV 257 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 RS NCLR + +G+L+ + +++ + NFG KSL E++ L GL Sbjct: 258 RSLNCLRHAGLNTVGELLSKGVDELMSLRNFGLKSLNELEERLQANGL 305 >gi|119662397|emb|CAJ33188.1| RNA polymerase alpha subunit [Lactobacillus vaccinostercus] Length = 174 Score = 166 bits (421), Expect = 4e-39, Method: Compositional matrix adjust. 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 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PI 168 P VTAGDI+ D+EVLNP+ I + A + +++T + G GYV A ++ D 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|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 = 166 bits (420), Expect = 5e-39, Method: Compositional matrix adjust. Identities = 96/289 (33%), Positives = 159/289 (55%), Gaps = 5/289 (1%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 A P G+ TL + LRR+L +S G A TA+ IDGV HE S++G+ ED+ I+N+K Sbjct: 28 AWPFEIGYGITLAHPLRRLLYTSTVGYAPTAIHIDGVAHEFDSMRGMLEDVALFIINLKK 87 Query: 92 INLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + K+ DS+K + F +G + D+ + +EV+N D + ++ DA + L V Sbjct: 88 LRFKIKSDSNKEIVEFSFKGSKEIYGKDLNN-DQVEVVNKDAYLATINEDAELEFTLIVE 146 Query: 151 KGHGYVPAKHHRTE-NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GY+P++ + NDP I +DA ++P+++ +Y +E DY+K+ +T+ TDG Sbjct: 147 KGIGYIPSEEIKEFLNDP-KFIALDAFFTPVREATYDIEKVLFEDNPDYEKVVLTVTTDG 205 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 IT ++ A + QL +F + +K L N LL+ + +L LS RS Sbjct: 206 QITPNEAFQNALEAMYKQLSVFDKITNVRSVIKNQATSNELE-NTKLLQNITDLNLSARS 264 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 NCL +VY+G+L + +++ + N G+KSL EIK ++ +G +G Sbjct: 265 YNCLEKAGVVYIGELALMSVSELAGLKNLGKKSLDEIKNIMENIGFPVG 313 >gi|119672793|emb|CAK95480.1| RNA polymerase alpha subunit [Lactobacillus salivarius] Length = 199 Score = 166 bits (420), Expect = 5e-39, Method: Compositional matrix adjust. Identities = 85/185 (45%), Positives = 127/185 (68%), Gaps = 2/185 (1%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAAIT VQIDGVLHE S+I GV ED+T IILN+K + L M + + + I GP VTA Sbjct: 2 GAAITDVQIDGVLHEFSTIPGVLEDVTLIILNLKKVALSMESEDSQALEINVTGPMEVTA 61 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITID 174 GDIQ+ +D+EVLNP+ IC + A + + + +KG GYV A ++ D PIG++ ID Sbjct: 62 GDIQSNSDVEVLNPEQYICTVADGAELHVRMNANKGRGYVSANDNKALADDMPIGVLPID 121 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 ++Y+PI++V+Y VE R GQ DYDKL++ + T+GSIT ++++L+++IL + L +F++ Sbjct: 122 SIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWTNGSITPSEAISLSAKILTEHLALFVDL 181 Query: 235 EEPKK 239 + K Sbjct: 182 TDEAK 186 >gi|119672795|emb|CAK95481.1| RNA polymerase alpha subunit [Lactobacillus saerimneri] Length = 170 Score = 166 bits (419), Expect = 6e-39, Method: Compositional matrix adjust. Identities = 85/170 (50%), Positives = 116/170 (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 AKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 AK ++ D PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + Sbjct: 121 AKENKEMADDMPIGVLPIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDV 170 >gi|150036770|emb|CAM98266.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gasicomitatum] Length = 210 Score = 166 bits (419), Expect = 6e-39, Method: Compositional matrix adjust. Identities = 86/198 (43%), Positives = 128/198 (64%), Gaps = 2/198 (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 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 + +GP VTA D+Q D+EVLNPD I + + M +T KG GY A ++ Sbjct: 61 EVDIQGPADVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTITAFKGRGYSSADENKQL 120 Query: 165 ND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L S+ Sbjct: 121 RDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDALSLGSK 180 Query: 223 ILQDQLGMFINFEEPKKE 240 IL + L +F++ E Sbjct: 181 ILAEHLNLFMDISPVAAE 198 >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 = 166 bits (419), Expect = 6e-39, Method: Compositional matrix adjust. Identities = 106/313 (33%), Positives = 171/313 (54%), Gaps = 24/313 (7%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL G+ T+GN LRRVL+SSL G AI++V+I+GV HE ++IKGV ED+T+I+LN+K I Sbjct: 27 EPLYPGWGVTIGNTLRRVLLSSLEGYAISSVKIEGVDHEFATIKGVKEDMTEILLNLKKI 86 Query: 93 NLKMSGDSHKRVT---------------IFKRGPGVVTAGDI-QTVNDIEVLNPDHVICN 136 K + + I K +TAGD+ + ++ E++NPD +I N Sbjct: 87 RFKKKMEMEEEEEEEEEEEEEEGEKFNIIIKNEKEEITAGDLGEYIHLFEIINPDLIILN 146 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + + + + KG GYVP++ + + G I++D++++PIKKV YT+E+ + Sbjct: 147 KKKFIYLNITIVIKKGIGYVPSEENEKHINTNGTISMDSIFTPIKKVKYTIENCSVSKNS 206 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN-----FEEPKKEVKEDINVKSLP 251 Y++L I TDG+I +D++ AS ++ L + N K + K+ N L Sbjct: 207 TYERLFFEIKTDGTINPKDALIKASNLVIRHLKLLSNKKISLNYNKKYKKKKQTNENYLK 266 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L +E LSVR+ NCL+ I GDLI+ + + G+KSL E+ ++ Sbjct: 267 LRNILNSSLERKNLSVRTLNCLKKAKIFTWGDLIKSNPTNFKYL---GKKSLEELDLIMK 323 Query: 312 TMGLFLGMNLPDW 324 + ++ GMNL D+ Sbjct: 324 KLTIYYGMNLEDY 336 >gi|119662823|emb|CAJ33204.1| RNA polymerase alpha subunit [Lactobacillus coleohominis DSM 14060] Length = 173 Score = 166 bits (419), Expect = 7e-39, Method: Compositional matrix adjust. Identities = 82/173 (47%), 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 GYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 GY A ++ D IG++ ID++Y+PI++V+YTVE+ R GQ DY+KL++ + Sbjct: 121 GYSSADDNKARMDLAIGVLPIDSIYTPIERVNYTVENTRVGQNNDYNKLTLDV 173 >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 = 166 bits (419), Expect = 7e-39, Method: Compositional matrix adjust. Identities = 101/306 (33%), Positives = 166/306 (54%), Gaps = 7/306 (2%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 A P G+ TL + LRR+L +S G A TA+ I+GV HE S++G+ ED+ I+N+K Sbjct: 28 AWPFEIGYGITLAHPLRRLLYTSTVGYAPTAIYIEGVAHEFDSMRGMLEDVALFIINLKK 87 Query: 92 INLKMSGDSHKR-VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + K+ DS+K V + +GP + D+ + + V+N D + ++ DA ++ L + Sbjct: 88 LRFKLKSDSNKEIVEFYFKGPKEIHGRDLDN-DQVSVVNEDAYLATINEDAELKFTLIIE 146 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYVP++ + D I +DA ++PI++ +Y +E DY+K+ +TI TDG Sbjct: 147 KGIGYVPSEEIKELLDDNKFIALDAFFTPIREATYDIEKVLFEDNPDYEKVVLTITTDGQ 206 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 IT ++ A + QL +F + +K + L N LL+ + +L LS RS Sbjct: 207 ITPNEAFQNALGAMYKQLSVFDKITNVRSMIKTQASHNELE-NTKLLQNITDLNLSARSY 265 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL----PDWPP 326 NCL +VY+G+L + ++ + N G+KSL EIK V+ ++G +G + D Sbjct: 266 NCLEKAGVVYIGELALMSVNELAGLKNLGKKSLDEIKSVMESIGFAVGTSKLSDNKDLLK 325 Query: 327 ESIEEL 332 + IEEL Sbjct: 326 KKIEEL 331 >gi|161511713|emb|CAP16867.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 207 Score = 166 bits (419), Expect = 7e-39, Method: Compositional matrix adjust. Identities = 85/191 (44%), Positives = 128/191 (67%), Gaps = 2/191 (1%) 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 VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLI 171 VTAGDI D+ +LNP+ IC + LT KG GY A + R + 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 INFEEPKKEVK 242 +N ++ K+ + Sbjct: 181 VNLDDQAKDTE 191 >gi|150186978|emb|CAK30140.1| RNA polymerase alpha subunit [Streptococcus sanguinis SK1] Length = 194 Score = 166 bits (419), Expect = 7e-39, Method: Compositional matrix adjust. Identities = 81/184 (44%), Positives = 123/184 (66%) Query: 53 SSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG 112 +SL GAA+T++ I+GVLHE +I GV ED+ IILN+KGI +K K + + GP Sbjct: 1 ASLPGAAVTSINIEGVLHEFDTISGVREDVMQIILNVKGIAVKSYVQDEKIIELDVEGPA 60 Query: 113 VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT 172 VTAGDI T +DIE++NPDH + + A + +TV+ G GYVPA ++ ++ P+G + Sbjct: 61 EVTAGDILTDSDIEIINPDHYLFTIGEGASFKATMTVNSGRGYVPADENKKDDAPVGTLA 120 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 +D++Y+P+ KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L +F Sbjct: 121 VDSIYTPVTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLNLFT 180 Query: 233 NFEE 236 N E Sbjct: 181 NLTE 184 >gi|150187001|emb|CAK30147.1| RNA polymerase alpha subunit [Streptococcus ovis] Length = 202 Score = 165 bits (418), Expect = 7e-39, Method: Compositional matrix adjust. Identities = 81/183 (44%), Positives = 124/183 (67%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAA+T+++IDGVLHE ++ GV ED+ IILNIKGI +K + K + + GP VTA Sbjct: 2 GAAVTSIKIDGVLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKTIELDVVGPAEVTA 61 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 GDI T +DIE++NPDH + + A + LTV+ G GYVPA+ ++ + P+G + +D++ Sbjct: 62 GDILTDSDIEIVNPDHYLFTISEGATFKATLTVNTGRGYVPAEGNKKDEAPVGTLAVDSI 121 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 Y+P+ KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + LG+F + + Sbjct: 122 YTPVVKVNYQVEPARVGSNDGFDKLTLEIMTNGTIIPEDALGLSARILMEHLGLFTDLTD 181 Query: 237 PKK 239 K Sbjct: 182 VAK 184 >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 = 165 bits (418), Expect = 8e-39, Method: Compositional matrix adjust. Identities = 82/181 (45%), Positives = 120/181 (66%) 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 F 231 F Sbjct: 181 F 181 >gi|150036788|emb|CAM98271.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 205 Score = 165 bits (418), Expect = 9e-39, Method: Compositional matrix adjust. Identities = 86/198 (43%), Positives = 128/198 (64%), Gaps = 2/198 (1%) 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 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 I +GP VTA D+Q D+EVLNPD I + + M +T KG GY A ++ Sbjct: 61 EIDVQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYTSADENKKL 120 Query: 165 ND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L ++ Sbjct: 121 RDEMPIGVLAVDSIYTPIERVNYQVENTRVGARDDYDKLTFDIWTNGSIKPSDALSLGAK 180 Query: 223 ILQDQLGMFINFEEPKKE 240 IL + L +F++ E Sbjct: 181 ILAEHLNLFMDISPVAAE 198 >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 = 165 bits (417), Expect = 9e-39, Method: Compositional matrix adjust. Identities = 100/286 (34%), Positives = 165/286 (57%), Gaps = 9/286 (3%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 EN EPL +G T+GNALRR L+S++ G AI +I GV HE S I GV ED + Sbjct: 16 ENVAKFCIEPLSKGQGITIGNALRRTLLSNIPGTAIVGTRISGVDHEFSVIPGVKEDALE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 I+LN+K + K + + + +GP +VTAGDI D+E+++P I + + + Sbjct: 76 ILLNLKQLVFKGNLNEPIITRLNIQGPCIVTAGDIDIPTDLELIDPQQYIATITDFSHLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 ME + +G YV ++ + N+P G + +DA+++PIKKV++ VE++ + L+ ++L + Sbjct: 136 MEFILEQGESYVLSEKTAS-NNPRGFLAVDAVFTPIKKVNFFVETSSSKERLEKERLIIE 194 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKKV 260 I+T+GSI +++ LA+ L + + E P EV+ + V L + Sbjct: 195 IETNGSILPLEALNLAAERLSSLFKLVNSADLTAEFP-TEVENIVQVSQTDVTGVL---I 250 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 EELELSVR+ NCL+ I +G+L++ ++ ++L NFG+KS E+ Sbjct: 251 EELELSVRAYNCLKRAQIHTLGELLKYSKENLLEFKNFGQKSANEV 296 >gi|154424755|emb|CAL18480.1| RNA polymerase alpha subunit [Streptococcus alactolyticus] Length = 196 Score = 165 bits (417), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 82/189 (43%), Positives = 129/189 (68%) 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 FINFEEPKK 239 F + E K Sbjct: 181 FTDLTEVAK 189 >gi|119668323|emb|CAK95461.1| RNA polymerase alpha subunit [Lactobacillus gasseri] Length = 166 Score = 164 bits (416), Expect = 1e-38, Method: Compositional matrix adjust. 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|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 = 164 bits (416), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 110/313 (35%), Positives = 171/313 (54%), Gaps = 26/313 (8%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ V ++ +I PL RG A TLGNALRRVLM L G+A+TA++I GV HE Sbjct: 7 DRIEHQVAEDRAQSGVFLIG-PLERGQATTLGNALRRVLMGGLEGSAVTAIRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 +++ GV ED+ DI+LN K I++ + + GP V AGD+Q + ++V++ D Sbjct: 66 ATVPGVREDVLDILLNCKEISVNSRSAELQIGRLVVAGPAEVKAGDLQFSSQVQVVDADR 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE---- 188 I + + +E+ V +G GY P H E I L+ IDA++ P+ +V++T++ Sbjct: 126 SIATVADGHSLELEVHVERGVGYRPVDRHNEETSAIDLLQIDAVFMPVTRVNFTIDETAV 185 Query: 189 ----SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK-- 242 SARE +L M I TDGSIT +D++A ++ L I +P V Sbjct: 186 AEGGSARE-------RLRMEIVTDGSITPDDALAQSANQL-------IELFQPLATVTLV 231 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 E++ + P A + +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS Sbjct: 232 EEVPAEPEPSAEAQI-PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKS 290 Query: 303 LVEIKGVLGTMGL 315 E+ L +G+ Sbjct: 291 ADEVIEALERIGI 303 >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 = 164 bits (416), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 100/298 (33%), Positives = 167/298 (56%), Gaps = 19/298 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL +G TLGN+LRR ++S L+GAAI AV+I G+ HE S+I GV ED+ +I+LN+ Sbjct: 23 FILEPLNKGQGITLGNSLRRTILSDLQGAAIVAVRIAGINHEFSTITGVREDVLEILLNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK D+ + I +GP ++T G + +I +++P I + + + ME + Sbjct: 83 KKVVLKSHSDTPQIGRIRLQGPAIITTGLFEVPPEILIIDPQQYIATICNNTIFEMEFRI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GY + + I + IDA++ P+ K +YTVE + +L +KL + + T+G Sbjct: 143 EKGSGY-KLVNKGFDKKSIDFLQIDAVFMPVTKFNYTVEEKKISPILIQEKLFLEVWTNG 201 Query: 210 SITGEDSVALASRILQDQLG-----MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 S++ +++++ +++L F N E +E+IN +L +EEL+ Sbjct: 202 SLSPQEAISEGAQVLHSLFYPLTNLNFQNANNTDNEYEEEIN--------QVL--IEELQ 251 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 LSVR+ NCL+ I + DL+ ++ ++L + NFG+KS E+ L LG+ LP Sbjct: 252 LSVRAYNCLKRAQINSISDLLDYSQDELLEIKNFGQKSAEEVIEALQNK---LGIRLP 306 >gi|150036792|emb|CAN89787.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis] Length = 198 Score = 164 bits (416), Expect = 2e-38, Method: Compositional matrix adjust. 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|161511731|emb|CAP16876.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 199 Score = 164 bits (416), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 88/191 (46%), Positives = 125/191 (65%), Gaps = 2/191 (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 VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLI 171 VTAGDI D+ +LNP+ IC + LT G GY A + R + 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 INFEEPKKEVK 242 +N + KE + Sbjct: 181 VNLNDQAKETE 191 >gi|150036836|emb|CAM98283.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax] Length = 215 Score = 164 bits (415), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 86/204 (42%), Positives = 131/204 (64%), Gaps = 2/204 (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 FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND 166 +GP VTA D+Q DIEVLNP+ + + + M +T KG GY A ++ D Sbjct: 61 DVQGPAEVTAADLQGSADIEVLNPELHLATVAAGKSLHMTVTAVKGRGYSSADENKQLRD 120 Query: 167 --PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 PIG++ +D++Y+PI++V+Y VE+ R GQ DYDKL+ I T+GSI D+++L ++IL Sbjct: 121 EMPIGVLAVDSIYTPIERVNYQVENTRVGQRDDYDKLTFDIWTNGSIKPSDALSLGAKIL 180 Query: 225 QDQLGMFINFEEPKKEVKEDINVK 248 + L +F + E + ++V+ Sbjct: 181 SEHLNLFTDISSVAAETEVMVDVE 204 >gi|150036722|emb|CAM98252.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. dextranicum] Length = 189 Score = 164 bits (415), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 86/188 (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 KHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ D 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|119662381|emb|CAJ33179.1| RNA polymerase alpha subunit [Lactobacillus sakei subsp. sakei] Length = 184 Score = 164 bits (415), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 80/183 (43%), Positives = 127/183 (69%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 G A+T +QIDGVLHE S+I GV ED+T IILNIK + LK+ + K + I +GP VTA Sbjct: 2 GTAVTDIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKLHVEEDKTIEIDVKGPATVTA 61 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 DI + +D+EVLN D IC + +++TV KG GYV A +++++ PIG++ ID++ Sbjct: 62 ADIISDDDVEVLNTDQYICTVAEGGNFHVQMTVKKGRGYVAAVQNKSDDMPIGVLPIDSI 121 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 Y+PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA++I+ + L +F++ + Sbjct: 122 YTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLAAKIMTEHLAIFVDLTD 181 Query: 237 PKK 239 K Sbjct: 182 EAK 184 >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 = 164 bits (414), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 111/317 (35%), Positives = 174/317 (54%), Gaps = 18/317 (5%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 NI++ +L + +++I+ PL +GF T+GNALRRVL+ S+ GAA+ A++IDGV HE Sbjct: 8 NIDFKLLESSQYMASVVIS-PLKQGFGTTIGNALRRVLLGSIPGAAVFAIKIDGVDHEFM 66 Query: 74 SIKGVHEDLTDIILNIKGINLKM-------------SGDSHKRVTIFKRGPGVVTAGDIQ 120 + +GV ED+T+IILN+K + + + S + I K GVV A DI+ Sbjct: 67 APEGVLEDVTNIILNVKKLVISIDEKVVDVQSLEEKSISEWPTMKIKKNKAGVVYANDIE 126 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 ++V+N D IC L D MEL + GY +R D + +I+ID+L+SPI Sbjct: 127 CPPGMKVINKDLKICELSKDVEFGMELYATLDRGYRSFSENRERLDTLKIISIDSLFSPI 186 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF--EEPK 238 KV + V + + DKL +T+ T+GS+ D+++LA+ L L F E K Sbjct: 187 VKVEWKVVEEKTTKQGTTDKLHLTLVTNGSVKAADALSLAAHTLISLLEPISAFNPETSK 246 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++ + V + A+ ++ELEL++RS NCL+ I + +L + T A+ + N Sbjct: 247 RKLIGEAEVATKKV--AMATPIDELELTMRSFNCLKQNGINTITELAEMTRAEAENIKNL 304 Query: 299 GRKSLVEIKGVLGTMGL 315 G+KSL EI L GL Sbjct: 305 GKKSLNEIIAKLAEKGL 321 >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 = 164 bits (414), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 96/277 (34%), Positives = 156/277 (56%), Gaps = 1/277 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + + L G T+GN RRVL+S L G AIT V+I GV E S+I G+ ED+ +I+LN+ Sbjct: 23 FVIKSLHPGQGITIGNLFRRVLLSDLGGTAITGVRIAGVRDEFSTIPGIREDILEILLNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KGI LK + K + +GP VVTA IQ +++E++NP+H I + V+ +E + Sbjct: 83 KGIVLKSKTNDLKFGRLKIKGPAVVTANCIQLPSEVEIVNPNHYIATITTSNVLEIEFKI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GY A + + IDA++ P++KV + +E+ + ++L + I T+G Sbjct: 143 ESGTGYKLAGQTFCKKSQ-DYLQIDAIFMPVQKVDFKIENIYDNSNDLTERLFLDIWTNG 201 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 S++ E++V+ ASR + + + P++ + + S P NP +EEL LSVR+ Sbjct: 202 SMSPEEAVSSASRFIISFFSSLLENKLPQETKESENKTLSAPKNPHTNIAIEELHLSVRA 261 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 NCL+ I +GDL++ + + + NFGRKS E+ Sbjct: 262 YNCLKRAQINTIGDLLKYSPEKLQELKNFGRKSADEV 298 >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 = 164 bits (414), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 104/297 (35%), Positives = 167/297 (56%), Gaps = 16/297 (5%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G T+GNALRRVL+S+L G+A+TAV+I GV HE S+I GV ED+ DI+L +K + Sbjct: 26 PLAPGQGITVGNALRRVLLSNLPGSAVTAVRIAGVNHEFSTIPGVREDVMDILLQMKQLV 85 Query: 94 LKMSGDSHKRVTIFKRGPG----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 ++ + +F + P VTAG +Q +++EV+NP+H I L A + ME + Sbjct: 86 IRSHTSEPQMGRLFAQAPENEPLTVTAGMVQLGSEVEVVNPNHYIATLMPGATLEMEFKI 145 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR----EGQVLDYDKLSMTI 205 K GY + R + + + +DA++ P+++V+YTV+S R EG D L + I Sbjct: 146 EKDRGYRSVERVRDDRLALDYLQLDAVFMPVRRVNYTVDSVRSAGAEGDRQLQDYLKLEI 205 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+GS+T +D++ A+ IL D +F +E E + +E+L L Sbjct: 206 WTNGSLTPQDALNQAATILVD---LFSPLKEVPLHTSEATATDDHDETGQI--PIEQLNL 260 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 SVR+ NCL+ + + DL++ ++ ++L + NFG+KS E V+ + LG+ LP Sbjct: 261 SVRAYNCLKRAQVNTVADLLEYSQEELLEIKNFGQKSAEE---VIEALQKHLGITLP 314 >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 = 164 bits (414), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 103/294 (35%), Positives = 166/294 (56%), Gaps = 17/294 (5%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 +PL G T+GNALRRVL+S L G AIT+ ++ G +HE S I G ED+ +I+LN+K I Sbjct: 26 QPLKLGQGLTIGNALRRVLLSDLEGIAITSARVSGSVHEFSEIPGTREDVLEILLNLKKI 85 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LK S + +GP +VTA D + + ++ ++P I + V+ +E+++S G Sbjct: 86 VLKGSSKDAGIARLKVQGPCIVTASDFELPSFVKAVDPSQYIATICDSNVLEIEVSISAG 145 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GY ++ L +DA++ P+ KV+YT+E + +KL++ I T+GS+T Sbjct: 146 RGYKLVNRQSLDSGKDSL-ELDAVFMPVNKVNYTIEEINTDFPIAEEKLTLEIWTNGSLT 204 Query: 213 GEDSVALASRILQDQLG----MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 E+S+ A+ +L D L + + EE KE VK+LP +E+L+LSVR Sbjct: 205 PEESLMQAATVLTDILAPIQRIHLTDEEDFPADKEP-EVKNLP--------IEDLKLSVR 255 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 + NCL+ NI Y DL+ R++ ++L + NFG+K E+ L + +G+ LP Sbjct: 256 AYNCLKQINIDYTEDLLTRSQEELLEIKNFGKKCCEEVTQALKNI---VGLTLP 306 >gi|150186935|emb|CAK30131.1| RNA polymerase alpha subunit [Streptococcus macedonicus] Length = 203 Score = 164 bits (414), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 82/187 (43%), Positives = 127/187 (67%) 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 NFEEPKK 239 + E K Sbjct: 181 DLTEVAK 187 >gi|150036716|emb|CAM98021.1| DNA-directed RNA polymerase alpha chain [Fructobacillus durionis] Length = 197 Score = 164 bits (414), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 88/194 (45%), Positives = 124/194 (63%), Gaps = 2/194 (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 TEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 D PIG++T+D++Y+PI++V+Y VE R G D+DKL+M + T+GSI D+++L Sbjct: 121 QLRDEMPIGVLTVDSIYTPIERVNYHVEQKRVGSRDDFDKLTMEVWTNGSIKPSDALSLG 180 Query: 221 SRILQDQLGMFINF 234 S+IL + L +F + Sbjct: 181 SKILTEHLNLFTDI 194 >gi|76665073|emb|CAJ17984.1| DNA-directed RNA polymerase alpha subunit [Candidatus Phytoplasma solani] Length = 318 Score = 164 bits (414), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 104/307 (33%), Positives = 174/307 (56%), Gaps = 10/307 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I +PL RG+ T+GNALRR+L+SSL GAAI V+I+GV E ++I GV+ED+ IILN+ Sbjct: 15 FIIQPLERGYGVTIGNALRRILLSSLPGAAIVNVKIEGVEQEFTTIPGVYEDVMTIILNL 74 Query: 90 KGINLKM---SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 K I K+ S D +++ I GP VTA + + ++NP H I + + M Sbjct: 75 KKIVFKVDDESDDFEEQLEINLTGPKKVTAACFELPAGVTIINPKHHITTISDNINFHMT 134 Query: 147 LTVSKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVL-DYDKLSMT 204 +T+ KG GYV AK ++ ++ IG+I ID+L++P+ V+Y V G+ L + D+L++ Sbjct: 135 VTIKKGIGYVGAKDNKIHSENQIGVIAIDSLFTPVLDVAYQV-----GKKLGNKDELTIQ 189 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 I T+G+ ++++ A++IL + + + + ++ K N L ++E+L+ Sbjct: 190 ITTNGAAVAKEALVTAAKILVEHFNVIVELSQKVANIEFIPETKEEAHNYVLDLEIEQLD 249 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 LSVR N L+ I + L++ +E +++++ + GRKS E+K GL L + Sbjct: 250 LSVRLFNSLKRAGINTVAALVKLSEKEVVKLKSLGRKSFQELKDKFVEYGLEFNDYLKEA 309 Query: 325 PPESIEE 331 S EE Sbjct: 310 LHHSTEE 316 >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 = 163 bits (413), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 107/309 (34%), Positives = 169/309 (54%), Gaps = 14/309 (4%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + ++Y + + ++ +I PL RG A TLG ALRRVLMS L G A+TAV+I GV HE Sbjct: 7 DRVDYQIADDQSQSGVFVIG-PLDRGQATTLGTALRRVLMSGLEGTAVTAVRIAGVNHEY 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 GQVLDY-DKLSMTIDTDGSITGEDSVALASR---ILQDQLGMFINFEEPKKEVKEDINVK 248 G+ ++L + I+T+GSIT +D++A A+ L L EEP +E E Sbjct: 186 GEGGSARERLRLEINTNGSITPDDALAYAANQLIALFQPLATVTLAEEPGQE-PEPSAES 244 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 +P EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ Sbjct: 245 QIPL--------EELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGAKSADEVIE 296 Query: 309 VLGTMGLFL 317 L +G+ L Sbjct: 297 ALERIGISL 305 >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 = 163 bits (413), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 83/208 (39%), Positives = 135/208 (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 ADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +M+++ N GRKSL E+K L +GL L Sbjct: 181 PEMMKVRNLGRKSLEEVKIKLADLGLGL 208 >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 = 163 bits (413), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 104/301 (34%), Positives = 170/301 (56%), Gaps = 10/301 (3%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 N +A+P RG+A T+GNALRRVL+SS+ G AITA++IDGV +E ++ G+ ED + Sbjct: 26 NYGKFVAQPFERGYATTIGNALRRVLLSSIPGYAITAIKIDGVTNEFENVPGMKEDTIVM 85 Query: 86 ILNIKGINLKMSGD-SHKRVTIFKRGPGVVT-AGDIQTVNDIEVLNPDHVICNLDVDAVV 143 I+++K + + + + K + I K GP VT A D+ V NP+H I + Sbjct: 86 IMHLKNVVVALPENVDAKTIHIKKEGPCTVTAADFASADADVSVFNPEHHIATIAEGYTF 145 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD-YDKLS 202 M++ + G+ YVPA+ + + + I IDA+YSPI V + V+ R GQ ++ Y KL+ Sbjct: 146 EMDVQIESGYNYVPAEVNMELLEDVNAIAIDAIYSPIVSVKFAVDDVRVGQRINYYGKLT 205 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL----LK 258 + I+T G+I E +++ A+++L+D L F+ P++ +D ++ P + L K Sbjct: 206 LEIETKGNIAPEKALSWAAKLLRDNLTPFM---LPEEANGDDEKIEETPKDSVLDSLKDK 262 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 VEE+E SVR+ N L ++ + + +T+AD+LR+ + EIK L LG Sbjct: 263 HVEEVEFSVRTANFLISSDLKTLDKVALKTDADLLRLIGANEMIIEEIKEKLAEYNAHLG 322 Query: 319 M 319 M Sbjct: 323 M 323 >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 = 163 bits (412), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 104/297 (35%), Positives = 161/297 (54%), Gaps = 23/297 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + PL G T+GN RRVL+ L GA IT+VQI GV HE S+I GV E + DI+LN+ Sbjct: 28 FVIAPLEIGQGITVGNVFRRVLLGDLEGACITSVQIPGVNHEFSTIHGVREAVLDILLNL 87 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK +R + +GP V A D+Q + IE+++PD I + + ME TV Sbjct: 88 KEIVLKTQSQETQRGHLSVQGPSTVLARDLQLPSSIELVDPDQYIATISGRVSLNMEFTV 147 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GY + + + + ++ IDA++ P+ KV+YTVE G +++ + + T+G Sbjct: 148 EVGKGYQLPDYEKKKTFQVDVLPIDAVFMPVTKVNYTVEENYGGD-RSQERVIIEVWTNG 206 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK--------VE 261 SI ++ L+ + IN P + NV+S+ P + +K VE Sbjct: 207 SINSRQAIDLS-------VNKIINLFSPLQ------NVRSIEHEPLVKEKDSKMTEVLVE 253 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE-IKGVLGTMGLFL 317 EL+LSVR+ NCL+ I + DL+ ++ D+L + NFGR+S E I+G+ +G+ L Sbjct: 254 ELDLSVRAYNCLKRAQIHTVSDLLSYSQEDLLEIKNFGRRSAEEVIEGLQKRLGIHL 310 >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 = 163 bits (412), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 107/313 (34%), Positives = 169/313 (53%), Gaps = 26/313 (8%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ + + +I PL RG A TLGN+LRRVLM +L G A+TAV+I GV HE Sbjct: 7 DRIEHQIADDRSQTGVFLIG-PLERGQATTLGNSLRRVLMGNLEGTAVTAVRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K I + + + GP V A D+Q + ++V++ + Sbjct: 66 ATIPGVREDVLDILLNCKQITVNSRTSELEIGRLVVAGPATVKARDLQFSSQVQVIDGER 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE---- 188 VI + + +E+ V +G GY P H + I L+ IDA++ P+ +V++T++ Sbjct: 126 VIATVGESYSLELEVHVERGIGYRPVDRHNEDTSAIDLLQIDAVFMPVHRVNFTIDETAV 185 Query: 189 ----SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK-- 242 SARE +L M + TDGSIT +D++A A+ I +P V Sbjct: 186 AEGGSARE-------RLRMEVVTDGSITPDDAIAQAA-------NQLIELFQPLATVTMV 231 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 E+++ + P A + +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS Sbjct: 232 EEVSAEPEPTAEAQI-PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKS 290 Query: 303 LVEIKGVLGTMGL 315 E+ L +G+ Sbjct: 291 ADEVIEALERIGI 303 >gi|119668357|emb|CAK95473.1| RNA polymerase alpha subunit [Lactobacillus pontis] Length = 179 Score = 163 bits (412), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 85/177 (48%), Positives = 128/177 (72%), Gaps = 2/177 (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 AKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 A + R E+ IG++ ID++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T Sbjct: 121 ANDNKARMEDLAIGVLPIDSIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLT 177 >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 = 163 bits (412), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 103/293 (35%), Positives = 162/293 (55%), Gaps = 27/293 (9%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG A TLGNALRRVLM L G+A+TAV+I GV HE +++ GV ED+ DI+LN K ++ Sbjct: 27 PLERGQATTLGNALRRVLMGGLEGSAVTAVRIAGVNHEYATVPGVREDVLDILLNCKQLS 86 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 + + + GP V A D+Q + ++V++P+ I + + +E+ V +G Sbjct: 87 VNSRTSELEIGRLVVAGPAEVKARDLQFSSQVQVVDPERPIATVSDGHSLELEVHVERGI 146 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE--------SAREGQVLDYDKLSMTI 205 GY P H + I L+ IDA++ P+++V+++++ SARE +L M + Sbjct: 147 GYRPVDRHNEDTSAIDLLQIDAVFMPVQRVNFSIDETAVAEGGSARE-------RLRMEV 199 Query: 206 DTDGSITGEDSVALASRILQD---QLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 TDGSIT +D++A A+ +L + L EEP E + + +P EE Sbjct: 200 VTDGSITPDDAIAQAANLLIELFQPLATVTMVEEPGLEPEPSAEAQ-IPL--------EE 250 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 L LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L +G+ Sbjct: 251 LNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALERIGI 303 >gi|150186985|emb|CAK30142.1| RNA polymerase alpha subunit [Streptococcus gallolyticus subsp. gallolyticus] Length = 204 Score = 163 bits (412), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 80/183 (43%), Positives = 125/183 (68%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAA+T+++IDGVLHE +I GV ED+ IILNIKG+ +K D K + + GP VTA Sbjct: 2 GAAVTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVTA 61 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 GDI T +D+E++NPDH + + ++ +TV+K GYVPA+ ++ E+ P+G + +D++ Sbjct: 62 GDILTDSDVEIVNPDHYLFTIAEGHSLKATMTVAKKRGYVPAEGNKKEDAPVGTLAVDSI 121 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E Sbjct: 122 YTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTE 181 Query: 237 PKK 239 K Sbjct: 182 VAK 184 >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 = 163 bits (412), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 98/290 (33%), Positives = 167/290 (57%), Gaps = 8/290 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A ++GN+LRR L+SSL G AI V I+GV HE ++I GV+ED+ IILN+ Sbjct: 24 FIFYPLVKGHATSIGNSLRRTLLSSLPGTAIVNVSIEGVEHEFTTISGVYEDVMTIILNL 83 Query: 90 KGINLKM---SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 K I K+ S D +++ I GP +TA ++++NP+ I + D M Sbjct: 84 KKIIFKVDDESNDFEEKLKISLSGPQKITAASFGLPEGVKIINPEAPIATISSDINFNMT 143 Query: 147 LTVSKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 T+ KG GYV AK ++ ++ +G+I ID+L++P+ V+Y VE ++ + ++L+M I Sbjct: 144 ATIKKGIGYVSAKDNKVHSENQLGVIPIDSLFTPVVNVAYQVEK----KIGNKEELTMEI 199 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ ++++A A++IL + + + V+ K N L ++E+L+L Sbjct: 200 TTNGALLAKEALATAAKILVEHFNVVSELSQQTPNVEFVSERKPEAHNYFLDLEIEQLDL 259 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 SVR N L+ I + DL++ +E +++++ + GRKS E+K GL Sbjct: 260 SVRLFNSLKRAGINTVADLVKLSEREVVKLKSLGRKSFQELKDKFVEYGL 309 >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 = 162 bits (411), Expect = 5e-38, Method: Compositional matrix adjust. Identities = 107/298 (35%), Positives = 174/298 (58%), Gaps = 12/298 (4%) Query: 15 IEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISS 74 +E +V+ E MI EPL G A T+GNALRRVL+S + G I +V+I G+ HE S+ Sbjct: 13 LESMVINSREIYGKFMI-EPLSYGQAITVGNALRRVLLSDVPGVTIVSVRIAGINHEFST 71 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 +KGV ED+ +I+LN+K I LK + ++ + +GP +VT+G I+ DI V++P I Sbjct: 72 VKGVKEDVLEILLNLKNIVLKGNVLKNQIGRLKVQGPAIVTSGQIEFPLDITVVDPCQYI 131 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 + + + MEL V K GY + ++ P+ + ID+++ P+KKV+Y VE + + Sbjct: 132 ATISGNDYLEMELKVEKSSGYKLVETF-SKKSPLDFLPIDSIFMPVKKVNYYVEEILDSK 190 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 V Y+KL + + T+GS++ + S+ AS D L N P + + S+ Sbjct: 191 V-AYEKLILELWTNGSLSPQQSINYAS----DNLVKLFN---PLRVLDFSKESSSVYEQN 242 Query: 255 ALLKK--VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +L+K+ +EEL LSVR+ NCL+ + +GDL++ + D+L + NFG+KS+ E+ L Sbjct: 243 SLIKQKLIEELCLSVRAYNCLKRVQVDSIGDLLEYSIGDLLEIKNFGQKSVEEVSKAL 300 >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 = 162 bits (410), Expect = 6e-38, Method: Compositional matrix adjust. Identities = 106/303 (34%), Positives = 171/303 (56%), Gaps = 10/303 (3%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +N+ + A P G+A TL + LRR+L+ S G A TA++I+G HE S++G+ ED+ Sbjct: 21 KNKIKISAYPFESGYAITLAHPLRRLLLGSSVGFAPTALKIEGAAHEFDSVRGIMEDVAL 80 Query: 85 IILNIKGINLKMSGDSHKRVTI---FKRGPGVVTAGDIQTVND-IEVLNPDHVICNLDVD 140 I+N+K I KM GD+ +RVT+ FK GP + D+ VND ++V+ P+ + ++ D Sbjct: 81 FIVNLKSIRFKMRGDA-ERVTLDYSFK-GPATIKGSDL--VNDYVDVVTPNQHLATINED 136 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 A + L V KG GYVP++ R P G I +DA ++P+KK +Y +E+ Y+K Sbjct: 137 ATLTFSLIVQKGIGYVPSEETRNLI-PEGYIPLDAYFTPVKKATYEIENVLVEDNPTYEK 195 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 + + I+TDG I + A ++Q Q+ +F N E + + + P LL+K+ Sbjct: 196 IVLEIETDGLIEPIAAFKDALGVMQKQMSVF-NSEWSVSSAESTSSDEEDPELKPLLQKI 254 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 E L LS RS NCL + ++G+L+ E ++ + N G+KS EIK L +G +G + Sbjct: 255 EALNLSARSFNCLDRAGMKFVGELVLLGENELKEVKNLGKKSFDEIKDKLEEIGYPVGSD 314 Query: 321 LPD 323 L + Sbjct: 315 LAE 317 >gi|154424865|emb|CAL18535.1| RNA polymerase alpha subunit [Streptococcus thoraltensis] Length = 203 Score = 162 bits (410), Expect = 6e-38, Method: Compositional matrix adjust. Identities = 80/190 (42%), Positives = 129/190 (67%) 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 MFINFEEPKK 239 +F + E K Sbjct: 181 LFTDLTEVAK 190 >gi|154424863|emb|CAL18534.1| RNA polymerase alpha subunit [Streptococcus thoraltensis] Length = 200 Score = 162 bits (410), Expect = 6e-38, Method: Compositional matrix adjust. Identities = 80/190 (42%), Positives = 129/190 (67%) 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 MFINFEEPKK 239 +F + E K Sbjct: 181 LFTDLTEVAK 190 >gi|150036708|emb|CAM98019.1| DNA-directed RNA polymerase alpha chain [Leuconostoc carnosum] Length = 199 Score = 162 bits (410), Expect = 7e-38, Method: Compositional matrix adjust. Identities = 86/196 (43%), Positives = 126/196 (64%), Gaps = 2/196 (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 QDQLGMFINFEEPKKE 240 + L +F++ E Sbjct: 181 AEHLNLFMDISPVAAE 196 >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 = 162 bits (410), Expect = 7e-38, Method: Compositional matrix adjust. Identities = 103/323 (31%), Positives = 181/323 (56%), Gaps = 19/323 (5%) 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 LSGD--KVSGIQESFPELLTNLKSIAVILPEEVESLEVSVDLSGKSEILAEDFIGESELK 118 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 + NP I ++ A + L +S+G GY K P IDALY+P+++V+ + Sbjct: 119 LSNPTEHIATVEAGAQGSISLFISRGQGYSGEKAEGRVEAPKEYQDIDALYTPVERVNMS 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK---- 242 +E+ R G + DYD+L++ + T+GS++ ED+++ A+++L L +F+ E + Sbjct: 179 IENTRVGNMTDYDRLTLDVYTNGSMSPEDAISKAAQMLFQHLDLFVALSEEVAATELMVD 238 Query: 243 --EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ED K + N ++ELELSVRS NCL+ I + +L +T DM+++ N GR Sbjct: 239 KPEDEKGKVMEMN------IDELELSVRSYNCLKRAGINTVSELTSKTPEDMMKVRNLGR 292 Query: 301 KSLVEIKGVLGTMGLFLGMNLPD 323 KSL E+ L L LG++ P+ Sbjct: 293 KSLEEVLAKL--RDLNLGLSFPE 313 >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 = 162 bits (410), Expect = 7e-38, Method: Compositional matrix adjust. Identities = 109/313 (34%), Positives = 170/313 (54%), Gaps = 26/313 (8%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ V ++ +I PL RG A TLGNALRRVLM L G+A+TA++I GV HE Sbjct: 7 DRIEHQVADDRAQSGVFLIG-PLERGQATTLGNALRRVLMGGLEGSAVTAIRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 +++ GV ED+ DI+LN K + + + + GP V AGD+Q + ++V++ D Sbjct: 66 ATVPGVREDVLDILLNCKELTVNSRSAELEIGRLVVAGPAEVKAGDLQFSSQVQVVDTDR 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE---- 188 I + + +EL V +G GY P H E I L+ IDA++ P+ +V++T++ Sbjct: 126 PIATVADGHSLELELHVERGVGYRPVDRHNEETSAIDLLQIDAVFMPVTRVNFTIDETAV 185 Query: 189 ----SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK-- 242 SARE +L M I TDGSIT ++++A ++ L I +P V Sbjct: 186 AEGGSARE-------RLRMEIVTDGSITPDEALAQSANQL-------IELFQPLATVTLV 231 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 E++ + P A + +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS Sbjct: 232 EEVPAEPEPSAEAQI-PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKS 290 Query: 303 LVEIKGVLGTMGL 315 E+ L +G+ Sbjct: 291 ADEVIEALERIGI 303 >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 = 162 bits (409), Expect = 8e-38, Method: Compositional matrix adjust. Identities = 105/287 (36%), Positives = 155/287 (54%), Gaps = 11/287 (3%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG A TLGN+LRRVLM SL G+AITAV+I GV HE ++I GV ED+ DI+LN K ++ Sbjct: 27 PLDRGHAITLGNSLRRVLMGSLEGSAITAVRIAGVSHEYATIPGVREDVLDILLNCKQVS 86 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 + + + GP VTA D Q + ++V+ I + + ME+ V +G Sbjct: 87 ISSRNQELEIGRLVVSGPANVTAADFQFSSQVQVVYGSSPIVTIAEGHSIEMEVHVERGV 146 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY-DKLSMTIDTDGSIT 212 GY P H + I L+ IDA++ P+++V+YT++ G+ ++L + I+T+GSIT Sbjct: 147 GYRPVNRHNEDTSAIDLLQIDAVFMPVRRVNYTIDETAVGEGGSARERLRLEIETNGSIT 206 Query: 213 GEDSVALASRILQDQLGMFINFE--EPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 ED++A A+ L N E E +P EEL LSVR+ Sbjct: 207 PEDAMAEAANQLISMFQPLANLTMVEEPIPEPEPPTEAQIPL--------EELNLSVRAY 258 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ + + DL+ + D+L + NFG KS E+ L +GL L Sbjct: 259 NCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALERIGLSL 305 >gi|119662827|emb|CAJ33206.1| RNA polymerase alpha subunit [Lactobacillus gastricus] Length = 172 Score = 162 bits (409), Expect = 8e-38, Method: Compositional matrix adjust. Identities = 82/172 (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 TEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 + D IG++ ID++Y+PI +V+YTVE+ R GQ DYDKL++ + T+GS+T Sbjct: 121 SNMDMSAIGVLPIDSIYTPIDRVNYTVENTRVGQSNDYDKLTLDVWTNGSLT 172 >gi|150187178|emb|CAK30188.1| RNA polymerase alpha subunit [Streptococcus acidominimus] Length = 174 Score = 162 bits (409), Expect = 8e-38, Method: Compositional matrix adjust. Identities = 78/173 (45%), Positives = 121/173 (69%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAA+T+++IDGVLHE ++ GV ED+ IILNIKGI +K + K + + GP +TA Sbjct: 2 GAAVTSIKIDGVLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKTIELDVTGPAEITA 61 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 GDI T +DIE++NPDH + + A + +TV+ G GYVPA+ ++ ++ P+G + +D++ Sbjct: 62 GDILTDSDIEIVNPDHYLFTISEGATFKAMMTVNTGRGYVPAEGNKKDDAPVGTLAVDSI 121 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + LG Sbjct: 122 YTPVKKVNYQVEPARVGSNDGFDKLTLEIMTNGTIIPEDALGLSARILMEHLG 174 >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 = 162 bits (409), Expect = 8e-38, Method: Compositional matrix adjust. Identities = 99/296 (33%), Positives = 169/296 (57%), Gaps = 21/296 (7%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + + +PL RGF HTLGN+LRRVL+S++ G ++ A++I V HE SIKGV EDLT IILN Sbjct: 23 VFVFKPLERGFGHTLGNSLRRVLLSNIIGHSLFAIKIPNVSHEFQSIKGVKEDLTQIILN 82 Query: 89 IKGINLKMS----GDSHKRVTIFKRGP---------GVVTAGDIQTVNDIEVLNPDHVIC 135 +K + +K+ G+ ++ T ++ P GV+ A DI+T E++N D I Sbjct: 83 LKRLVVKIDQEIFGEEEQKETSLEKWPTLKIDFSKGGVLKASDIETPVGFEIINKDMYIA 142 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 ++ +MEL V G G+ ++ + I +I +D+ +SP+ KV Y V + + Sbjct: 143 TIESGVKFKMELFVKTGRGFTTFSENKELINAINVIAVDSNFSPVLKVGYKVSDIKTTKN 202 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLG-----MFINFEEPKKEVKEDINVKSL 250 D L + + T+G+++ ++VA++++IL + +F N+ + + + E+ V S Sbjct: 203 EINDVLELEVATNGAVSAAEAVAMSAKILLEHYKPIVTELFDNYNDLRI-INEEATVSSS 261 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + A+ ++ELELSVRS NCL+ I + L +T+ ++ ++ N G+KS EI Sbjct: 262 KSSLAI--SIDELELSVRSYNCLKRAGIHTITQLTDKTKGEIEKIRNLGKKSFKEI 315 >gi|145586271|emb|CAM91230.1| RNA polymerase alpha-subunit [Lactobacillus plantarum subsp. argentoratensis] Length = 176 Score = 162 bits (409), Expect = 9e-38, Method: Compositional matrix adjust. Identities = 84/176 (47%), Positives = 121/176 (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 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK--HHRTENDPIGLITIDALYSPIKKV 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|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 = 162 bits (409), Expect = 9e-38, Method: Compositional matrix adjust. Identities = 101/296 (34%), Positives = 164/296 (55%), Gaps = 15/296 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL +G TLGNALRR ++S L G AI AV+I GV HE S+I GV ED+ +I+LN+ Sbjct: 23 FVIEPLNQGQGITLGNALRRSILSDLEGTAIVAVRIAGVNHEFSTIPGVREDVLEILLNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + K + I +GP +VTAG + +DIEV++P I + + + ME + Sbjct: 83 KEVVFKSYNKESQIGRIRVQGPAIVTAGLFELSSDIEVVDPRQYIATICNNTIFEMEFKI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 K GY A+ E + + +D+++ P+ KV+Y VE R G D+L + I T+G Sbjct: 143 EKNCGYRLAEKAVDEL-SVDFLQVDSVFMPVNKVNYKVEEVRIGSNSIKDRLIIQIWTNG 201 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALLKKVEELELS 266 SI+ +++++ + +L + N + + KED + + +EEL+LS Sbjct: 202 SISPQEAISQGATVLTNLFCSLRNLDFKSADNYRSKEDKKISQVL--------IEELQLS 253 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 VR+ NCL+ I + DL+ ++ ++L + NFG+KS E V+ + LG++LP Sbjct: 254 VRAYNCLKRAQIHSIADLLDYSQEELLEIKNFGQKSAEE---VIYALQKKLGISLP 306 >gi|150187007|emb|CAK30149.1| RNA polymerase alpha subunit [Streptococcus pluranimalium] Length = 200 Score = 162 bits (409), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 79/189 (41%), Positives = 128/189 (67%) 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 FINFEEPKK 239 F + E K Sbjct: 181 FTDLTEVAK 189 >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 = 161 bits (408), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 106/314 (33%), Positives = 169/314 (53%), Gaps = 28/314 (8%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ + + +I PL RG A TLGN+LRRVLM L G+A+TAV+I GV HE Sbjct: 7 DRIEHQIADDRAQTGVFLIG-PLERGQATTLGNSLRRVLMGGLEGSAVTAVRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 +++ GV ED+ DI+LN K +++ + + GP V A D+Q + ++V++P+ Sbjct: 66 ATVPGVREDVLDILLNCKQLSVNSRSSELEIGRLVVAGPSEVKARDLQFSSQVQVVDPER 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE---- 188 I + + +EL V +G GY P H + + I L+ IDA++ P+ +V+++++ Sbjct: 126 TIATVSDGHSLELELHVERGIGYRPVDRHSEDTNAIDLLQIDAVFMPVHRVNFSIDETAV 185 Query: 189 ----SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD---QLGMFINFEEPKKEV 241 SARE +L M + TDGSIT +D++A A+ L + L EEP E Sbjct: 186 AEGGSARE-------RLRMEVVTDGSITPDDAIAEAANQLIELFQPLATVTMVEEPGLEP 238 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +P EEL LSVR+ NCL+ + + DL+ + D+L + NFG K Sbjct: 239 EPSAEAQ-IPL--------EELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSK 289 Query: 302 SLVEIKGVLGTMGL 315 S E+ L +G+ Sbjct: 290 SADEVIEALERIGI 303 >gi|161511775|emb|CAP16898.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 193 Score = 161 bits (408), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 86/188 (45%), Positives = 123/188 (65%), Gaps = 2/188 (1%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAAIT+VQID VLHE S+I+GV ED+T IILN+K ++LK+ D K + I GP VTA Sbjct: 2 GAAITSVQIDSVLHEFSTIEGVVEDVTQIILNLKKVSLKIESDEDKTLEINVAGPANVTA 61 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITID 174 GDI D+ +LNP+ IC + LT G GY A + R + PIG++ ID Sbjct: 62 GDIMGDGDVVILNPELPICTVAEGTTFHAVLTADTGRGYTSADENKARKVDMPIGVLPID 121 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 ++Y+PI++V+Y VE+ R GQ DYDKL++ I TDGSIT ++ +L+++IL + L +F+N Sbjct: 122 SIYTPIERVNYQVENTRVGQRDDYDKLTLDIWTDGSITPSEATSLSAKILTEHLAIFVNL 181 Query: 235 EEPKKEVK 242 + KE + Sbjct: 182 NDQAKETE 189 >gi|154424813|emb|CAL18509.1| RNA polymerase alpha subunit [Streptococcus intermedius] Length = 177 Score = 161 bits (408), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 78/177 (44%), Positives = 121/177 (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 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 +P+KKV+Y VE AR G +DKL++ I TDG+I ED++ L++RIL + L +F N Sbjct: 121 TPVKKVNYQVEPARVGSNDSFDKLTLEIMTDGTIIPEDALGLSARILTEHLDLFTNL 177 >gi|150187174|emb|CAK30187.1| RNA polymerase alpha subunit [Streptococcus devriesei] Length = 161 Score = 161 bits (408), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 76/160 (47%), Positives = 113/160 (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 YVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 Y+PA+ ++ ++ P+G + ID++Y+P+KKV+Y VE AR G Sbjct: 121 YIPAEENKKDDAPVGTLAIDSIYTPVKKVNYQVEPARVGS 160 >gi|150036842|emb|CAM98286.1| DNA-directed RNA polymerase alpha chain [Leuconostoc carnosum] Length = 179 Score = 161 bits (408), Expect = 1e-37, Method: Compositional matrix adjust. 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|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 = 161 bits (408), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 107/290 (36%), Positives = 162/290 (55%), Gaps = 11/290 (3%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 L + PL RG A TLGN+LRRVLM L G+A+TAV+I GV HE ++I GV ED+ DI+LN Sbjct: 22 LFLIGPLERGQATTLGNSLRRVLMGGLEGSAVTAVRISGVNHEYATIPGVREDVLDILLN 81 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 K +++ + + GP V A D+Q + ++V++ D I + + +EL Sbjct: 82 CKQLSVNSRSPELEIGRLVVNGPAEVKARDVQFSSQVQVVDGDRPIATVHSGHSLELELH 141 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV-ESAREGQVLDYDKLSMTIDT 207 V +G GY P H E I L+ IDA++ PIKKV++ + E+A ++L M I T Sbjct: 142 VERGVGYRPVDRHNEETTSIDLLHIDAVFMPIKKVNFNIDETAVAEGGSTRERLKMEIVT 201 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVK--EDINVKSLPFNPALLKKVEELEL 265 DGS++ +D++A A+ L I +P V E+I + P A + +EEL L Sbjct: 202 DGSMSPDDALAEAANQL-------IELFQPLATVTMVEEIPQEPEPSAEAQI-PLEELNL 253 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 SVR+ NCL+ + + DL+ + D+L + NFG KS E+ L +G+ Sbjct: 254 SVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALERIGI 303 >gi|154424731|emb|CAL18468.1| RNA polymerase alpha subunit [Streptococcus thermophilus] Length = 179 Score = 161 bits (407), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 78/178 (43%), Positives = 123/178 (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 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L +F + Sbjct: 121 YTPVKKVNYQVEPARVGSNDGFDKLTIEIVTNGTIIPEDALGLSARILIEHLNLFTDL 178 >gi|150036732|emb|CAM98257.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. mesenteroides] Length = 186 Score = 161 bits (407), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 84/186 (45%), 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 KHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ D 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|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 = 161 bits (407), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 107/288 (37%), Positives = 160/288 (55%), Gaps = 13/288 (4%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG A TLGNALRRVLM + G+AITAV+I GV HE ++I GV ED+ DI+LN K + Sbjct: 27 PLDRGQAITLGNALRRVLMGGMEGSAITAVRIAGVNHEYATIPGVREDVLDILLNCKEVV 86 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 + + + GP VTA D+Q + ++V++ D I + + +E+ V KG Sbjct: 87 VNSRNRDLEIGRLIVNGPASVTAADLQFSSQVQVIDFDRPIATVAEGHSLELEVHVEKGV 146 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY-DKLSMTIDTDGSIT 212 GY P H + I L+ IDA++ P+++V+YTV+ G+ ++L + I T GSIT Sbjct: 147 GYRPVDRHHEDTSAIDLLQIDAVFMPVRRVNYTVDETAVGEGGSARERLRLEIVTSGSIT 206 Query: 213 GEDSVALAS-RILQ--DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +D++A A+ +++Q L EEP E E +P EEL LSVR+ Sbjct: 207 PDDAMAQAANQLIQLFQPLASLTMVEEPGLE-PEPSAESQIPL--------EELNLSVRA 257 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ + + DL+ + D+L + NFG KS E+ L +G+ L Sbjct: 258 YNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALERIGISL 305 >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 = 161 bits (407), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 107/313 (34%), Positives = 169/313 (53%), Gaps = 26/313 (8%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ + + +I PL RG A TLGN+LRRVLM +L G A+TAV+I GV HE Sbjct: 7 DRIEHQIADDRSQTGVFLIG-PLERGQATTLGNSLRRVLMGNLEGTAVTAVRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K I + + + GP V A D+Q + ++V++ + Sbjct: 66 ATIPGVREDVLDILLNCKQITVNSRTSELEIGRLVVAGPATVKARDLQFSSQVQVVDGER 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE---- 188 I + + +E+ V +G GY P H + I L+ IDA++ P+ +V++T++ Sbjct: 126 AIATVGEGYSLELEVHVERGIGYRPVDRHNEDTSAIDLLQIDAVFMPVHRVNFTIDETAV 185 Query: 189 ----SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK-- 242 SARE +L M + TDGSIT +D++A A+ L I +P V Sbjct: 186 AEGGSARE-------RLRMEVVTDGSITPDDAIAQAANQL-------IELFQPLATVTMV 231 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 E+++ + P A + +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS Sbjct: 232 EEVSAEPEPTAEAQI-PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKS 290 Query: 303 LVEIKGVLGTMGL 315 E+ L +G+ Sbjct: 291 ADEVIEALERIGI 303 >gi|150187056|emb|CAK30161.1| RNA polymerase alpha subunit [Streptococcus cristatus ATCC 51100] Length = 172 Score = 161 bits (407), Expect = 2e-37, Method: Compositional matrix adjust. 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|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 = 161 bits (407), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 103/292 (35%), Positives = 167/292 (57%), Gaps = 13/292 (4%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL +G TLGNALRR L+S L G AI AV+I GV HE S+I G+ ED+ +I+LN+K + Sbjct: 26 EPLEQGQGVTLGNALRRTLLSDLEGTAIVAVRIAGVSHEFSTIPGIREDVLEILLNLKEV 85 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LK + + +GP +VT +++ +++E+++P+ I + + ++ ME + G Sbjct: 86 VLKSQTKNPSVGRLRVQGPAIVTTSNLELPSEVELIDPNQYIATICGNNILEMEFRIETG 145 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GY + E I + +DA++ P+KKV+Y + R L ++L + + T+GSI Sbjct: 146 KGYHLIERSIDETS-IDFLQVDAIFMPVKKVNYLTKDIRSNDNLLQEQLLLEVWTNGSID 204 Query: 213 GEDSVALASRILQDQLGMF--INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 +D+V+ +IL + L INF K +ED + N L +EEL+LSVR+ Sbjct: 205 PQDAVSQGGKILTELLHPLKEINF----KSDEEDTVAEDSKINQIL---IEELQLSVRAY 257 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 NCL+ I + DL+ ++ D++ + NFG+KS E V+ + LG+NLP Sbjct: 258 NCLKRAQIHSVADLLDYSQEDLIEIKNFGQKSAEE---VIDALQKRLGINLP 306 >gi|47679549|gb|AAT36718.1| RNA polymerase alpha subunit [Chaetoceros gracilis] Length = 300 Score = 160 bits (406), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 98/268 (36%), Positives = 155/268 (57%), Gaps = 7/268 (2%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-- 99 T+GN LRRVL+S L G ITAV+I GV E S I G+ ED+ +I+LN+KG+ +K + Sbjct: 37 TIGNLLRRVLLSDLEGTTITAVRIAGVQDEFSIIPGIREDILEILLNLKGVVVKSATPDI 96 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 S R+ I +GP VVTA IQ +IE++NP+H I + V+ +E +G GY A Sbjct: 97 SFGRLKI--KGPAVVTADSIQLPPNIEIINPNHYIATISTSNVLEIEFKFERGTGYKLAG 154 Query: 160 HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 + + IDA++ PI+KV + +E+ + ++L + I T+GSI+ +D+++ Sbjct: 155 QTFCDKSE-DFLQIDAIFMPIQKVDFKIENVYDNSNSITERLFLDIWTNGSISPDDAISY 213 Query: 220 ASRILQDQLGMFI-NFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENI 278 AS+ + + + N E+ ED N + NP + +EEL+LSVR+ NCL+ I Sbjct: 214 ASKFIIEFFNSLLENKITQNLEIIEDTNSLT-QLNPHINIAIEELQLSVRAYNCLKRAQI 272 Query: 279 VYMGDLIQRTEADMLRMANFGRKSLVEI 306 +GDL++ + + + NFGRKS E+ Sbjct: 273 NTIGDLLEYSPEKLQELKNFGRKSADEV 300 >gi|154424853|emb|CAL18529.1| RNA polymerase alpha subunit [Streptococcus salivarius] Length = 199 Score = 160 bits (406), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 77/183 (42%), Positives = 125/183 (68%) 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 PKK 239 K Sbjct: 181 VAK 183 >gi|47679551|gb|AAT36719.1| RNA polymerase alpha subunit [Thalassiosira sp. Cleve BA153110] Length = 300 Score = 160 bits (406), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 98/280 (35%), Positives = 153/280 (54%), Gaps = 7/280 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + + L G T+GN LRRVL+ L+G AIT V+I GV E S I GV ED+ +I+LN+ Sbjct: 25 FLIDSLSSGQGITIGNLLRRVLLGDLKGTAITGVRIAGVKDEFSLIPGVREDILEILLNL 84 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KGI LK + + + GP V+TA IQ D+E++NP+H I L ++ +E + Sbjct: 85 KGIVLKSKNSTRQFARLRLHGPAVITASSIQLPPDVEIINPNHYIATLSSSHILEIEFKI 144 Query: 150 SKGHGYVPAKHHRTENDPIG-LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 GH Y A + T +D + I DA++ P +K + VE+ + +++ + + T+ Sbjct: 145 ESGHDYRLA--NETFSDKLSNFIETDAIFMPDQKDDFKVENVYDNSNNVKERVFLDVWTN 202 Query: 209 GSITGEDSVALASRILQDQLGMFI--NFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 GSI+ E ++ AS ++ D + K+ +KE K P +P +EEL+LS Sbjct: 203 GSISPEQAIFSASNLIIDLFKSITEHKINQEKESIKEKTQTK--PVDPYTHIAIEELQLS 260 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 VR NCL+ I +GDL+ + +L + NFGRKS E+ Sbjct: 261 VRPYNCLKRAQINTIGDLLDYSPEKLLELKNFGRKSADEV 300 >gi|150187076|emb|CAK30165.1| RNA polymerase alpha subunit [Streptococcus ferus] Length = 191 Score = 160 bits (405), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 78/179 (43%), Positives = 122/179 (68%) 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 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 KKV+Y VE AR G +YDKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 KKVNYQVEPARVGSKDNYDKLTIEIMTNGTIIPEDALGLSARVLMEHLNLFTDLTEVAK 179 >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 = 160 bits (405), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 108/307 (35%), Positives = 170/307 (55%), Gaps = 28/307 (9%) Query: 22 QEEENRT---LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 Q EE+R+ + + PL RG A TLGNALRRVLM L G+A+TA++I GV HE +++ GV Sbjct: 12 QVEEDRSQSGVFLIGPLERGQATTLGNALRRVLMGGLEGSAVTAIRIAGVNHEYATVPGV 71 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ DI+LN K +++ + + GP VTA D+Q + +EV++ + I + Sbjct: 72 REDVLDILLNCKELSVNSRSPELEIGRLVVAGPAEVTAKDLQFSSQVEVVDGNRSIATVA 131 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE--------SA 190 + +E+ V +G GY P H + I L+ IDA++ P+ +V++T++ SA Sbjct: 132 DGYSLELEVHVERGVGYRPVDRHSEDTSAIDLLQIDAVFMPVIRVNFTIDETAVAEGGSA 191 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK--EDINVK 248 RE +L M I TDGSIT +D++A ++ L I +P V E+ ++ Sbjct: 192 RE-------RLRMEIVTDGSITPDDALAQSANYL-------IELFQPLATVTLVEEPGIE 237 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 P A + +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ Sbjct: 238 PEPSAEAQI-PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIE 296 Query: 309 VLGTMGL 315 L +G+ Sbjct: 297 ALERIGI 303 >gi|318042541|ref|ZP_07974497.1| DNA-directed RNA polymerase subunit alpha [Synechococcus sp. CB0101] Length = 312 Score = 160 bits (404), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 102/288 (35%), Positives = 159/288 (55%), Gaps = 13/288 (4%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG A TLGN+LRRVLM +L G+AITAV+I GV HE +++ GV ED+ DI+LN K I Sbjct: 27 PLERGQAITLGNSLRRVLMGALEGSAITAVRIAGVNHEYATVPGVREDVLDILLNCKDIA 86 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 + + + GP VTA D+Q + + V++ D I + + +E+ V +G Sbjct: 87 VSSRTRELEIGRLVANGPCTVTASDLQFSSQVSVIDGDRPIATVADGYSLELEVHVERGV 146 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY-DKLSMTIDTDGSIT 212 GY P + I L+ IDA++ P+++V+Y+V+ G+ ++L + I+TDGS+T Sbjct: 147 GYRPVDRRSEDTSAIDLLQIDAVFMPVRRVNYSVDETAVGEGGSARERLRLEIETDGSVT 206 Query: 213 GEDSVALASR---ILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 +D++A A+ L L +EP E + + +P EEL LSVR+ Sbjct: 207 PDDAMAQAANQLIALFQPLASLTMVDEPGLEPEPSAEAQ-IPL--------EELNLSVRA 257 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 NCL+ + + DL+ + D+L + NFG KS E+ L +G+ L Sbjct: 258 YNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALERIGISL 305 >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 = 160 bits (404), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 97/289 (33%), Positives = 161/289 (55%), Gaps = 2/289 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + L G T+GN LRRVL+ L G AI+AV+I G+ HE S+I GV ED+ +I+LN+ Sbjct: 23 FVINALRAGQGITIGNQLRRVLLGDLGGMAISAVRIAGITHEFSTIPGVREDILEILLNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KGI LK + + + +GP VVTA IQ +++E++NP+H I + ++ +E Sbjct: 83 KGIVLKSEINDIQFGRLKVQGPAVVTADLIQLPSNLEIINPNHYIATISTSNILEIEFKF 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GY A T+ D + +D ++ PI+KV + +E+ + ++L + I T+G Sbjct: 143 EYGTGYKLATQTFTD-DSENYLQLDTVFMPIQKVDFKIENVYDSANNITERLLLDIWTNG 201 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI+ +++ A++++ D + IN + + + +S P +EEL+LSVR+ Sbjct: 202 SISPNEALESAAQVIVDLFTLLINNKNMVNTNQLESKPESSSIEPYTNIAIEELQLSVRA 261 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL-GTMGLFL 317 NCL+ I +GDL+Q + + + NFGRKS E+ L +G+ L Sbjct: 262 YNCLKKAQINTVGDLLQYSPEKLQELKNFGRKSADEVFSTLKNKLGIIL 310 >gi|119662281|emb|CAJ33127.1| RNA polymerase alpha subunit [Lactobacillus animalis KCTC 3501] Length = 167 Score = 159 bits (403), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 83/167 (49%), Positives = 116/167 (69%), 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 VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGL 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|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 = 159 bits (403), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 100/296 (33%), Positives = 164/296 (55%), Gaps = 15/296 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + E L +G TLGNALRR ++S L G AI AV+I GV HE S+I GV ED+ +I+LN+ Sbjct: 23 FVIEALNQGQGITLGNALRRSILSDLEGTAIVAVRIAGVNHEFSTIPGVREDVLEILLNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + K + + I +GP +VTAG + +DIEV++P I + + + ME + Sbjct: 83 KEVVFKSNNQESQIGRIKVQGPAIVTAGLFELSSDIEVVDPRQYIATICNNTIFEMEFKI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 K GY A+ E + + +D+++ P+ KV+Y VE R G D+L + I T+G Sbjct: 143 EKSCGYRLAEKAVDEL-SLDFLQVDSVFMPVNKVNYKVEEVRVGTNSIKDRLILQIWTNG 201 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEV---KEDINVKSLPFNPALLKKVEELELS 266 SI+ +++++ + +L + N + + KED + + +EEL+LS Sbjct: 202 SISPQEAISQGATVLTNLFCSLRNLDFKSVDTYRNKEDKKISQVL--------IEELQLS 253 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 VR+ NCL+ I + DL+ ++ ++L + NFG+KS E V+ + LG++LP Sbjct: 254 VRAYNCLKRAQIHSIADLLDYSQEELLEIKNFGQKSAEE---VIYALQKTLGISLP 306 >gi|150036800|emb|CAM98036.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax] Length = 196 Score = 159 bits (403), Expect = 5e-37, Method: Compositional matrix adjust. Identities = 83/194 (42%), Positives = 124/194 (63%), Gaps = 2/194 (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 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND-- 166 +GP VTA D+Q DIEVLNP+ + + + M +T KG GY A ++ D 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 QLGMFINFEEPKKE 240 L +F + E Sbjct: 182 HLNLFTDISSVAAE 195 >gi|119662389|emb|CAJ33184.1| RNA polymerase alpha subunit [Lactobacillus alimentarius] Length = 165 Score = 159 bits (403), Expect = 5e-37, Method: Compositional matrix adjust. Identities = 74/162 (45%), Positives = 112/162 (69%) 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 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 GY PA+ ++T+ PIG++ +D++++P++KV+Y VE+ R G+ Sbjct: 121 RGYTPAEQNKTDETPIGVLPVDSIFTPVEKVNYQVENTRVGK 162 >gi|150186992|emb|CAK30144.1| RNA polymerase alpha subunit [Streptococcus minor] Length = 189 Score = 159 bits (403), Expect = 5e-37, Method: Compositional matrix adjust. Identities = 77/181 (42%), Positives = 123/181 (67%) 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 K 239 K Sbjct: 181 K 181 >gi|154424721|emb|CAL18463.1| RNA polymerase alpha subunit [Streptococcus thermophilus] Length = 169 Score = 159 bits (402), Expect = 5e-37, Method: Compositional matrix adjust. 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|150187112|emb|CAK30173.1| RNA polymerase alpha subunit [Streptococcus equinus] Length = 191 Score = 159 bits (402), Expect = 5e-37, Method: Compositional matrix adjust. Identities = 79/183 (43%), Positives = 124/183 (67%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAA+T+++IDGVLHE +I GV ED+ IILNIKG+ +K D K + + GP VTA Sbjct: 2 GAAVTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVTA 61 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 GDI T +D+E++N DH + + ++ +TV+K GYVPA+ ++ E+ P+G + +D++ Sbjct: 62 GDILTDSDVEIVNTDHYLFTIAEGHSLKATMTVAKKRGYVPAEGNKKEDAPVGTLAVDSI 121 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E Sbjct: 122 YTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTE 181 Query: 237 PKK 239 K Sbjct: 182 VAK 184 >gi|119662803|emb|CAJ33193.1| RNA polymerase alpha subunit [Lactobacillus mali] Length = 196 Score = 159 bits (402), Expect = 5e-37, Method: Compositional matrix adjust. Identities = 80/183 (43%), Positives = 126/183 (68%), Gaps = 2/183 (1%) Query: 59 AITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGD 118 AIT +QIDGVLHE S+IKGV ED+T IILN+K + L++ + ++ + I GP VTAGD Sbjct: 1 AITDIQIDGVLHEFSTIKGVLEDVTQIILNLKKVALRIDSEENQTLEINVAGPVEVTAGD 60 Query: 119 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDAL 176 IQ +D+EVLN D IC + A + +T + G GYV A ++ D 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 PKK 239 K Sbjct: 181 EAK 183 >gi|119672797|emb|CAK95482.1| RNA polymerase alpha subunit [Lactobacillus animalis] Length = 190 Score = 159 bits (402), Expect = 5e-37, Method: Compositional matrix adjust. Identities = 79/177 (44%), Positives = 121/177 (68%), Gaps = 2/177 (1%) Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 IDGVLHE S++KGV ED+T IILN+K + LK+ + + + GP VTAGDIQ +D Sbjct: 1 IDGVLHEFSTVKGVLEDVTAIILNLKKVALKLDSEDSQTLEFDVVGPKEVTAGDIQGSSD 60 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKK 182 +E+LNPD IC + AV +T +KG GYV A + + E+ PIG++ ID++Y+PI++ Sbjct: 61 VEILNPDQYICTVADGAVFHARMTANKGRGYVSATENKAKAEDMPIGVLPIDSIYTPIER 120 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 V+Y VE R GQ DYDKL++ + T+GSIT ++++L+++IL + L +F++ + K Sbjct: 121 VNYQVEKTRVGQKNDYDKLTLDVWTNGSITPSEAISLSAKILTEHLTLFVDLTDEAK 177 >gi|154424727|emb|CAL18466.1| RNA polymerase alpha subunit [Streptococcus gallolyticus] Length = 184 Score = 159 bits (402), Expect = 6e-37, Method: Compositional matrix adjust. Identities = 79/183 (43%), Positives = 124/183 (67%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAA+T+++IDGVLHE +I GV ED+ IILNIKG+ +K D K + + GP VTA Sbjct: 2 GAAVTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVTA 61 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 GDI T +D+E++NPDH + + ++ +TV+K GYV A+ ++ E+ P+G + +D++ Sbjct: 62 GDILTDSDVEIVNPDHYLFTIAEGHSLKATMTVAKERGYVSAEGNKKEDAPVGTLAVDSI 121 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E Sbjct: 122 YTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTE 181 Query: 237 PKK 239 K Sbjct: 182 VAK 184 >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 = 159 bits (402), Expect = 6e-37, Method: Compositional matrix adjust. Identities = 96/312 (30%), Positives = 170/312 (54%), Gaps = 14/312 (4%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 V+ Q N +IA P GFA +L + +RR L+SS G A ++I+G HE S++G Sbjct: 14 FVVEQISANEANIIAYPFETGFAVSLAHPIRRFLLSSSVGFAPIGIKIEGAKHEFDSVRG 73 Query: 78 VHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 + ED++D I+N+KGI K+ +G K +T GP + D+ +D+EV+ P+ + Sbjct: 74 MLEDISDFIINLKGIRFKLKNGLKEKEITYSFAGPCEIHGSDLDN-DDVEVVTPNAFLAT 132 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPI--GLITIDALYSPIKKVSYTVESAREGQ 194 L+ DA + + + +G GY P++ R D + G I +DA ++P+++ +Y +E+ Sbjct: 133 LNEDATLNFSVKIHQGIGYAPSEDVR---DILGDGYIALDAYFTPVRRATYAIENVLVED 189 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF---INFEEPKKEVKEDINVKSLP 251 +++K+ + I TDG I+ D+ A ++ Q+ +F ++ + P + D + P Sbjct: 190 NPNFEKVVINIATDGQISPVDAFKNALEVMYAQMAVFNSEVSIKAPAAAERGDEH----P 245 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L ++E+L LS RS NCL NI Y+G+++ ++ D+ + N G+KS EI + Sbjct: 246 ELKRLGARIEDLGLSARSFNCLDRSNIKYIGEIVMMSQNDLKEVKNLGKKSFEEILEKIT 305 Query: 312 TMGLFLGMNLPD 323 G +G +L D Sbjct: 306 EYGYTVGQDLAD 317 >gi|119663530|emb|CAK22336.1| RNA polymerase alpha subunit [Lactobacillus kitasatonis] Length = 171 Score = 159 bits (401), Expect = 7e-37, Method: Compositional matrix adjust. 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|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 = 159 bits (401), Expect = 8e-37, Method: Compositional matrix adjust. Identities = 109/318 (34%), Positives = 168/318 (52%), Gaps = 19/318 (5%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 EN + A P G+A TL + LRR+L +S G A V+I GV HE S++G+ ED+ Sbjct: 21 ENVAKITAYPFETGYAVTLAHPLRRLLYTSTVGFAPIGVKIKGVSHEFDSMRGMLEDVAF 80 Query: 85 IILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVND-IEVLNPDHVICNLDVDAV 142 I+N+K I K+ DS + V + +GP +T D+ ND +E++NPD + ++ DA Sbjct: 81 FIINLKKIRFKLKNDSEREVVEYSFKGPKEITGADLN--NDVVEIVNPDAYLATINEDAE 138 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + + + KG GYVP++ R E + I +DA ++P+KK Y +E+ DY+K+ Sbjct: 139 LNFSVIIQKGIGYVPSEEIREEIE-DDYIALDAFFTPVKKAVYELENVLVEDDPDYEKIV 197 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN-----PALL 257 TI TDG + ++ + Q+ +F K + D+N + + LL Sbjct: 198 FTITTDGQVGPIEAFKHCLEAMYQQMSVF------KGVLDIDVNAPMMSSSVGGEHAKLL 251 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 VEEL LS RS NCL I Y+G+L E ++ + N G+KSL EIK V+ +G + Sbjct: 252 SSVEELNLSARSFNCLDKAEIRYIGELALMDENELKDLKNLGKKSLEEIKAVMEEIGYPV 311 Query: 318 GMNLPDWPPESIEELAKK 335 G D +S E+L KK Sbjct: 312 G---SDVLKDSKEQLRKK 326 >gi|154424757|emb|CAL18481.1| RNA polymerase alpha subunit [Streptococcus anginosus] Length = 184 Score = 159 bits (401), Expect = 8e-37, Method: Compositional matrix adjust. Identities = 77/179 (43%), Positives = 120/179 (67%) 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 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 KKV+Y VE AR G +DKL++ I TDG+I ED++ L++RIL + L +F N E K Sbjct: 121 KKVNYQVEPARVGSNDGFDKLTLEIMTDGTIIPEDALGLSARILTEHLDLFTNLTEVAK 179 >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 = 159 bits (401), Expect = 8e-37, Method: Compositional matrix adjust. Identities = 100/297 (33%), Positives = 161/297 (54%), Gaps = 14/297 (4%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 + R +IA P G+A TL + LRR+L+ S G A +V+I+G HE SI+G+HED+ Sbjct: 21 DTRAQVIAYPFESGYAVTLAHPLRRLLLGSSIGYAPISVKIEGAAHEFDSIRGMHEDIAV 80 Query: 85 IILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 I+++K I K+ + V + +GP V AGD+ + +EV+NPD + L+ D + Sbjct: 81 FIIHLKNIRFKIKEGLDRAVVSYSFKGPREVVAGDLNN-DQVEVVNPDQPLATLNEDGEL 139 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 L ++KG GYVP++ + E D I +DA ++P++K +Y +E+ DY+K+ Sbjct: 140 TFTLEIAKGIGYVPSEDLQEEVDG-DAIALDAFFTPVRKANYAIENVLVEDNPDYEKIVF 198 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMF-----INFEEPKKEVKEDINVKSLPFNPALLK 258 I+TDG I+ + A A + Q+ +F ++ E E+ +K PF L Sbjct: 199 EIETDGQISPVAAFANALETMHKQMSVFGEVMNLDLERSSGNSAENSELK--PF----LV 252 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 V+ L L RS N L I Y+G+L+ +E ++ + N G+KSL EI+ VL G Sbjct: 253 PVDALGLGARSFNSLDRAGIKYLGELVLMSENELKEIKNLGKKSLDEIQEVLAEHGF 309 >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 = 158 bits (400), Expect = 9e-37, Method: Compositional matrix adjust. Identities = 103/285 (36%), Positives = 157/285 (55%), Gaps = 11/285 (3%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG A TLGN+LRRVLM L G+A+TAV+I GV HE +++ GV ED+ DI+LN K + Sbjct: 27 PLERGQATTLGNSLRRVLMGGLEGSAVTAVRISGVNHEYATVPGVREDVLDILLNCKELT 86 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 + + + GP V A D+Q + +++++ D I + + +EL V +G Sbjct: 87 VNSRSQELEIGRLVVTGPAEVKARDLQFSSQVQIVDVDRPIATVHSGHSLELELHVERGV 146 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV-ESAREGQVLDYDKLSMTIDTDGSIT 212 GY P I L+ IDA++ P+KKV++T+ E+A ++L M I TDGSIT Sbjct: 147 GYRPVDRRNEATTAIDLLQIDAVFMPVKKVNFTIDETAVSEGGSTRERLRMEIVTDGSIT 206 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVK--EDINVKSLPFNPALLKKVEELELSVRST 270 +D+VA A+ I +P V E++ + P A + +EEL LSVR+ Sbjct: 207 PDDAVAEAA-------NQLIELFQPLATVTMVEEVPQEPEPTAEAQI-PLEELNLSVRAY 258 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 NCL+ + + DL+ + D+L + NFG KS E+ L +G+ Sbjct: 259 NCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALERIGI 303 >gi|161511711|emb|CAP16866.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 209 Score = 158 bits (400), Expect = 9e-37, Method: Compositional matrix adjust. Identities = 89/209 (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 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALY 177 D+ +LNP+ IC + LT G GY A + R + 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|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 = 158 bits (400), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 106/314 (33%), Positives = 167/314 (53%), Gaps = 28/314 (8%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ + + +I PL RG A TLGN+LRR+LM +L G A+TAV+I GV HE Sbjct: 7 DRIEHQITDDRSQTGVFLIG-PLERGQATTLGNSLRRMLMGNLAGTAVTAVRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K + + D + + GP VV A D+Q + ++V++ + Sbjct: 66 ATIPGVREDVLDILLNCKQLTVTSRTDELEIGRLIVSGPAVVKAKDLQFSSQVQVVDGER 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE---- 188 I + + +E+ V +G GY P H + I L+ IDA++ P+ +V++T + Sbjct: 126 PIATVSEGHSLELEVHVERGVGYRPVDRHNEDTSAIDLLQIDAVFMPVHRVNFTTDETAV 185 Query: 189 ----SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD---QLGMFINFEEPKKEV 241 SARE +L M + TDGS+T +D++A A+ L + L EEP E Sbjct: 186 AEGGSARE-------RLRMEVVTDGSMTPDDAIAQAANQLIELFQPLATVTMVEEPGIEP 238 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +P EEL LSVR+ NCL+ + + DL+ + D+L + NFG K Sbjct: 239 EPSAEAQ-IPL--------EELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSK 289 Query: 302 SLVEIKGVLGTMGL 315 S E+ L +G+ Sbjct: 290 SADEVIEALERIGI 303 >gi|150187135|emb|CAK30178.1| RNA polymerase alpha subunit [Streptococcus oralis ATCC 35037] Length = 177 Score = 158 bits (400), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 76/176 (43%), Positives = 119/176 (67%) 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 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 P+ KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L +F N Sbjct: 121 PVTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNL 176 >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 = 158 bits (399), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 103/292 (35%), Positives = 163/292 (55%), Gaps = 25/292 (8%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG A TLGNALRRVLM L G+A+TA++I GV HE +++ GV ED+ DI+LN K ++ Sbjct: 27 PLERGQATTLGNALRRVLMGGLEGSAVTAIRIAGVNHEYATVPGVREDVLDILLNCKELS 86 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 + + + GP V A D+Q + ++V++ + I + + +E+ V +G Sbjct: 87 VNSRSAELEIGRLVVAGPAEVKASDLQFSSQVQVIDGNRTIATVADGHSLELEVHVERGI 146 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE--------SAREGQVLDYDKLSMTI 205 GY P H + I L+ IDA++ P+K+V++ ++ SARE +L + I Sbjct: 147 GYRPVDRHNEDTSAIDLLQIDAVFMPVKRVNFNIDETAVAEGGSARE-------RLRIEI 199 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK--EDINVKSLPFNPALLKKVEEL 263 TDGSIT +D++A + L L +F +P V E++ V+ P A + +EEL Sbjct: 200 STDGSITPDDALAQTANQL---LELF----QPLATVTLVEEVGVEPEPSAEAQI-PLEEL 251 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L +G+ Sbjct: 252 NLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALERIGI 303 >gi|119662807|emb|CAJ33195.1| RNA polymerase alpha subunit [Lactobacillus pantheris] Length = 165 Score = 158 bits (399), Expect = 1e-36, Method: Compositional matrix adjust. 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|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 = 157 bits (398), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 100/309 (32%), Positives = 169/309 (54%), Gaps = 12/309 (3%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +EN + P G+A ++ + LRR+L+SS G A ++I+GV HE S++G+ ED+ Sbjct: 20 KENAIRLHVYPYESGYAISVAHPLRRLLLSSTAGYAPIGLKIEGVQHEFDSVRGMLEDVA 79 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKR--GPGVVTAGDIQTVND-IEVLNPDHVICNLDVD 140 I+N+K + K+ + VT+ GP + D + ND +EV+ PD + L+ D Sbjct: 80 AFIINLKNVRFKLRDSEQENVTLEYEFSGPKELFGKDFE--NDLVEVVTPDAFLATLNED 137 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 A ++M + V KG GYVP++ R + P G I +DA ++P+KK Y +E +Y+K Sbjct: 138 AELKMSIIVQKGIGYVPSEMIR-DLLPQGYIPLDAFFTPVKKAVYEIEKVLVEDNPNYEK 196 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 + I+TDG + ++ +A ++Q Q+ +F N E + V ++I + + P + Sbjct: 197 IVFDIETDGQVDPVSALKMAMNVMQSQMEIFTNDIEVTETVGQNIENSEIFYQP-----L 251 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 + L+LS RS NCL I Y+G+L+ + + + N G+KSL EI+ L + + LG Sbjct: 252 DILDLSARSYNCLDKAGIKYVGELLLMSNEALKSIKNLGKKSLDEIQEKLSELNIDLG-K 310 Query: 321 LPDWPPESI 329 L D E+I Sbjct: 311 LSDQEKETI 319 >gi|154424795|emb|CAL18500.1| RNA polymerase alpha subunit [Streptococcus gordonii] Length = 183 Score = 157 bits (398), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 78/182 (42%), Positives = 120/182 (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 KK 239 K Sbjct: 181 AK 182 >gi|154424785|emb|CAL18495.1| RNA polymerase alpha subunit [Streptococcus ferus] Length = 175 Score = 157 bits (398), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 76/174 (43%), Positives = 120/174 (68%) 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 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 KKV+Y VE AR G +YDKL++ I T+G+I ED++ L++R+L + L +F + Sbjct: 121 KKVNYQVEPARVGSKDNYDKLTIEIMTNGTIIPEDALGLSARVLMEHLNLFTDL 174 >gi|150036726|emb|CAM98254.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. dextranicum] Length = 189 Score = 157 bits (397), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 82/187 (43%), Positives = 123/187 (65%), Gaps = 2/187 (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 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--P 167 GP VTA D+Q D+EVLNPD I + + M +T KG GY A ++ D 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 LGMFINF 234 LG+F++ Sbjct: 181 LGLFMDI 187 >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 = 157 bits (396), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 103/292 (35%), Positives = 163/292 (55%), Gaps = 25/292 (8%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG A TLGNALRRVLM L G+A+TA++I GV HE +++ GV ED+ DI+LN K ++ Sbjct: 27 PLERGQATTLGNALRRVLMGGLEGSAVTAIRIAGVNHEYATVPGVREDVLDILLNCKELS 86 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 + + + GP V A D+Q + ++V++ + I + + +E+ V +G Sbjct: 87 VNSRSAELEIGRLVVAGPAEVKASDLQFSSQVQVIDGNRTIATVADGHSLELEVHVERGI 146 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE--------SAREGQVLDYDKLSMTI 205 GY P H + I L+ IDA++ P+K+V++ ++ SARE +L + I Sbjct: 147 GYRPVDRHNEDTSAIDLLQIDAVFMPVKRVNFNIDETAVAEGGSARE-------RLRIEI 199 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK--EDINVKSLPFNPALLKKVEEL 263 TDGSIT +D++A + L L +F +P V E++ V+ P A + +EEL Sbjct: 200 CTDGSITPDDALAQTANQL---LELF----QPLATVTLVEEVGVEPEPSAEAQI-PLEEL 251 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L +G+ Sbjct: 252 NLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALERIGI 303 >gi|154424835|emb|CAL18520.1| RNA polymerase alpha subunit [Streptococcus phocae] Length = 153 Score = 157 bits (396), Expect = 3e-36, Method: Compositional matrix adjust. 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|154424787|emb|CAL18496.1| RNA polymerase alpha subunit [Streptococcus ferus] Length = 177 Score = 156 bits (395), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 77/176 (43%), Positives = 119/176 (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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +Y VE AR G +YDKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 NYQVEPARVGSKDNYDKLTIEIMTNGTIIPEDALGLSARVLMEHLNLFTDLTEVAK 176 >gi|119663532|emb|CAK22337.1| RNA polymerase alpha subunit [Lactobacillus sharpeae] Length = 164 Score = 156 bits (394), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 75/160 (46%), Positives = 110/160 (68%) 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 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 KL++ + T+GSI +++ALA++IL D L +F+N + K Sbjct: 121 KLTLDVWTNGSINPREAIALAAKILTDHLAIFVNLTDDAK 160 >gi|150187117|emb|CAK30174.1| RNA polymerase alpha subunit [Streptococcus infantarius subsp. infantarius ATCC BAA-102] Length = 187 Score = 156 bits (394), Expect = 5e-36, Method: Compositional matrix adjust. Identities = 77/180 (42%), Positives = 122/180 (67%) 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 >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 = 155 bits (393), Expect = 6e-36, Method: Compositional matrix adjust. Identities = 94/281 (33%), Positives = 159/281 (56%), Gaps = 10/281 (3%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI----NLKMS 97 T+GN LRRVL+ L G AI+AV+I G+ HE S+I GV ED+ +I+LN+KGI ++ + Sbjct: 35 TIGNQLRRVLLGDLGGVAISAVRIAGITHEFSTIPGVREDILEILLNLKGIICTSQIQDT 94 Query: 98 GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP 157 H +V +GP VVTA IQ +E++NP+H I + ++ +E G GY Sbjct: 95 QFGHLKV----QGPSVVTADLIQLPPGVEIINPNHYIATISTSNILEIEFKFEYGSGYHL 150 Query: 158 AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 A + E D + +D ++ P++KV + +E+ + ++L + I T+GSI+ D++ Sbjct: 151 ASQNFVEEDE-NYLQLDTIFMPVQKVDFKIENIYDATNNISERLFLDIWTNGSISPNDAL 209 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGEN 277 A++++ D + IN + + ++ +++ P +EEL+LSVR+ NCL+ Sbjct: 210 ESAAQVIIDLFTLLINNKNINNNNRLELKPETISIEPYTNIAIEELQLSVRAYNCLKKAQ 269 Query: 278 IVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL-GTMGLFL 317 I +GDL+Q + + + NFGRKS E+ L +G+ L Sbjct: 270 INTVGDLLQYSPEKLQELKNFGRKSADEVFSTLKNKLGIIL 310 >gi|317968839|ref|ZP_07970229.1| DNA-directed RNA polymerase subunit alpha [Synechococcus sp. CB0205] Length = 312 Score = 155 bits (392), Expect = 7e-36, Method: Compositional matrix adjust. Identities = 101/293 (34%), Positives = 159/293 (54%), Gaps = 23/293 (7%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG A TLGN+LRR+LM +L G+AITAV+I GV HE +++ GV ED+ DI+LN K + Sbjct: 27 PLERGQATTLGNSLRRMLMGALEGSAITAVRIAGVNHEYATVPGVREDVLDILLNCKDVA 86 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 + + + GP VTAGD+Q + + V++P I + + +E+ V +G Sbjct: 87 VNSRTRELEIGRLVVNGPATVTAGDLQFSSQVSVIDPARPIATVAEGHSLELEVHVERGV 146 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE--------SAREGQVLDYDKLSMTI 205 GY P + + L+ IDA++ P+++ +YT++ SARE +L + I Sbjct: 147 GYRPVDRRVEDTSAVDLLQIDAVFMPVQRANYTIDETAVGEGGSARE-------RLRLEI 199 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK-KVEELE 264 TDGS+T +D++A A+ L I +P + + P A + +EEL Sbjct: 200 QTDGSLTPDDAMAQAANQL-------ITLIQPMATLTMEEEQGQEPEPSAEAQIPLEELN 252 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L +G+ L Sbjct: 253 LSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALERIGISL 305 >gi|150186996|emb|CAK30145.1| RNA polymerase alpha subunit [Streptococcus mitis] Length = 160 Score = 155 bits (392), Expect = 7e-36, Method: Compositional matrix adjust. Identities = 75/158 (47%), Positives = 110/158 (69%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRRVL++SL GAA+T++ IDGVLHE ++ GV ED+ IILNIKGI +K + Sbjct: 3 TLGNSLRRVLLASLPGAAVTSINIDGVLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDE 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + + GP VTAGDI T +DIE++NPDH + + + ++ +TV+ G GYVPA + Sbjct: 63 KIIELDVEGPAEVTAGDILTDSDIEIVNPDHYLFTIGEGSSLKATMTVNSGRGYVPADEN 122 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + +N P+G + +D++Y+P+ KV+Y VE AR G +D Sbjct: 123 KKDNAPVGTLAVDSIYTPVTKVNYQVEPARVGSNDGFD 160 >gi|47679557|gb|AAT36722.1| RNA polymerase alpha subunit [Navicula salinicola] Length = 298 Score = 155 bits (392), Expect = 8e-36, Method: Compositional matrix adjust. Identities = 91/269 (33%), Positives = 150/269 (55%), Gaps = 1/269 (0%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS 97 G T+GN LRRVL+ L G AI+AV+I GV HE S+I GV ED+ +I+LN+KGI L Sbjct: 31 GQGITIGNQLRRVLLGDLGGVAISAVRIAGVSHEFSTIPGVREDILEILLNLKGIVLTSK 90 Query: 98 GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP 157 + + +GP VVTA IQ ++E++NP+ I + ++ +E G GY Sbjct: 91 TQETQFGRLKIQGPCVVTADLIQLPPNLEIVNPNQYIATITTSNIIEIEFKFEYGIGYKF 150 Query: 158 AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 A ++ + + +D ++ P+ KV + +E+ + ++L + I T+GSI D++ Sbjct: 151 ASQTFSD-EADNFLQLDTVFMPVPKVDFKIENVYDTANNITERLFIDIWTNGSIPPNDAL 209 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGEN 277 A++I+ D + IN ++ + + +S+ P +EEL+LSVR+ NCL+ Sbjct: 210 ESAAQIIIDLFTLLINNKDTNESSQLKTKARSISMEPYTNIAIEELQLSVRAYNCLKKAQ 269 Query: 278 IVYMGDLIQRTEADMLRMANFGRKSLVEI 306 I +GDL+Q + + + NFGRKS E+ Sbjct: 270 INTVGDLLQYSPEKLQELKNFGRKSADEV 298 >gi|150036710|emb|CAM98249.1| DNA-directed RNA polymerase alpha chain [Leuconostoc carnosum] Length = 189 Score = 155 bits (392), Expect = 9e-36, Method: Compositional matrix adjust. Identities = 82/187 (43%), Positives = 122/187 (65%), Gaps = 2/187 (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 LGMFINF 234 L +F++ Sbjct: 181 LNLFMDI 187 >gi|150187170|emb|CAK30186.1| RNA polymerase alpha subunit [Streptococcus iniae] Length = 183 Score = 155 bits (392), Expect = 9e-36, Method: Compositional matrix adjust. Identities = 75/181 (41%), Positives = 123/181 (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 K 239 K Sbjct: 181 K 181 >gi|150186909|emb|CAK30125.1| RNA polymerase alpha subunit [Streptococcus pneumoniae] Length = 171 Score = 155 bits (391), Expect = 1e-35, Method: Compositional matrix adjust. 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|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 = 155 bits (391), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 98/286 (34%), Positives = 157/286 (54%), Gaps = 11/286 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + + L G T+GN LRRVL+ L+G AIT V+I GV E S I GV ED+ +I+LN+ Sbjct: 25 FLIDSLSSGQGITIGNLLRRVLLGDLQGTAITGVRIAGVKDEFSLIPGVREDILEILLNL 84 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KGI LK + + + +GP V+TA IQ +IE++NP+H I + ++ +E + Sbjct: 85 KGIVLKSKTPNRQFGRLRLQGPAVITASSIQLPPEIEIINPNHYIATISSSHILEIEFKI 144 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G Y A ++ I DA++ P++KV + VE+ + ++L + I T+G Sbjct: 145 ESGSKYRLANELFSDKFE-DFIETDAIFMPVQKVDFKVENVYDNSNNIKERLLIDIWTNG 203 Query: 210 SITGEDSVALASRILQDQLGMFINFEEP-----KKEVKEDINVKSLPFNPALLKKVEELE 264 SI+ E ++ S ++ + +F + E K+ +KE ++K P +P +EEL+ Sbjct: 204 SISPEQAIFSGSNLI---INLFKSIGEQKINKEKENIKEKNHIK--PIDPYTHIAIEELQ 258 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 LSVR NCL+ I +GDL+ + +L + NFGRKS E+ L Sbjct: 259 LSVRPYNCLKRAQINTIGDLLDYSPEKLLELKNFGRKSADEVFATL 304 >gi|150036824|emb|CAM98043.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gasicomitatum] Length = 179 Score = 154 bits (390), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 81/179 (45%), 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 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 + +GP VTA D+Q D+EVLNPD I + + M +T KG GY A ++ Sbjct: 61 EVDIQGPADVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTITAFKGRGYSSADENKQL 120 Query: 165 ND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 D PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L S Sbjct: 121 RDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDALSLGS 179 >gi|154424773|emb|CAL18489.1| RNA polymerase alpha subunit [Streptococcus cristatus] Length = 182 Score = 154 bits (390), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 75/177 (42%), Positives = 117/177 (66%) 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 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 + KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L +F + E Sbjct: 121 VTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLNLFTDLTE 177 >gi|154424809|emb|CAL18507.1| RNA polymerase alpha subunit [Streptococcus iniae] Length = 174 Score = 154 bits (390), Expect = 2e-35, Method: Compositional matrix adjust. 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|154424743|emb|CAL18474.1| RNA polymerase alpha subunit [Streptococcus salivarius] Length = 201 Score = 154 bits (389), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 74/179 (41%), Positives = 121/179 (67%) 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 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + + K Sbjct: 121 KKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTDVAK 179 >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 = 154 bits (388), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 94/267 (35%), Positives = 150/267 (56%), Gaps = 5/267 (1%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 T+GN LRRVL++ L G AI+AV+I G+ HE S+I GV ED+ +I+LN+K I LK + Sbjct: 35 TIGNQLRRVLLNDLGGVAISAVRIAGISHEFSTIPGVREDILEILLNLKEIVLKSKTQTP 94 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 + + +GP VVTA IQ + IE++N I + +V +E G GY A Sbjct: 95 QFGRLKIQGPAVVTADLIQLPSTIEIVNSHQYIMTISTSNIVEIEFKFEYGTGYKLASQS 154 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 E + + +DA++ PI+KV + +E+ + + ++L + I T+GSI+ +++ +A+ Sbjct: 155 FLEENE-NYLQLDAIFMPIQKVDFKIENVYDNRNSLTERLLLDIWTNGSISPNEAIKMAA 213 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVK--SLPFNPALLKKVEELELSVRSTNCLRGENIV 279 I D + E +E++ K SL P +EEL+LSVR+ NCL+ I Sbjct: 214 EITIDLFTALL--ENKATNSQEEVKSKTSSLSIEPYTNIAIEELQLSVRAYNCLKKAQIN 271 Query: 280 YMGDLIQRTEADMLRMANFGRKSLVEI 306 +GDL+Q + + + NFGRKS E+ Sbjct: 272 TVGDLLQYSPEKLQELKNFGRKSADEV 298 >gi|47679553|gb|AAT36720.1| RNA polymerase alpha subunit [Thalassionema frauenfeldii] Length = 298 Score = 153 bits (387), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 90/277 (32%), Positives = 154/277 (55%), Gaps = 1/277 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + + L G T+GN LRRVL+ + G AI+AV+I G+ HE ++I GV ED+ +I+LN+ Sbjct: 23 FLIDKLKLGQGITIGNQLRRVLLGEIGGTAISAVRIVGIRHEFATIPGVREDILEILLNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KGI +K K + +GP V+TA I + I+++NP+H I + + +E + Sbjct: 83 KGIVIKSDTTEIKFGRLKVQGPLVLTADSIDLPSGIKIVNPNHYIATISTSINLELEFKI 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GY A + + + ID+++ P++KV++ +E+ + ++L + I T+G Sbjct: 143 EHGIGYKLASQLFNDENK-NFLQIDSIFMPVQKVNFKIENLYDADNSISERLILEIWTNG 201 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI +++ A +I+ + + + K+ K+ N + L P +EEL+LSVRS Sbjct: 202 SIEPIEALKKACKIIINCFNSLLKTQNTKETTKKTSNNRKLTIEPYTNIAIEELQLSVRS 261 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 NCL+ I +GDL+Q + + + NFGRKS E+ Sbjct: 262 YNCLKKAKINTVGDLLQYSPDQLQELKNFGRKSADEV 298 >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 = 153 bits (387), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 102/305 (33%), Positives = 166/305 (54%), Gaps = 10/305 (3%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + I++ + + T +I PL RG A TLGN+LRRVLM L G+A+TAV+I G+ HE Sbjct: 7 DRIDHQISDDRSQTGTFLIG-PLERGQATTLGNSLRRVLMGGLEGSAVTAVRISGINHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K +++ S + + GP V A DIQ + +E+++ + Sbjct: 66 ATIPGVREDVLDILLNCKQLSINSSNPETEIGRLVVNGPMEVKANDIQFSSQVEIVDGEK 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV-ESAR 191 I + + +E+ V +G GY P E I L+ IDA++ P+K+V++T+ E+A Sbjct: 126 PIATIQEGHNLELEIHVERGVGYRPVDRRNQETTAIDLLQIDAVFMPVKRVNFTIDETAV 185 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L+M + TDGS + +D++A A+ L I +P V + P Sbjct: 186 AEGATGRERLTMEVVTDGSTSPDDAIAEAANQL-------IELFQPLATVTMVEEIPEEP 238 Query: 252 FNPALLK-KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 239 EPSPEAQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEAL 298 Query: 311 GTMGL 315 +G+ Sbjct: 299 ERIGI 303 >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 = 153 bits (387), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 106/307 (34%), Positives = 165/307 (53%), Gaps = 14/307 (4%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ V + +I PL RG A TLGN+LRRVLM L G+AITAV+I GV HE Sbjct: 7 DRIEHQVADDRAQTGVFLIG-PLERGQATTLGNSLRRVLMGGLEGSAITAVRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K +++ + + GP V A D+Q + ++V++ D Sbjct: 66 ATIPGVREDVLDILLNCKQLSVNSRTSELEIGRLVVTGPAQVKAKDLQFSSQVQVVDGDR 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV-ESAR 191 I + + +E+ V +G GY P H + I L+ IDA++ P+++V++T+ E+A Sbjct: 126 QIATVHEGHSLELEVHVERGIGYRPVDRHNEDVSAIDLLQIDAVFMPVRRVNFTIDETAV 185 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD---QLGMFINFEEPKKEVKEDINVK 248 ++L + I TDGS T +D++A ++ L + L EEP E E Sbjct: 186 AEGGSTRERLRIEIVTDGSTTPDDALAESANQLIELFQPLATVTMVEEPGLE-PEPSAES 244 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 +P EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ Sbjct: 245 QIPL--------EELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIE 296 Query: 309 VLGTMGL 315 L +G+ Sbjct: 297 ALERIGI 303 >gi|154424771|emb|CAL18488.1| RNA polymerase alpha subunit [Streptococcus cristatus] Length = 181 Score = 153 bits (387), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 75/176 (42%), Positives = 116/176 (65%) 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 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L +F + E Sbjct: 121 TKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLNLFTDLTE 176 >gi|150186920|emb|CAK30128.1| RNA polymerase alpha subunit [Streptococcus pasteurianus] Length = 177 Score = 153 bits (387), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 75/176 (42%), Positives = 118/176 (67%) 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 NYQVEPARVGSNDGFDKLTLEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAK 176 >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 = 153 bits (387), Expect = 3e-35, Method: Compositional matrix adjust. Identities = 106/307 (34%), Positives = 165/307 (53%), Gaps = 14/307 (4%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ V + +I PL RG A TLGN+LRRVLM L G+AITAV+I GV HE Sbjct: 7 DRIEHQVADDRAQTGVFLIG-PLERGQATTLGNSLRRVLMGGLEGSAITAVRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K +++ + + GP V A D+Q + ++V++ D Sbjct: 66 ATIPGVREDVLDILLNCKQLSVNSRTSELEIGRLVVTGPAQVKAKDLQFSSQVQVVDGDR 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV-ESAR 191 I + + +E+ V +G GY P H + I L+ IDA++ P+++V++T+ E+A Sbjct: 126 QIATVHEGHSLELEVHVERGIGYRPVDRHNEDISAIDLLQIDAVFMPVRRVNFTIDETAV 185 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD---QLGMFINFEEPKKEVKEDINVK 248 ++L + I TDGS T +D++A ++ L + L EEP E E Sbjct: 186 AEGGSTRERLRIEIVTDGSTTPDDALAESANQLIELFQPLATVTMVEEPGLE-PEPSAES 244 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 +P EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ Sbjct: 245 QIPL--------EELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIE 296 Query: 309 VLGTMGL 315 L +G+ Sbjct: 297 ALERIGI 303 >gi|154424805|emb|CAL18505.1| RNA polymerase alpha subunit [Streptococcus hyovaginalis] Length = 183 Score = 153 bits (387), Expect = 3e-35, Method: Compositional matrix adjust. 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|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 = 153 bits (386), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 96/294 (32%), Positives = 152/294 (51%), Gaps = 12/294 (4%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 N+ + A P G+A TL + LRR+L+ S G A A+ I GV HE S++GV ED++ Sbjct: 22 NKVQITAYPFENGYAITLAHPLRRLLLGSSVGFAPVALHIAGVAHEFDSVRGVTEDVSQF 81 Query: 86 ILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVND-IEVLNPDHVICNLDVDAVV 143 I+N+K I K+ DS V GP V+T D+ ND +EV+ PD + ++ DA + Sbjct: 82 IVNLKTIRFKIKDDSDSVSVDYTFNGPKVITGADLS--NDLVEVVTPDVHLATINKDATL 139 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 + + KG GYVP++ R N P G + +DA ++P+ +Y E+ +Y+K+ Sbjct: 140 SFSIVIYKGIGYVPSEEIRA-NVPEGFMPLDAYFTPVTSATYATENMLLEDDPNYEKVIF 198 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMF---INFEEPKKEVKEDINVKSLPFNPALLKKV 260 I TDG + + A ++ Q+ +F +N E P+ + E+ P L + + Sbjct: 199 EIQTDGQVDPLTAFKNALSVMHKQMSIFNSELNIEIPEVAISEE----ERPELKVLSQTI 254 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 + L S R NCL I Y+G+L+ E + + N G+KSL EI L +G Sbjct: 255 DSLNFSARCFNCLDRSGIKYLGELVLLNEEQIKNIKNLGKKSLDEITAKLDELG 308 >gi|119668329|emb|CAK95464.1| RNA polymerase alpha subunit [Lactobacillus iners] Length = 188 Score = 153 bits (386), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 80/169 (47%), Positives = 119/169 (70%) 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 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 Y VE+AR G+ DYDKL++ + TDGSIT D+++ A++IL++ +F++ Sbjct: 122 YQVENARVGKRDDYDKLTLELWTDGSITPNDALSFAAKILEEHFKVFMS 170 >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 = 153 bits (386), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 74/165 (44%), Positives = 114/165 (69%), Gaps = 3/165 (1%) Query: 167 PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 PIG + +DA +SP+++++Y+VESAR Q D DKL + ++T+G++ E+++ AS IL + Sbjct: 12 PIGRLLLDASFSPVERIAYSVESARVEQRTDLDKLIIDMETNGTLDREEAIRRASTILAE 71 Query: 227 QLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQ 286 QL F++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+Q Sbjct: 72 QLDAFVDL---RDVTEPEEKEEKPEFDPILLRPVDDLELTVRSANCLKAEQIQYIGDLVQ 128 Query: 287 RTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 RTE ++L+ N G+KSL EIK VL + GL LGM L +WPP S+ E Sbjct: 129 RTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASLAE 173 >gi|154424765|emb|CAL18485.1| RNA polymerase alpha subunit [Streptococcus canis] Length = 188 Score = 153 bits (386), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 75/179 (41%), Positives = 121/179 (67%) 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 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + + K Sbjct: 121 KKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTDVAK 179 >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 = 153 bits (386), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 79/166 (47%), Positives = 118/166 (71%), Gaps = 2/166 (1%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAAIT++QIDGVLHE S++KGV ED+T IILN+K ++LK+ + K + + +GP VTA Sbjct: 1 GAAITSMQIDGVLHEFSTVKGVTEDVTQIILNLKKVSLKLDSEDQKNLELDVKGPAEVTA 60 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITID 174 DIQ N++ +LNPD I + A + ++LT KG GY+ A ++ D IG++ ID Sbjct: 61 SDIQGDNEVTILNPDLHIATVADGAELHIKLTADKGRGYLSANDNKARMDDLAIGVLPID 120 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 ++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T ++V+L Sbjct: 121 SIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLTPTEAVSLG 166 >gi|150036714|emb|CAM98250.1| DNA-directed RNA polymerase alpha chain [Leuconostoc citreum] Length = 186 Score = 152 bits (385), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 81/184 (44%), Positives = 119/184 (64%), Gaps = 2/184 (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 VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGL 170 VTA D+Q D+EVLNPD I + + M +T KG GY A ++ D 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 FINF 234 F++ Sbjct: 181 FMDI 184 >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 = 152 bits (385), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 102/305 (33%), Positives = 165/305 (54%), Gaps = 10/305 (3%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + I++ + + T +I PL RG A TLGN+LRRVLM L G+A+TAV+I G+ HE Sbjct: 35 DRIDHQIADDRSQTGTFLIG-PLERGQATTLGNSLRRVLMGGLEGSAVTAVRIAGINHEY 93 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K +++ S + + GP V A DIQ + +E+++ + Sbjct: 94 ATIPGVREDVLDILLNCKQLSINSSNPELEIGRLVASGPMEVKANDIQFSSQVEIVDGEK 153 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV-ESAR 191 I + + +E+ V +G GY P E I L+ IDA++ P+K+V++T+ E+A Sbjct: 154 PIATIQEGHNLELEIHVERGVGYRPVDRKSEETTAIDLLQIDAVFMPVKRVNFTIDETAV 213 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L M + TDGS + +D++A A+ L I +P V + P Sbjct: 214 AEGATGRERLKMEVVTDGSTSPDDAIAEAANQL-------IELFQPLATVTMVEEIPEEP 266 Query: 252 FNPALLK-KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 267 EPSPEAQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEAL 326 Query: 311 GTMGL 315 +G+ Sbjct: 327 ERIGI 331 >gi|154424823|emb|CAL18514.1| RNA polymerase alpha subunit [Streptococcus mutans] Length = 176 Score = 152 bits (385), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 76/175 (43%), Positives = 118/175 (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 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 Y VE AR G ++DKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 YQVEPARVGSNDNFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAK 175 >gi|154424783|emb|CAL18494.1| RNA polymerase alpha subunit [Streptococcus equi subsp. equi] Length = 171 Score = 152 bits (385), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 74/168 (44%), Positives = 118/168 (70%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAA+T+++IDGVLHE +I GV ED+ IILN+KG+ +K + K + + GP VTA Sbjct: 2 GAAVTSIRIDGVLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKIIELDVEGPAEVTA 61 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 GDI T +DIE++NPDH + + ++ +TV+K GYVPA+ ++ ++ P+G + +D++ Sbjct: 62 GDILTDSDIELVNPDHYLFTIADGYTLKASMTVAKKRGYVPAEGNKKDDAPVGTLAVDSI 121 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L Sbjct: 122 YTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVL 169 >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 = 152 bits (385), Expect = 6e-35, Method: Compositional matrix adjust. Identities = 102/305 (33%), Positives = 165/305 (54%), Gaps = 10/305 (3%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + I++ + + T +I PL RG A TLGN+LRRVLM L G+A+TAV+I G+ HE Sbjct: 7 DRIDHQIADDRSQTGTFLIG-PLERGQATTLGNSLRRVLMGGLEGSAVTAVRIAGINHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K +++ S + + GP V A DIQ + +E+++ + Sbjct: 66 ATIPGVREDVLDILLNCKQLSINSSNPELEIGRLVASGPMEVKANDIQFSSQVEIVDGEK 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV-ESAR 191 I + + +E+ V +G GY P E I L+ IDA++ P+K+V++T+ E+A Sbjct: 126 PIATIQEGHNLELEIHVERGVGYRPVDRKSEETTAIDLLQIDAVFMPVKRVNFTIDETAV 185 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L M + TDGS + +D++A A+ L I +P V + P Sbjct: 186 AEGATGRERLKMEVVTDGSTSPDDAIAEAANQL-------IELFQPLATVTMVEEIPEEP 238 Query: 252 FNPALLK-KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 239 EPSPEAQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEAL 298 Query: 311 GTMGL 315 +G+ Sbjct: 299 ERIGI 303 >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 = 152 bits (384), Expect = 7e-35, Method: Compositional matrix adjust. Identities = 97/286 (33%), Positives = 160/286 (55%), Gaps = 16/286 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I +PL A T+GN+LRRVL+S L +ITAV+I G HE++++KGV ED+ I+LN+ Sbjct: 29 FILQPLSYTQALTMGNSLRRVLLSELESISITAVRIAGASHELATLKGVREDVLQIMLNL 88 Query: 90 KGINLKMSGDSHKRVTIFK---RGPGVVTAGDIQTV--NDIEVLNPDHVICNLDVDAVVR 144 K I + G K+ TI + +GP +VTA Q+ + +++ I +D ++ Sbjct: 89 KQIVWR--GQLKKQPTITRLKVQGPAIVTAAAFQSEANSSANIIDTCQYIATIDTQDILE 146 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 ME + + GY AK ++ I + ID ++ P+K+V++ V+ A +VL L + Sbjct: 147 MECQLEQSSGYRLAK----PSEMIDWLPIDGVFMPVKRVNFWVDKALVDKVLVDKALHLE 202 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 I T+GSI+ ++++ A+RIL E K + + L +L +EEL+ Sbjct: 203 IWTNGSISPQEALHQAARILTHWFNPLQTLEWKTSHTKNEQTMAQL---SNML--IEELD 257 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 LSVR+ NCL+ I + DL+Q T+ ++L + NFG+KS+ E+ L Sbjct: 258 LSVRAYNCLKRAQIHSVADLMQYTQEELLALKNFGQKSVEEVNKAL 303 >gi|269929683|gb|ACZ53737.1| RNA polymerase alpha subunit [Lactobacillus reuteri] Length = 166 Score = 152 bits (383), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 78/166 (46%), Positives = 119/166 (71%), Gaps = 2/166 (1%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAAIT++QIDGVLHE S+++GV ED+T IILN+K ++LK+ ++ K + + +GP VTA Sbjct: 1 GAAITSMQIDGVLHEFSTVEGVTEDVTQIILNLKKVSLKLDSENQKNLELDVKGPAEVTA 60 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITID 174 DIQ N++ +LNPD I + A + ++LT KG GY+ A ++ D IG++ ID Sbjct: 61 SDIQGDNEVTILNPDLHIATVADGAELHIKLTADKGRGYLSANDNKARMDDLAIGVLPID 120 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 ++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T ++V+L Sbjct: 121 SIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLTPTEAVSLG 166 >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 = 152 bits (383), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 102/305 (33%), Positives = 165/305 (54%), Gaps = 10/305 (3%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + I++ + + T +I PL RG A TLGN+LRRVLM L G+A+TAV+I G+ HE Sbjct: 6 DRIDHQIADDRSQTGTFLIG-PLERGQATTLGNSLRRVLMGGLEGSAVTAVRIAGINHEY 64 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K +++ S + + GP V A DIQ + +E+++ + Sbjct: 65 ATIPGVREDVLDILLNCKQLSINSSSPDLEIGRLVASGPMEVKANDIQFSSQVEIVDGEK 124 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV-ESAR 191 I + + +E+ V +G GY P E I L+ IDA++ P+K+V++T+ E+A Sbjct: 125 PIATIQEGHNLELEIHVERGVGYRPVDRKSEETTAIDLLQIDAVFMPVKRVNFTIDETAV 184 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L M + TDGS + +D++A A+ L I +P V + P Sbjct: 185 AEGGTGRERLKMEVVTDGSTSPDDAIAEAANQL-------IELFQPLATVTMVEEIPEEP 237 Query: 252 FNPALLK-KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 238 EPSPEAQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIDAL 297 Query: 311 GTMGL 315 +G+ Sbjct: 298 ERIGI 302 >gi|47679555|gb|AAT36721.1| RNA polymerase alpha subunit [Cylindrotheca fusiformis] Length = 291 Score = 152 bits (383), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 95/274 (34%), Positives = 161/274 (58%), Gaps = 4/274 (1%) Query: 35 LPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINL 94 L G T+GN LRRVL++ L G AI+A +I GV HE S+I GV ED+ +I+LN+KGI L Sbjct: 20 LKPGQGITIGNQLRRVLLNDLGGVAISAARIAGVSHEFSTIPGVREDILEILLNLKGIVL 79 Query: 95 KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHG 154 K + + + +GP VVTA IQ +D+E++NP+H + + V+ +E G G Sbjct: 80 KSKTQTAQFGRLKIQGPTVVTADLIQLPSDLEIVNPNHYLMTISTSNVLEIEFKFEYGTG 139 Query: 155 Y-VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 Y + ++ E+D + +D ++ P++KV++ +E+ + +++ + I T+GSI+ Sbjct: 140 YKLTSQAFLDESD--NYLQLDTIFMPVQKVNFKIENVYDNNNNITEQVFLDIWTNGSISP 197 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVK-EDINVKSLPFNPALLKKVEELELSVRSTNC 272 +++ A++I D + + +E K++ K E V S+ P +EEL+LSVR+ NC Sbjct: 198 NEALKSAAQITIDLFELLLKNKETKEKNKLEATKVPSISIEPYTNIAIEELQLSVRAYNC 257 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 L+ I +GDL++ + + + NFGRKS E+ Sbjct: 258 LKKAQINTVGDLLKYSPEKLQELKNFGRKSADEV 291 >gi|154424779|emb|CAL18492.1| RNA polymerase alpha subunit [Streptococcus dysgalactiae subsp. equisimilis] Length = 179 Score = 151 bits (382), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 74/177 (41%), Positives = 121/177 (68%) 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 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 +KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + + Sbjct: 121 VKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLKLFTDLTD 177 >gi|108792431|emb|CAJ44678.1| RNA polymerase alpha subunit [Lactobacillus acidipiscis] Length = 196 Score = 151 bits (382), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 77/174 (44%), Positives = 119/174 (68%), Gaps = 2/174 (1%) Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE SSI GV ED+T IILN+K + LK++ + + + I GP VTAGDIQ +++EV Sbjct: 1 VLHEFSSIDGVLEDVTTIILNLKKVALKLNSEDVQTLEIDVTGPMEVTAGDIQGSSEVEV 60 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSY 185 LNPD IC + A +T +KG GYV A + +TE+ PIG++ ID++Y+PI++V+Y Sbjct: 61 LNPDLYICTVADGASFHARMTANKGRGYVSANENKAKTEDMPIGVLAIDSIYTPIERVNY 120 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 VE R GQ D+DKL++ + T+GSIT ++++L+++IL + L +F++ + K Sbjct: 121 QVEKTRVGQKSDFDKLTLDVWTNGSITPSEAISLSAKILTEHLTLFVDLTDEAK 174 >gi|108792433|emb|CAJ44679.1| RNA polymerase alpha subunit [Lactobacillus acidipiscis] Length = 194 Score = 151 bits (382), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 77/174 (44%), Positives = 119/174 (68%), Gaps = 2/174 (1%) Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE SSI GV ED+T IILN+K + LK++ + + + I GP VTAGDIQ +++EV Sbjct: 1 VLHEFSSIDGVLEDVTTIILNLKKVALKLNSEDVQTLEIDVTGPMEVTAGDIQGSSEVEV 60 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSY 185 LNPD IC + A +T +KG GYV A + +TE+ PIG++ ID++Y+PI++V+Y Sbjct: 61 LNPDLYICTVADGASFHARMTANKGRGYVSANENKAKTEDMPIGVLAIDSIYTPIERVNY 120 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 VE R GQ D+DKL++ + T+GSIT ++++L+++IL + L +F++ + K Sbjct: 121 QVEKTRVGQKSDFDKLTLDVWTNGSITPSEAISLSAKILTEHLTLFVDLTDEAK 174 >gi|150036724|emb|CAM98253.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. mesenteroides] Length = 181 Score = 151 bits (382), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 81/181 (44%), Positives = 118/181 (65%), Gaps = 2/181 (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 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PI 168 P VTA D+Q D+EVLNPD I + + M +T KG GY A ++ D 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 Query: 229 G 229 G Sbjct: 181 G 181 >gi|150187014|emb|CAK30151.1| RNA polymerase alpha subunit [Streptococcus sinensis] Length = 171 Score = 151 bits (382), Expect = 1e-34, Method: Compositional matrix adjust. 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|119662327|emb|CAJ33151.1| RNA polymerase alpha subunit [Lactobacillus lindneri] Length = 191 Score = 151 bits (382), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 80/173 (46%), Positives = 116/173 (67%), Gaps = 4/173 (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 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKV 183 +LNPD I + A + M +T +KG GYV A+ ++ ND PIG++ +D++Y+PI++V Sbjct: 61 TILNPDLHIATVAEGATLHMTMTANKGRGYVSAEENKARNDDMPIGVLPVDSIYTPIERV 120 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 +Y VE R GQ D+DKL++ + TDGSIT DS++LA++IL L MF+ + Sbjct: 121 NYQVEDTRVGQRDDFDKLTLDVWTDGSITPSDSISLAAKILSQHLDMFVGLTD 173 >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 = 151 bits (382), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 96/322 (29%), Positives = 174/322 (54%), Gaps = 17/322 (5%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 Q EN ++A P G+A +L + LRR L+SS G A A++I+G HE S++G+ ED Sbjct: 18 QISENEANIMAYPFETGYAISLAHPLRRFLLSSSVGYAPIAIKIEGAKHEFDSVRGMLED 77 Query: 82 LTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 ++D ILN+K I K+ + S +++ GP + D+ + +++EV+ PD + L+ D Sbjct: 78 ISDFILNLKEIRFKLKDEASEAKISYSFAGPCTIKGADLNS-DEVEVVTPDAPLATLNED 136 Query: 141 AVVRMELTVSKGHGYVPAK--HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + + + +++G GYVP++ H E+ G I +DA ++P++ +Y +E+ ++ Sbjct: 137 STLNFVIKIAQGIGYVPSEDTHDELED---GYIALDAYFTPVRSATYKIENVLVEDNPNF 193 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +++ + I TDG I+ D+ + ++ QL +F + +K ++ + NP L K Sbjct: 194 ERVILNIRTDGQISPLDAFKNSLEVMYAQLAVF----NSEISIKAATTMERVEENPDLKK 249 Query: 259 ---KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 ++ L LS RS NCL +I +G++ ++ D+ + N G+KS EI L G Sbjct: 250 LVTHIDSLGLSARSFNCLDRSSIKLVGEIALMSQNDLKNVKNLGKKSYDEIVDKLLEFGF 309 Query: 316 FLGMNLPDWPPESIEELAKKYE 337 +G +L D + + L KK E Sbjct: 310 AVGADLAD---DVVSALKKKIE 328 >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 = 151 bits (381), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 102/305 (33%), Positives = 165/305 (54%), Gaps = 10/305 (3%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + I++ + + T +I PL RG A TLGN+LRRVLM L G+A+TAV+I G+ HE Sbjct: 7 DRIDHQIADDRSQTGTFLIG-PLERGQATTLGNSLRRVLMGGLEGSAVTAVRIAGINHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K +++ S + + GP V A DIQ + +E+++ + Sbjct: 66 ATIPGVREDVLDILLNCKQLSINSSSPDLEIGRLVASGPMDVKANDIQFSSQVEIVDGEK 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV-ESAR 191 I + + +E+ V +G GY P E I L+ IDA++ P+K+V++T+ E+A Sbjct: 126 PIATIQEGHNLELEIHVERGVGYRPVDRKSEETTAIDLLQIDAVFMPVKRVNFTIDETAV 185 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L M + TDGS + +D++A A+ L I +P V + P Sbjct: 186 AEGGTGRERLKMEVVTDGSTSPDDAIAEAANQL-------IELFQPLATVTMVEEIPEEP 238 Query: 252 FNPALLK-KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 239 EPSPEAQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIDAL 298 Query: 311 GTMGL 315 +G+ Sbjct: 299 ERIGI 303 >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 = 151 bits (381), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 78/166 (46%), Positives = 118/166 (71%), Gaps = 2/166 (1%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAAIT++QIDGVLHE S+++GV ED+T IILN+K ++LK+ + K + + +GP VTA Sbjct: 1 GAAITSMQIDGVLHEFSTVEGVTEDVTQIILNLKKVSLKLDSEDQKNLELDVKGPAEVTA 60 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITID 174 DIQ N++ +LNPD I + A + ++LT KG GY+ A ++ D IG++ ID Sbjct: 61 SDIQGDNEVTILNPDLHIATVADGAELHIKLTADKGRGYLSANDNKARMDDLAIGVLPID 120 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 ++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T ++V+L Sbjct: 121 SIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLTPTEAVSLG 166 >gi|151416842|emb|CAO78492.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gelidum] Length = 164 Score = 151 bits (381), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 76/164 (46%), 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 HGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQ 194 GY A ++ D PIG++ +D++Y+PI++V+Y VE+ R G Sbjct: 121 RGYSSADENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVGS 164 >gi|154424811|emb|CAL18508.1| RNA polymerase alpha subunit [Streptococcus intermedius] Length = 168 Score = 151 bits (381), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 74/167 (44%), Positives = 114/167 (68%) 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 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 Y VE AR G +DKL++ I TDG+I ED++ L++RIL + L +F Sbjct: 121 YQVEPARVGSNDSFDKLTLEIMTDGTIIPEDALGLSARILTEHLDLF 167 >gi|300379501|gb|ADK08381.1| DNA-directed RNA polymerase alpha subunit [Lactobacillus reuteri] Length = 166 Score = 151 bits (381), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 78/166 (46%), Positives = 118/166 (71%), Gaps = 2/166 (1%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAA+T++QIDGVLHE S++KGV ED+T IILN+K ++LK+ + K + + +GP VTA Sbjct: 1 GAAVTSMQIDGVLHEFSTVKGVTEDVTQIILNLKKVSLKIDSEDQKDLELDVKGPAEVTA 60 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITID 174 DIQ N++ +LNPD I + A + ++LT KG GY+ A ++ D IG++ ID Sbjct: 61 SDIQGDNEVTILNPDLHIATVADGAELHIKLTADKGRGYLSANDNKARMDDLAIGVLPID 120 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 ++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T ++V+L Sbjct: 121 SIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLTPTEAVSLG 166 >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 = 151 bits (381), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 98/286 (34%), Positives = 154/286 (53%), Gaps = 9/286 (3%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + + L G T GN LRRVL+ L G AIT V+I GV E S I GV ED+ +I+LN+ Sbjct: 42 FLIDSLNSGQGITNGNLLRRVLLGDLEGIAITGVRIAGVKDEFSLIPGVREDILEILLNL 101 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK + + + + +GP V+TA IQ +IE +NP+H I + +V +E + Sbjct: 102 KGVILKSNIVTRQFGRLRIQGPAVITASSIQLPPEIETINPNHYIATISTSDIVEIEFKI 161 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G Y A ++ I DA++ P++KV + VE+ + ++L + + T+G Sbjct: 162 ESGRQYRLANELFSDKFE-DFIETDAIFMPVQKVDFKVENVYDNSNNIKERLFLDVWTNG 220 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPK-KEVKEDINV----KSLPFNPALLKKVEELE 264 SI +D++ AS + + F + E K K E N+ + P +P + +EEL+ Sbjct: 221 SIAPQDAIISASNSI---IAFFQSISEQKVKNALEKENIIEKNQVKPIDPYIHIAIEELQ 277 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 LSVR NCL+ I +GDL++ + +L + NFGRKS E+ L Sbjct: 278 LSVRPYNCLKRARINTIGDLLEYSPEKLLELKNFGRKSADEVFATL 323 >gi|150186998|emb|CAK30146.1| RNA polymerase alpha subunit [Streptococcus orisratti] Length = 199 Score = 151 bits (381), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 73/181 (40%), Positives = 122/181 (67%) 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 K 239 K Sbjct: 181 K 181 >gi|269929829|gb|ACZ53810.1| RNA polymerase alpha subunit [Lactobacillus reuteri mlc3] Length = 166 Score = 150 bits (380), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 78/166 (46%), Positives = 118/166 (71%), Gaps = 2/166 (1%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAAIT++QIDGVLHE S+++GV ED+T IILN+K ++LK+ + K + + +GP VTA Sbjct: 1 GAAITSMQIDGVLHEFSTVEGVTEDVTQIILNLKKVSLKLDSEDQKNLELDVKGPAEVTA 60 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITID 174 DIQ N++ +LNPD I + A + ++LT KG GY+ A ++ D IG++ ID Sbjct: 61 SDIQGDNEVTILNPDLHITTVADGAELHIKLTADKGRGYLSANDNKARMDDLAIGVLPID 120 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 ++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T ++V+L Sbjct: 121 SIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLTPTEAVSLG 166 >gi|154424791|emb|CAL18498.1| RNA polymerase alpha subunit [Streptococcus gallolyticus subsp. gallolyticus] Length = 172 Score = 150 bits (380), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 74/171 (43%), Positives = 116/171 (67%) 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 +Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + Sbjct: 121 NYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDL 171 >gi|108792429|emb|CAJ44677.1| RNA polymerase alpha subunit [Lactobacillus acidipiscis] Length = 187 Score = 150 bits (380), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 77/174 (44%), Positives = 119/174 (68%), Gaps = 2/174 (1%) Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE SSI GV ED+T IILN+K + LK++ + + + I GP VTAGDIQ +++EV Sbjct: 1 VLHEFSSIDGVLEDVTTIILNLKKVALKLNSEDVQTLEIDVTGPMEVTAGDIQGSSEVEV 60 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSY 185 LNPD IC + A +T +KG GYV A + +TE+ PIG++ ID++Y+PI++V+Y Sbjct: 61 LNPDLYICTVADGASFHARMTANKGRGYVSANENKAKTEDMPIGVLAIDSIYTPIERVNY 120 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 VE R GQ D+DKL++ + T+GSIT ++++L+++IL + L +F++ + K Sbjct: 121 QVEKTRVGQKSDFDKLTLDVWTNGSITPSEAISLSAKILTEHLTLFVDLTDEAK 174 >gi|154424735|emb|CAL18470.1| RNA polymerase alpha subunit [Streptococcus pasteurianus] Length = 168 Score = 150 bits (380), Expect = 2e-34, Method: Compositional matrix adjust. 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|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 = 150 bits (380), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 74/171 (43%), Positives = 116/171 (67%) 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 +Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + Sbjct: 121 NYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDL 171 >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 = 150 bits (380), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 101/305 (33%), Positives = 165/305 (54%), Gaps = 10/305 (3%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + I++ + T +I PL RG A TLGN+LRRVLM L G+A+TAV+I G+ HE Sbjct: 7 DRIDHQTANDRSQTGTFLIG-PLERGQATTLGNSLRRVLMGGLEGSAVTAVRIAGINHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K +++ S + + GP V A DIQ + +E+++ D Sbjct: 66 ATIPGVREDVLDILLNCKQLSINSSNPELEIGRLVVSGPMEVKANDIQFSSQVEIVDGDK 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV-ESAR 191 I + + +E+ V +G GY P E + L+ IDA++ P+K+V++++ E+A Sbjct: 126 PIATIQEGHNLELEIHVERGVGYRPVDRRNQETTSVDLLQIDAVFMPVKRVNFSIDETAV 185 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L+M + TDGS + +D++A A+ L I +P V + P Sbjct: 186 AEGGTGRERLTMEVVTDGSTSPDDAIAEAANQL-------IELFQPLATVTMVEEIPEEP 238 Query: 252 FNPALLK-KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 239 EPSPEAQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEAL 298 Query: 311 GTMGL 315 +G+ Sbjct: 299 ERIGI 303 >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 = 150 bits (380), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 98/297 (32%), Positives = 160/297 (53%), Gaps = 23/297 (7%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A+TLG LRR L+S L G IT+V+ID + HE ++ GV E + DI+LN+K I Sbjct: 33 PLKKGQANTLGITLRRTLLSDLDGICITSVKIDNIKHEYCTLTGVRESIQDILLNLKEIV 92 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 K D ++ IF +GP +TA DIQ IE+L+ + +I +L ++ELT+ K Sbjct: 93 FKGVCDKTQKGFIFVKGPKKITASDIQIEPCIEILDSNQIIAHLTEPIDFKVELTIEKSM 152 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 G+ + D +IDA++ PI+ V+Y++ + + L + I T+GSIT Sbjct: 153 GFRLQNATQISKDS---FSIDAIFMPIRNVNYSIHPVEKAGDWKSELLILEIWTNGSITP 209 Query: 214 EDSVALASRIL-------------QDQLGMFINFEEPKKEVKEDIN----VKSLPFNPAL 256 +++ AS + Q Q NFEE ++ + ++I+ K +L Sbjct: 210 KEAFHQASEKIMNIFLSLSNSSDNQIQEKSTKNFEEKEEFIFQNIDGFKQDKETKVQESL 269 Query: 257 -LKKVE--ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 KK+ +LELS R+ NCL+ E I + DL+ ++ D+L++ NFG++S ++ L Sbjct: 270 GWKKISINQLELSARAYNCLKNEKISTLFDLLNYSQEDLLKIKNFGKRSFEQVVNAL 326 >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 = 150 bits (379), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 96/307 (31%), Positives = 164/307 (53%), Gaps = 27/307 (8%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + E++NRT++ PL GF TLGNALRR+ +SS+ GA++ AV+ G HE +GV Sbjct: 14 INSEDKNRTVVKIAPLEIGFGDTLGNALRRICLSSIPGASMFAVKFGGYSHEFQPYEGVK 73 Query: 80 EDLTDIILNIKGINLKMSG-------------DSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 ED+T IILN+K + +K+ D ++ I +GPGV+TA DI E Sbjct: 74 EDITHIILNLKNLAIKIDELIYSEDYFNNLLIDKWPKMKINFKGPGVITAKDIVCPVGFE 133 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 ++N D I + V +E+ G G V ++ + +I D+ YSP+ +Y Sbjct: 134 IVNQDLYIAEVTKPIDVEIEIFAKTGRGRVDFNTNKDFVSTLHIIATDSNYSPVLHYAYN 193 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE ++ + + L++ I T+G+I+G +++A+A++I+Q L EP + + IN Sbjct: 194 VEMIKDSKSSMSEILTIDIATNGTISGSEAIAIAAKIMQAHL-------EPIMNIDKTIN 246 Query: 247 VKSLPFNPALLKK-------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + +K +++L+L+VR+ N L+ I +LI+ T++ + ++ N G Sbjct: 247 EMIIMREREEEEKRQNASISIDDLDLTVRAYNALKQSGINTTAELIELTKSQLEKIKNLG 306 Query: 300 RKSLVEI 306 RKS+ EI Sbjct: 307 RKSVTEI 313 >gi|154424789|emb|CAL18497.1| RNA polymerase alpha subunit [Streptococcus gallolyticus subsp. gallolyticus] Length = 169 Score = 150 bits (379), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 74/168 (44%), 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 + + ++ +TV+K GYVPA+ ++ E+ P+G + +D++Y+P+KKV Sbjct: 61 DVEIVNPDHYLFTIAEGHSLKATMTVAKKRGYVPAEGNKKEDAPVGTLAVDSIYTPVKKV 120 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F Sbjct: 121 NYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLF 168 >gi|119672811|emb|CAK95486.1| RNA polymerase alpha subunit [Lactobacillus farciminis] Length = 172 Score = 150 bits (379), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 69/171 (40%), Positives = 116/171 (67%) 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 +Y VE+ R G+ D+DKL++ I T+GSI ++++L+++IL + L F+N Sbjct: 121 NYQVENTRVGKRNDFDKLTIDIWTNGSIGPREAISLSAKILTEHLNSFVNL 171 >gi|154424759|emb|CAL18482.1| RNA polymerase alpha subunit [Streptococcus anginosus] Length = 184 Score = 150 bits (378), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 73/171 (42%), Positives = 113/171 (66%) 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 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 AR G +DKL++ I TDG+I ED++ L++RIL + L +F N E K Sbjct: 121 PARVGSNDGFDKLTLEIMTDGTIIPEDALGLSARILTEHLDLFTNLTEVAK 171 >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 = 150 bits (378), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 102/299 (34%), Positives = 175/299 (58%), Gaps = 19/299 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + +PL G TLGNALRR L+S L G AITAV+I GV HE S+I G+ ED+ +I+LN+ Sbjct: 23 FVIDPLKPGQGTTLGNALRRTLLSELEGLAITAVRIAGVSHEFSTINGIREDVLEILLNL 82 Query: 90 KGINL--KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K I ++ + R+T+ +GP +VTA + +I++++P+ I + + + ME Sbjct: 83 KEIVFSGQLQESTIGRLTV--QGPAIVTARSFELPPEIKLIDPEQYIATICGNNTLEMEF 140 Query: 148 TVSKGHGY-VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR-EGQVLDYDKLSMTI 205 + G GY + K + TE+ + +D+++ P+KKV++ +E R E +L+ ++L + I Sbjct: 141 KIEVGSGYKIVEKDNSTEH--FEFLQVDSVFMPVKKVNFRIEETRGENNILN-EQLILDI 197 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+GSI+ +++++ A+ L + +F + E + D +L +EEL+L Sbjct: 198 WTNGSISAKEAISNAADNL---INLFSPLKTIDGESETDYETNETSHINQIL--IEELQL 252 Query: 266 SVRSTNCL-RG-ENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 SVR+ NCL RG +I + DL+ ++ D++ + NFG+KS E V+ + LG+NLP Sbjct: 253 SVRAYNCLKRGCAHIHSVADLLDYSQEDLIEIKNFGQKSAEE---VIDALQKRLGINLP 308 >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 = 150 bits (378), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 96/307 (31%), Positives = 164/307 (53%), Gaps = 27/307 (8%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + E++NRT++ PL GF TLGNALRR+ +SS+ GA++ AV+ G HE +GV Sbjct: 14 INSEDKNRTVVKIAPLEIGFGDTLGNALRRICLSSIPGASMFAVKFGGYSHEFQPYEGVK 73 Query: 80 EDLTDIILNIKGINLKMSG-------------DSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 ED+T IILN+K + +K+ D ++ I +GPGV+TA DI E Sbjct: 74 EDITHIILNLKNLAIKIDELIYSEDYFNNLLIDKWPKMKINFKGPGVITAKDIVCPVGFE 133 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 ++N D I + V +E+ G G V ++ + +I D+ YSP+ +Y Sbjct: 134 IVNQDLYIAEVTKPIDVEIEIFAKTGRGRVDFNTNKDFVSTLHIIATDSNYSPVLHYAYN 193 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE ++ + + L++ I T+G+I+G +++A+A++I+Q L EP + + IN Sbjct: 194 VEMIKDSKSSMSEILTIDIATNGTISGSEAIAIAAKIMQAHL-------EPIVNIDKTIN 246 Query: 247 VKSLPFNPALLKK-------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + +K +++L+L+VR+ N L+ I +LI+ T++ + ++ N G Sbjct: 247 EMIIMREREEEEKRQNASISIDDLDLTVRAYNALKQSGINTTAELIELTKSQLEKIKNLG 306 Query: 300 RKSLVEI 306 RKS+ EI Sbjct: 307 RKSVTEI 313 >gi|154424723|emb|CAL18464.1| RNA polymerase alpha subunit [Streptococcus gallolyticus] Length = 175 Score = 150 bits (378), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 74/174 (42%), Positives = 118/174 (67%) 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 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + Sbjct: 121 KKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDL 174 >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 = 150 bits (378), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 96/317 (30%), Positives = 164/317 (51%), Gaps = 13/317 (4%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 N+ + A P G+A TL + LRR+L+ S G A A++I GV HE S++GV ED++ Sbjct: 22 NKVQITAYPFENGYAITLAHPLRRLLLGSSVGFAPIALRISGVAHEFDSVRGVVEDVSQF 81 Query: 86 ILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 I+N+K I ++ +S +K G V+T D+ +EV+ PD + ++ DA + Sbjct: 82 IVNLKAIRFRIKDNSDNVSVDYKFNGSKVITGADLSN-ELVEVVTPDIHLATINEDATLA 140 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 + + KG GYVP++ R + P G + +DA ++P+ +YT E+ +Y+K+ Sbjct: 141 FSIIIYKGIGYVPSEEIRA-SVPEGFMPLDAYFTPVTSATYTTENMLLEDDPNYEKIIFD 199 Query: 205 IDTDGSITGEDSVALASRILQDQLGMF---INFEEPKKEVKEDINVKSLPFNPALLKKVE 261 I TDG + + A ++ Q+ +F +N E P+ V E+ P L + ++ Sbjct: 200 IQTDGQVDPLTAFKNALSVMHKQMSIFNSELNIEMPETTVSEE----ERPELKVLSQTID 255 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 L S R NCL I Y+G+L+ E + + N G+KSL EI L +G + + Sbjct: 256 SLNFSARCFNCLDRSGIRYLGELVLLNEDQIKNIKNLGKKSLDEITAKLDELGYPVNREI 315 Query: 322 PDWPPESIEELAKKYED 338 P+ + ++ L KK+ + Sbjct: 316 PE---DLLQILKKKFSN 329 >gi|154424807|emb|CAL18506.1| RNA polymerase alpha subunit [Streptococcus lutetiensis] Length = 167 Score = 149 bits (377), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 73/165 (44%), Positives = 115/165 (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 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 +KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L Sbjct: 121 VKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVL 165 >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 = 149 bits (377), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 101/303 (33%), Positives = 164/303 (54%), Gaps = 10/303 (3%) Query: 15 IEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISS 74 I++ + + T +I PL RG A TLGN+LRRVLM L G+A+TAV+I G+ HE ++ Sbjct: 9 IDHQIADDRSQTGTFLIG-PLERGQATTLGNSLRRVLMGGLEGSAVTAVRIAGINHEYAT 67 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 I GV ED+ DI+LN K +++ + + + GP V A DIQ + +E+++ + I Sbjct: 68 IPGVREDVLDILLNCKQLSINSTNPELEIGRLVASGPMEVKANDIQFSSQVEIVDGEKPI 127 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV-ESAREG 193 + + +E+ V +G GY P E I L+ IDA++ P+K+V++T+ E+A Sbjct: 128 ATIQEGHNLELEIHVERGVGYRPVDRKSEETTAIDLLQIDAVFMPVKRVNFTIDETAVAE 187 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 ++L M + TDGS + +D++A A+ L I +P V + P Sbjct: 188 GGTGRERLKMEVVTDGSTSPDDAIAEAANQL-------IELFQPLATVTMVEEIPEEPEP 240 Query: 254 PALLK-KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 + +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 241 SPEAQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALER 300 Query: 313 MGL 315 +G+ Sbjct: 301 IGI 303 >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 = 149 bits (377), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 103/284 (36%), Positives = 155/284 (54%), Gaps = 9/284 (3%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG A TLGN+LRRVLM L G+A+TAV+I GV HE ++I GV ED+ DI+LN K I+ Sbjct: 27 PLERGQATTLGNSLRRVLMGGLEGSAVTAVRIAGVNHEYATIPGVREDVLDILLNCKQIS 86 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 + + + GP V A DIQ + +EV++ D I + + +E+ V +G Sbjct: 87 VDSRSQELEIGRLVVTGPADVKAKDIQFSSQVEVVDGDRPIATVQEGHNLELEIHVERGV 146 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV-ESAREGQVLDYDKLSMTIDTDGSIT 212 GY P E I L+ IDA++ PI +V++T+ E+A ++L M + TDGS + Sbjct: 147 GYRPVDRKNEETSAIDLLQIDAVFMPINRVNFTIDETAVAEGGSTRERLKMELVTDGSTS 206 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK-KVEELELSVRSTN 271 +D++A A+ L I +P V + P A + +EEL LSVR+ N Sbjct: 207 PDDALAEAANQL-------IELFQPLATVSMVEEIPEEPEPAAEAQIPLEELNLSVRAYN 259 Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 CL+ + + DL+ + D+L + NFG KS E+ L +G+ Sbjct: 260 CLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALERIGI 303 >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 = 149 bits (377), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 93/303 (30%), Positives = 162/303 (53%), Gaps = 25/303 (8%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNA+RRVL+S + GA++ A+ I G E ++++G+ ED+T+++LN K + Sbjct: 29 PLESGFVITIGNAMRRVLLSCIPGASVFALSISGAKQEFAAVEGMKEDVTEVVLNFKQLV 88 Query: 94 LKMSG-------------DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 +K+S + +T+ G V A D++ EV+N D + +L D Sbjct: 89 VKISDLLFEDGEMVEPPLERWPLLTVTAEKAGPVYAKDLECPAGFEVVNKDLYLFSLQTD 148 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 V + + V +G G+V +R + +G+I D+ +SP+ Y V+ + + D Sbjct: 149 KKVTVNVYVKQGRGFVTFLENREMINSLGIIATDSNFSPVLHCGYEVQELKTSKQKITDH 208 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK------EVKEDINVKSLPFNP 254 L+ I T+G+I+ D+ A+A++IL + L +N E K E E+ V+S Sbjct: 209 LTFKIATNGAISAVDAFAMAAKILIEHLNPIVNVNESIKALNIIQEKAEERRVRSFA--- 265 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 K++EEL+ +VR+ NCL+ I + +L+ ++ AD+ + N G+KS EI + +G Sbjct: 266 ---KQIEELDFTVRTFNCLKRSGIHTLQELLSKSLADIREIRNLGKKSEREIIKKVHELG 322 Query: 315 LFL 317 L L Sbjct: 323 LKL 325 >gi|301633194|gb|ADK86748.1| DNA-directed RNA polymerase, alpha subunit [Mycoplasma pneumoniae FH] Length = 327 Score = 149 bits (377), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 93/303 (30%), Positives = 162/303 (53%), Gaps = 25/303 (8%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNA+RRVL+S + GA++ A+ I G E ++++G+ ED+T+++LN K + Sbjct: 29 PLESGFGITIGNAMRRVLLSCIPGASVFALSISGAKQEFAAVEGMKEDVTEVVLNFKQLV 88 Query: 94 LKMSG-------------DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 +K+S + +T+ G V A D++ EV+N D + +L D Sbjct: 89 VKISDLLFEDGEMVEPPLERWPLLTVTAEKAGPVYAKDLECPAGFEVVNKDLYLFSLQTD 148 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 V + + V +G G+V +R + +G+I D+ +SP+ Y V+ + + D Sbjct: 149 KKVTVNVYVKQGRGFVTFLENREMINSLGIIATDSNFSPVLHCGYEVQELKTSKQKITDH 208 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK------EVKEDINVKSLPFNP 254 L+ I T+G+I+ D+ A+A++IL + L +N E K E E+ V+S Sbjct: 209 LTFKIATNGAISAVDAFAMAAKILIEHLNPIVNVNESIKALNIIQEKAEERRVRSFA--- 265 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 K++EEL+ +VR+ NCL+ I + +L+ ++ AD+ + N G+KS EI + +G Sbjct: 266 ---KQIEELDFTVRTFNCLKRSGIHTLQELLSKSLADIREIRNLGKKSEREIIKKVHELG 322 Query: 315 LFL 317 L L Sbjct: 323 LKL 325 >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 = 149 bits (377), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 101/303 (33%), Positives = 164/303 (54%), Gaps = 10/303 (3%) Query: 15 IEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISS 74 I++ + + T +I PL RG A TLGN+LRRVLM L G+A+TAV+I G+ HE ++ Sbjct: 8 IDHQIADDRSQTGTFLIG-PLERGQATTLGNSLRRVLMGGLEGSAVTAVRIAGINHEYAT 66 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 I GV ED+ DI+LN K +++ S + + GP V A DIQ + +E+++ + I Sbjct: 67 IPGVREDVLDILLNCKQLSINSSNPELEIGRLVASGPLDVKANDIQFSSQVEIVDGEKPI 126 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV-ESAREG 193 + + +E+ V +G GY P E I L+ IDA++ P+K+V++++ E+A Sbjct: 127 ATIQEGHNLELEIHVERGVGYRPVDRKNQETTAIDLLQIDAVFMPVKRVNFSIDETAVAE 186 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 ++L M + TDGS + +D++A A+ L I +P V + P Sbjct: 187 GGTGRERLKMEVVTDGSTSPDDAIAEAANQL-------IELFQPLATVTMVEEIPEEPEP 239 Query: 254 PALLK-KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 + +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 240 SPEAQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALER 299 Query: 313 MGL 315 +G+ Sbjct: 300 IGI 302 >gi|154424775|emb|CAL18490.1| RNA polymerase alpha subunit [Streptococcus dysgalactiae subsp. dysgalactiae] Length = 169 Score = 149 bits (376), Expect = 6e-34, Method: Compositional matrix adjust. 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|150187152|emb|CAK30182.1| RNA polymerase alpha subunit [Streptococcus vestibularis ATCC 49124] Length = 190 Score = 149 bits (376), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 72/174 (41%), Positives = 116/174 (66%) 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 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + + K Sbjct: 121 QVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTDVAK 174 >gi|150036832|emb|CAO03476.1| DNA-directed RNA polymerase alpha chain [Leuconostoc carnosum] Length = 174 Score = 149 bits (376), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 79/168 (47%), Positives = 111/168 (66%), Gaps = 2/168 (1%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D Sbjct: 3 TLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDEE 62 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 + + I +GP VTA D+Q D+EVLNPD I + + M +T KG GY A + Sbjct: 63 RVLEIDVQGPSEVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYSSADEN 122 Query: 162 RT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + E PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T Sbjct: 123 KQLREEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWT 170 >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 = 149 bits (375), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 104/313 (33%), Positives = 166/313 (53%), Gaps = 9/313 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 EN + A P G+A TL + LRR+L +S G A V+I GV HE S++G+ ED+ Sbjct: 21 ENVANITAYPFEAGYAVTLAHPLRRLLYTSTVGFAPIGVKIKGVSHEFDSMRGMLEDVAF 80 Query: 85 IILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVND-IEVLNPDHVICNLDVDAV 142 I+N+K I K+ S + V + +GP +T D+ ND +E++NPD + ++ DA Sbjct: 81 FIINLKKIRFKLKSGSEREVIEYSFKGPKEITGADLN--NDLVEIVNPDAYLATINEDAE 138 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + + + KG GYVP++ R E + I +DA ++P+KK Y +++ DY+K+ Sbjct: 139 LNFSVIIQKGIGYVPSEEIREEIE-DEYIALDAFFTPVKKAVYEIQNVLVEDDPDYEKIV 197 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 TI TDG + ++ + Q+ +F + + S F+ LL VE+ Sbjct: 198 FTITTDGQVGPVEAFKNCLEAMYQQMSVFKGILDIDVSAPVASSSASGEFS-KLLSSVED 256 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 L LS RS NCL I ++G+L E ++ + N G+KSL EIK V+ +G +G+ Sbjct: 257 LNLSARSFNCLDKAEIRFIGELALMDENELKELKNLGKKSLEEIKAVMEEIGYPVGV--- 313 Query: 323 DWPPESIEELAKK 335 D +S E+L KK Sbjct: 314 DVLKDSKEQLRKK 326 >gi|47679559|gb|AAT36723.1| RNA polymerase alpha subunit [Phaeodactylum sp. Bohlin BA153065] Length = 298 Score = 149 bits (375), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 90/269 (33%), Positives = 151/269 (56%), Gaps = 9/269 (3%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI----NLKMS 97 T+GN LRRVL+ L G AI+AV+I G+ HE S+I GV ED+ +I+LN+KGI ++ + Sbjct: 35 TIGNQLRRVLLGDLGGVAISAVRIAGITHEFSTIPGVREDILEILLNLKGIICTSQIQDT 94 Query: 98 GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP 157 H +V +GP VVTA IQ ++E++NP+H I + ++ +E G GY Sbjct: 95 QFGHLKV----QGPSVVTADLIQLPPEVEIINPNHYIATITTSNILEIEFKFVYGGGYHL 150 Query: 158 AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 A D + +D ++ P++KV + +E+ + ++L + I T+GSI+ D++ Sbjct: 151 ASQKFCREDE-NYLQLDTIFMPVQKVDFKIENIYDATNNISERLFLDIWTNGSISPNDAL 209 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGEN 277 A++++ D + IN + ++++ P +EEL+LSVR+ NCL+ Sbjct: 210 ESAAQVIIDLFTLLINNTNINNNNRLVKAIRAISIEPYTNIAIEELQLSVRAYNCLKKAQ 269 Query: 278 IVYMGDLIQRTEADMLRMANFGRKSLVEI 306 I +GDL+Q + + + NFGRKS E+ Sbjct: 270 INTVGDLLQYSPEKLQELKNFGRKSADEV 298 >gi|289524820|emb|CBJ94466.1| alpha subunit of RNA polymerase [Vibrio sp. C15.18] Length = 173 Score = 149 bits (375), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 75/176 (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++ + + + + F+P LL+ V+ Sbjct: 61 VIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEE---KEEKPEFDPILLRPVD 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|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 = 149 bits (375), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 97/267 (36%), Positives = 149/267 (55%), Gaps = 13/267 (4%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 T+GNALRRVL++ L G AITAV+I GV HE +I GV ED+ +I+LN+K I + Sbjct: 35 TIGNALRRVLLTDLMGTAITAVRIYGVNHEYGTIPGVREDVLEILLNLKQIKFHGTCSDP 94 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY--VPAK 159 +T+ GP ++TA DI +++ V+N I + +++EL + G GY V + Sbjct: 95 VLITLEIEGPYLLTAVDITVPSNLNVINTKQYIATISEQTKLKLELQIESGCGYRLVTDE 154 Query: 160 HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 HR D + IDA+++P+K VSY V + L + I TDGS+ +D++ Sbjct: 155 LHR---DSGTFLNIDAIFTPVKNVSYKVLDLYRFDEKLLEDLVLEITTDGSLNPKDALIQ 211 Query: 220 ASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIV 279 A+ ILQ+ G + EPK +K+ + S +EEL+LSVR+ NCL+ NI Sbjct: 212 AANILQNMFGS-LTVGEPKA-LKQTTTISSRQI------LIEELQLSVRAYNCLKRANIR 263 Query: 280 YMGDLIQRTEADMLRMANFGRKSLVEI 306 + DL Q + ++ + NFG+KS E+ Sbjct: 264 TIDDLTQYSIKELKELKNFGQKSANEV 290 >gi|162751059|gb|ABY19884.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 149 bits (375), Expect = 8e-34, Method: Compositional matrix adjust. 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|150187052|emb|CAK30160.1| RNA polymerase alpha subunit [Streptococcus constellatus subsp. pharyngis] Length = 150 Score = 148 bits (374), Expect = 9e-34, Method: Compositional matrix adjust. 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|154424799|emb|CAL18502.1| RNA polymerase alpha subunit [Streptococcus hyointestinalis] Length = 167 Score = 148 bits (373), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 72/165 (43%), Positives = 115/165 (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 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 +KKV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL Sbjct: 121 VKKVNYQVEPARVGSNDGFDKLTVEIMTNGTIIPEDALGLSARIL 165 >gi|150187130|emb|CAK30177.1| RNA polymerase alpha subunit [Streptococcus macacae NCTC 11558] Length = 178 Score = 148 bits (373), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 73/176 (41%), Positives = 115/176 (65%) 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 NYQVEPARVGSKDSFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAK 176 >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 = 148 bits (373), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 105/328 (32%), Positives = 174/328 (53%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMELRARDLNS-DHIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKKV Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKKVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELSSEQRESLKKRLEKLEDK 340 >gi|119662331|emb|CAJ33154.1| RNA polymerase alpha subunit [Lactobacillus nagelii] Length = 175 Score = 148 bits (373), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 74/171 (43%), Positives = 119/171 (69%), Gaps = 2/171 (1%) Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGVLHE S+IKGV ED+T IILN+K + LK+ + + + I GP VTA DIQ +++ Sbjct: 1 DGVLHEFSTIKGVREDVTQIILNLKKVALKIDSEEDQALEIDVTGPLDVTASDIQGSSEV 60 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKV 183 EVLN D +C++ A + + + +KG GYV A ++T+ D PIG++ ID++Y+PI++V Sbjct: 61 EVLNKDLYLCSVAEGASLHVRMNANKGRGYVSADENKTKADDMPIGVLPIDSIYTPIERV 120 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 +Y VE R GQ DYDKL++ + T+GSI+ ++++L+++IL + L +F++ Sbjct: 121 NYQVEKTRVGQKNDYDKLTLDVWTNGSISPSEAISLSAKILTEHLTLFVDL 171 >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 = 148 bits (373), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 105/328 (32%), Positives = 173/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKESNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMELRARDLNS-EQIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKKV Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKKVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELSPEQRESLKKRLEKLEDK 340 >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 = 148 bits (373), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 92/289 (31%), Positives = 156/289 (53%), Gaps = 2/289 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + + L G T+GN LRRVL++ L G AI+AV+I GV HE S+I GV ED+ +I+LN+ Sbjct: 23 FLIQTLRPGQGITIGNQLRRVLLNDLGGVAISAVRIAGVSHEFSTIPGVREDILEILLNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + + +GP VVTA IQ + +E++NP+ I + ++ +E Sbjct: 83 KEIVLRSKTQTPQFGRLKIQGPAVVTADLIQLPSTVEIVNPNQYIMTISTSNILEIEFKF 142 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GY A E + + +DA++ PI+KV + +E+ + ++L + I T+G Sbjct: 143 DYGTGYRLASQTFLEENE-NYLQLDAIFMPIQKVDFKIENVYDKANNITERLFLDIWTNG 201 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI+ +++ A++I D + ++ + ++ P +EEL+LSVR+ Sbjct: 202 SISPTEAMKSAAQITIDVFTSLLENKDTNSSNEVPSKTSAISLEPYTNIAIEELQLSVRA 261 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL-GTMGLFL 317 NCL+ I +GDL+ + + + NFGRKS E+ L +G+ L Sbjct: 262 YNCLKKAQINTVGDLLHYSPEKLQELKNFGRKSADEVFSTLKNKLGIIL 310 >gi|317009976|gb|ADU80556.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori India7] Length = 344 Score = 147 bits (372), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 105/328 (32%), Positives = 173/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKESNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMELRARDLNS-EHIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKKV Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKKVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSTKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELSPEQRESLKKRLEKLEDK 340 >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 = 147 bits (372), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 99/298 (33%), Positives = 161/298 (54%), Gaps = 9/298 (3%) Query: 12 PNNIEYIVLGQEEENRTL---MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 P+ I Y + + E R L + EPL G T+GN LRR+L+ + GAAIT+V+I G Sbjct: 8 PSTI-YCIESKIESPRNLYGRFLIEPLAIGQGITVGNTLRRILLGDIEGAAITSVKIPGA 66 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +E S + G+ E + +I+LN+K I + ++ + +GP VV A ++Q IEV+ Sbjct: 67 NNEFSILPGIRESVLEILLNLKEIVFRTKSLDVQKGYLSIQGPCVVKAANLQLPTSIEVV 126 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L +A + ME ++ G GY A + +N I + +DA++ PI KV+Y VE Sbjct: 127 DGGQYIATLSGNANLDMEFVINTGKGYQMADYAIKKNSYISSLPVDAIFMPIHKVNYMVE 186 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + L +++ + I T+GSI+ D++ + + + D + K D + + Sbjct: 187 QDHTSKFLT-ERVILEIWTNGSISPRDALDIGIKKVIDLFNPLHHCSSEYSTNKNDFSTE 245 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 S N L VEELELSVR+ NCL+ I + DL+ ++ D+L + NFGR+S E+ Sbjct: 246 S-KINDIL---VEELELSVRAYNCLKRAQIHTISDLLAYSQEDLLEIKNFGRRSAEEV 299 >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 = 147 bits (371), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 105/328 (32%), Positives = 173/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKESNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPIGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMELRARDLNS-EQIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKKV Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKKVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYTQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELSPEQRESLKKRLEKLEDK 340 >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 = 147 bits (371), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 105/328 (32%), Positives = 173/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMELRARDLNS-EQIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKKV Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKKVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|154424825|emb|CAL18515.1| RNA polymerase alpha subunit [Streptococcus parasanguinis] Length = 167 Score = 147 bits (371), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 72/166 (43%), Positives = 111/166 (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 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 VE AR G +DKL++ I T+G+I ED++ L++RIL + L +F Sbjct: 121 QVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLNLF 166 >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 = 147 bits (371), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 104/318 (32%), Positives = 167/318 (52%), Gaps = 11/318 (3%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E N+ + P GF ++ + +RR L+++ G A ++I+GV HE S+KG+ ED Sbjct: 17 NKEGNKASIEVYPFEAGFGVSVAHPIRRTLIAATTGFAPVGLKIEGVKHEFDSLKGMLED 76 Query: 82 LTDIILNIKGINLKMSGDSHKRVTI--FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 + I+N+K I K+ S V + F GP + D+ +I+V+ PD I L+ Sbjct: 77 VASFIINLKNIRFKIKNSSKDEVVVEYFFTGPKEIKGADLIN-EEIDVVTPDEYIATLNE 135 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + +++ L + KG G+V ++ R + P G I +DA +SPIKK Y +E+ +Y+ Sbjct: 136 EGELKLTLLIKKGMGFVAVENFR-DTLPEGFIGLDAYFSPIKKAVYNIENVLVEDDPNYE 194 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP--FNPALL 257 K+ ++TDG I D+ A +Q G+F +E K E K+ NV+ LP +N L Sbjct: 195 KVIFEVETDGQIDPIDAFKNAVNNYLNQFGVFS--KEFKLETKKVENVE-LPDEYN-ILF 250 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 K +EEL L RS N L I ++G+L+ + + + N G KSL EI L +G + Sbjct: 251 KPIEELNLRSRSFNALDRAGIKFIGELVLMGKEKISNIKNLGTKSLEEIFEKLEEIGFSI 310 Query: 318 GMNLP-DWPPESIEELAK 334 LP D+ E+LAK Sbjct: 311 NKTLPLDFKKAIEEKLAK 328 >gi|255023418|ref|ZP_05295404.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes FSL J1-208] Length = 195 Score = 147 bits (370), Expect = 3e-33, Method: Compositional matrix adjust. 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|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 = 147 bits (370), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 105/328 (32%), Positives = 173/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMELRARDLSS-EHIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKKV Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKKVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELSHEQRESLKKRLEKLEDK 340 >gi|317013080|gb|ADU83688.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori Lithuania75] Length = 344 Score = 147 bits (370), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 105/328 (32%), Positives = 173/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMELRARDLNS-EHIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKKV Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKKVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|162751159|gb|ABY19934.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] Length = 146 Score = 146 bits (369), Expect = 3e-33, Method: Compositional matrix adjust. 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|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 = 146 bits (369), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 94/322 (29%), Positives = 171/322 (53%), Gaps = 16/322 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 Q +N ++A P G+A +L + LRR L+SS G A A++I+G HE S++G+ ED Sbjct: 18 QISDNEANIMAYPFEVGYAISLAHPLRRFLLSSSVGYAPIAIKIEGAKHEFDSVRGMLED 77 Query: 82 LTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 ++D ILN+K I K++ D + + GP + D+ +++EV+ PD + L+ D Sbjct: 78 ISDFILNLKEIRFKLNNDATQAEINYSFAGPCTIKGADLSN-DEVEVVTPDAPLATLNED 136 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + + L +++G GYV ++ E I +DA ++P++ +Y +++ ++++ Sbjct: 137 STLNFTLKIAQGIGYVASEDTAVEVADDDYIALDAYFTPVRSATYKIDNVLVEDNPNFER 196 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMF---INFEEPK--KEVKEDINVKSLPFNPA 255 + M I TDG I+ D+ + ++ QL +F I+ + P + V+E ++K L N Sbjct: 197 VIMNIKTDGQISPIDAFRNSLEVMYAQLAVFNSEISIKAPATIERVEESPDLKKLTTN-- 254 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 ++ L LS RS NCL +I +G+++ + D+ + N G+KS EI + G Sbjct: 255 ----IDSLGLSARSFNCLDRSSIKLIGEIVLMSTNDLKNVKNLGKKSYDEIVEKIQEFGF 310 Query: 316 FLGMNLPDWPPESIEELAKKYE 337 +G +L D + + L KK E Sbjct: 311 EVGADLAD---DVVTALKKKIE 329 >gi|119668305|emb|CAK95454.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. bulgaricus] Length = 173 Score = 146 bits (368), Expect = 4e-33, Method: Compositional matrix adjust. 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|308062578|gb|ADO04466.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori Cuz20] Length = 344 Score = 146 bits (368), Expect = 5e-33, Method: Compositional matrix adjust. Identities = 105/328 (32%), Positives = 173/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRIKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVNYSFK-GPMELRARDLNS-EHIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKKV Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKKVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|162751067|gb|ABY19888.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 146 bits (368), Expect = 5e-33, Method: Compositional matrix adjust. 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|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 = 145 bits (367), Expect = 6e-33, Method: Compositional matrix adjust. Identities = 104/328 (31%), Positives = 172/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMEIRARDLNS-EQIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E P G + +D ++PIK V Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKNVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELSPEQRESLKKRLEKLEDK 340 >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 = 145 bits (367), Expect = 6e-33, Method: Compositional matrix adjust. Identities = 86/239 (35%), Positives = 139/239 (58%), Gaps = 11/239 (4%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + IKP +E I E I +PL RG+ T+GNALRRVL+SSL G AI V+I G Sbjct: 5 KFIKPFFVEEI---DENPISGKFIIKPLERGYGITVGNALRRVLLSSLPGTAIVNVKIQG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKM---SGDSHKRVTIFKRGPGVVTAGDIQTVND 124 V E ++I GV+ED+ IILN+K I + S D +++ + +GP +TA + Sbjct: 62 VEQEFTTIPGVYEDVMTIILNLKKIVFAVDDESDDFEEKLELIAKGPQRLTASSFELPAG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKV 183 ++++NPDH I L D M +T+ KG GYV AK ++ + +G+I ID+L++P+ V Sbjct: 122 VKIINPDHYITTLSDDVCFHMTVTLKKGIGYVGAKDNKVHGENQVGVIAIDSLFTPVVNV 181 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 SY VE ++ + D+L++ I T+G++ ++++A A+ IL D + + + V+ Sbjct: 182 SYQVEK----KLGNKDELTIEITTNGALLAKEALATAASILVDHFNVLVELSQKPAHVE 236 >gi|154424869|emb|CAL18537.1| RNA polymerase alpha subunit [Streptococcus uberis] Length = 170 Score = 145 bits (367), Expect = 7e-33, Method: Compositional matrix adjust. 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|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 = 145 bits (366), Expect = 8e-33, Method: Compositional matrix adjust. 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|162751151|gb|ABY19930.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 145 bits (366), Expect = 8e-33, Method: Compositional matrix adjust. 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|119662359|emb|CAJ33168.1| RNA polymerase alpha subunit [Lactobacillus sanfranciscensis] Length = 186 Score = 145 bits (366), Expect = 8e-33, Method: Compositional matrix adjust. Identities = 85/186 (45%), Positives = 130/186 (69%), 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 KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND- 166 GP VTA DI T ++ +LNPD I + A + M +T +KG G+V A+ ++ ND Sbjct: 61 VTGPADVTAADITTDSETTILNPDLHIATVAEGATLHMTMTANKGRGFVSAEENKARNDD 120 Query: 167 -PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 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|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 = 145 bits (366), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 104/328 (31%), Positives = 173/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMELRARDLNS-DHIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E P G + +D ++PIK V Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKNVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELSPEQRESLKKRLEKLEDK 340 >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 = 145 bits (365), Expect = 1e-32, Method: Compositional matrix adjust. 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|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 = 145 bits (365), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 94/301 (31%), Positives = 159/301 (52%), Gaps = 25/301 (8%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL GF T+GNA+RRVL+S + GA++ A+ I GV E S+++GV ED+T+++LN K + Sbjct: 30 PLESGFGITIGNAMRRVLLSCIPGASVFAIAISGVKQEFSNVEGVLEDVTEMVLNFKQLV 89 Query: 94 LKMSG----DSHKRVTIFKRGP---------GVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 +++S D +R P G V A D++ EV+N D + +L D Sbjct: 90 VRISDLLFEDGEMIEPPLERWPVLKVTAEKKGAVYAKDLECPAGFEVINKDLYLFSLQKD 149 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + + + V +G G+ +R + +G+I DA +SP+ Y V+ + + D Sbjct: 150 MKLTVSVYVKQGRGFTSFLENRELINSLGIIATDANFSPVLHCGYEVQEVKTSKQKLTDH 209 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK------EVKEDINVKSLPFNP 254 L+ I T+G+I D+ A+A++IL + L ++ E K E E+ VKS Sbjct: 210 LTFKIATNGAIKAVDAFAMAAKILIEHLNPIVSVNESIKNLTIIQEKAEERKVKSFA--- 266 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 K++EEL+ +VR+ NCL+ I + +L+ ++ D+ + N G+KS EI + +G Sbjct: 267 ---KQIEELDFTVRTFNCLKRSGIHTLQELLSKSLTDIREIRNLGKKSEREIIKKVQELG 323 Query: 315 L 315 L Sbjct: 324 L 324 >gi|297380475|gb|ADI35362.1| DNA-directed RNA polymerase, alpha subunit [Helicobacter pylori v225d] Length = 344 Score = 145 bits (365), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 105/328 (32%), Positives = 173/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRIKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMELRARDLSS-EYIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKKV Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKKVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLNAKIENMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELNPEQRESLKKRLEKLEDK 340 >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 = 145 bits (365), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 99/312 (31%), Positives = 164/312 (52%), Gaps = 15/312 (4%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P IE +G N+ + A P G+A TL + LRR+L+ S G A A++I+GV HE Sbjct: 11 PTKIEVKEVGA---NKIEITAYPFEAGYAITLAHPLRRLLLGSSVGFAPVALRIEGVAHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR-GPGVVTAGDIQTVND-IEVLN 129 S++GV ED++ I+N+K I K+ DS +K GP V+T D++ ND ++++ Sbjct: 68 FDSVRGVVEDVSHFIVNLKTIRFKVKDDSESVSIDYKFIGPKVITGEDLK--NDLVDIVT 125 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ + ++ DA++ + V KG GYVP++ R G + +DA ++P+ V+Y E+ Sbjct: 126 PNIHLATINEDAILNFSIIVRKGIGYVPSEDIRNLISE-GYMPLDAYFTPVTSVTYDTEN 184 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF---INFEEPKKEVKEDIN 246 +Y+K+ I TDG I + A ++ Q+ +F +N E P+ + E+ Sbjct: 185 VLVEDDPNYEKVVFNIQTDGQIEPLTAFKNALSVMHKQMAIFNSELNIEVPEVSLGEE-- 242 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 P L + ++ L S R NCL I Y+G+L+ +E + + N G+KSL EI Sbjct: 243 --DSPEIRVLSQSIDSLNFSARCFNCLDRSGIKYLGELVLLSEDQIKNIKNLGKKSLDEI 300 Query: 307 KGVLGTMGLFLG 318 L +G +G Sbjct: 301 TVKLEELGYPIG 312 >gi|162751111|gb|ABY19910.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 144 bits (364), Expect = 1e-32, Method: Compositional matrix adjust. 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|162751167|gb|ABY19938.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] Length = 146 Score = 144 bits (364), Expect = 1e-32, Method: Compositional matrix adjust. 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|317014684|gb|ADU82120.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori Gambia94/24] Length = 344 Score = 144 bits (364), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 104/328 (31%), Positives = 172/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMELRARDLNS-EHIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E P G + +D ++PIK V Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKNVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELSPEQRESLKKRLEKLEDK 340 >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 = 144 bits (363), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 104/328 (31%), Positives = 172/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALIGQDSSLENQSVVVDYSFK-GPMELKARDLSS-EHIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E P G + +D ++PIK V Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKNVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMGKQLGVF--GERPITNTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELSSEQRESLKKRLEKLEDK 340 >gi|315587182|gb|ADU41563.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori 35A] Length = 344 Score = 144 bits (363), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 104/328 (31%), Positives = 172/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMELRARDLNS-EHIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E P G + +D ++PIK V Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKNVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELNPEQRESLKKRLEKLEDK 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 = 144 bits (363), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 92/292 (31%), Positives = 158/292 (54%), Gaps = 25/292 (8%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P +G A+T+G A+RR L++ + GA+IT V+I V HE S+I G+ E + DI++N+K I Sbjct: 36 PFRKGQANTIGIAMRRALLNEIEGASITYVEIKKVKHEYSTITGIQESIHDILINLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 K ++ I GP +TA DI+ + I +++ I L + +EL + K H Sbjct: 96 SKSDSYEPQKAYISIYGPKKITARDIKGTSSIRIIDNTQYIATLTEAISLDIELNIEKDH 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY + + G+ TIDA++ PI+ V+Y+V S G+ + L + I TDGS+T Sbjct: 156 GYRIENLQKYRD---GIFTIDAVFMPIRNVNYSVHSFESGEKTK-EILFLEIWTDGSLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEV------KEDINVKSLPFNPALLKK-------- 259 ++++ ASR L D +N E +KE+ K ++++ PF L Sbjct: 212 KEALYEASRSLIDLFIPLMNSE--RKEINSGMKKKNELDIPCFPFRFISLDMEEMTKDIA 269 Query: 260 -----VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 +++LEL R+ NCL+ N+ + D + +E D++++ NFG+KS+ ++ Sbjct: 270 FKHIFIDQLELPARAYNCLKRVNVHTIADSLNYSEDDLVKIKNFGKKSIEQV 321 >gi|317178416|dbj|BAJ56204.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori F30] Length = 344 Score = 144 bits (363), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 104/328 (31%), Positives = 172/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMELRARDLSS-EHIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E P G + +D ++PIK V Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKNVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMGKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKSVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELNPEQRESLKKRLEKLEDK 340 >gi|119668311|emb|CAK95456.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. lactis] Length = 191 Score = 144 bits (363), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 72/169 (42%), Positives = 108/169 (63%) Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 V+IDG+LHE +++ GV ED+T IILN+K + L+ + K + + GP VTA D++ Sbjct: 6 VKIDGILHEFTTVPGVKEDVTKIILNLKKLVLRAYTEEVKTIELDVEGPATVTAEDLKAD 65 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 D+EVLNPD IC + + M + V G GYVPA +++ IG I +D+L+SPI+K Sbjct: 66 ADVEVLNPDQYICTIAQGGHLHMWIDVCNGRGYVPASENKSAEMSIGDIPVDSLFSPIEK 125 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 V+Y VES R G+ D+DKL++ I T+GSI D++ A+R+L + F Sbjct: 126 VNYQVESTRVGKREDFDKLTLEIWTNGSIAPNDALNFAARVLVEHFKAF 174 >gi|150036742|emb|CAM98025.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. dextranicum] Length = 178 Score = 144 bits (363), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 75/177 (42%), Positives = 114/177 (64%), Gaps = 2/177 (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 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALY 177 Q D+EVLNPD I + + M +T KG GY A ++ D PIG++ +D++Y Sbjct: 61 QGGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYTSADENKKLRDEMPIGVLAVDSIY 120 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 +PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L ++IL + LG+F++ Sbjct: 121 TPIERVNYQVENTRIGARDDYDKLTFDIWTNGSIKPSDALSLGAKILAEHLGLFMDI 177 >gi|317182539|dbj|BAJ60323.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori F57] Length = 344 Score = 144 bits (362), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 104/328 (31%), Positives = 172/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMELRARDLNS-EHIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E P G + +D ++PIK V Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKNVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELSPDQRESLKKRLEKLEDK 340 >gi|162751135|gb|ABY19922.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 144 bits (362), Expect = 2e-32, Method: Compositional matrix adjust. 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|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 = 144 bits (362), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 95/306 (31%), Positives = 162/306 (52%), Gaps = 24/306 (7%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P +G A+T+G A+RR L++ + GA+IT +I V HE S+I G+ E + DI++N+K I Sbjct: 36 PFRKGQANTVGIAMRRALLNEIEGASITYAKIKKVKHEYSTIIGLQESIHDILINLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK ++ I GP +TA DI+ + I+++ I L+ D ++ +EL + K Sbjct: 96 LKSESFEPQKAYISVLGPKKITAQDIKGPSCIKIMIIAQYIATLNKDILLEIELNIEKDR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY + + GL +DA++ PI+ +Y+V S + + + L + I TDGS+T Sbjct: 156 GYRIENLQKYQE---GLFPVDAVFMPIRNANYSVHSFESEKKIK-EILFLEIWTDGSLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKK----EVKEDINVKSLPFNPALLK----------- 258 ++++ ASR L D IN E+ +K E + N+ PF L Sbjct: 212 KEALYEASRNLIDLFIPLINSEKKEKNFGIEKTNESNMSYFPFQSVSLDIEKMTKDVAFK 271 Query: 259 --KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +++LEL R+ NCL+ N+ + DL+ +E D++++ NFG+KS ++ VL + Sbjct: 272 HIFIDQLELPARAYNCLKKVNVHTIADLLHYSEDDLIKIKNFGKKS---VEQVLEALKKR 328 Query: 317 LGMNLP 322 + LP Sbjct: 329 FSIQLP 334 >gi|162751006|gb|ABY19858.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 144 bits (362), Expect = 3e-32, Method: Compositional matrix adjust. 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|317181015|dbj|BAJ58801.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori F32] Length = 344 Score = 143 bits (361), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 103/328 (31%), Positives = 173/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMELRARDLNS-EHIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ +A + L + KG GYVP+++ R E P G + +D ++PIKKV Y +E+ Sbjct: 136 MPLATINENAQLNFSLIICKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKKVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L E++++ +K EDK Sbjct: 313 DLGYPVGTELNPEQRENLKKRLEKLEDK 340 >gi|150036720|emb|CAM98251.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. cremoris] Length = 176 Score = 143 bits (361), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 75/174 (43%), Positives = 113/174 (64%), Gaps = 2/174 (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 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPI 180 D+EVLNPD I + + M +T KG GY A ++ D PIG++ +D++Y+PI Sbjct: 63 ADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYTSADENKKLRDEMPIGVLAVDSIYTPI 122 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 ++V+Y VE+ R G DYDKL+ I T+GSI D+++L ++IL + LG+F++ Sbjct: 123 ERVNYQVENTRIGARDDYDKLTFDIWTNGSIKPSDALSLGAKILAEHLGLFMDI 176 >gi|317011493|gb|ADU85240.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori SouthAfrica7] Length = 344 Score = 143 bits (361), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 104/328 (31%), Positives = 172/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPIGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMELRARDLNS-EQIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP++ R E P G + +D ++PIK V Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSEITR-ELMPEGYMPLDGSFTPIKNVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E+P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GEKPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLS 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELSPEQRESLKKRLEKLEDK 340 >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 = 143 bits (361), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 104/328 (31%), Positives = 172/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPIGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMELRARDLNS-EQIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E G + +D ++PIKKV Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMSEGYMPLDGSFTPIKKVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELSHEQRESLKKRLEKLEDK 340 >gi|162751026|gb|ABY19868.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 143 bits (361), Expect = 3e-32, Method: Compositional matrix adjust. 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|119662853|emb|CAJ33219.1| RNA polymerase alpha subunit [Lactobacillus farciminis KCTC 3681] Length = 164 Score = 143 bits (361), Expect = 4e-32, Method: Compositional matrix adjust. 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|261838612|gb|ACX98378.1| alpha subunit of the DNA-dependent RNA polymerase core enzyme [Helicobacter pylori 51] Length = 344 Score = 143 bits (360), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 103/328 (31%), Positives = 172/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALIGQDSSLENQSVVVDYSFK-GPMEIRARDLSS-EHIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG G+VP+++ R E P G + +D ++PIK V Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGHVPSENTR-ELMPEGYMPLDGSFTPIKNVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|150036712|emb|CAM98020.1| DNA-directed RNA polymerase alpha chain [Leuconostoc citreum] Length = 181 Score = 143 bits (360), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 75/177 (42%), Positives = 113/177 (63%), Gaps = 2/177 (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 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALY 177 Q D+EVLNPD I + + M +T KG GY A ++ D PIG++ +D++Y Sbjct: 61 QAGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYSSADENKQLRDEMPIGVLAVDSIY 120 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 +PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L S+IL + L +F++ Sbjct: 121 TPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDALSLGSKILAEHLNLFMDI 177 >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 = 143 bits (360), Expect = 5e-32, Method: Compositional matrix adjust. Identities = 104/328 (31%), Positives = 173/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRIKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSPLENQSVVVDYSFK-GPMELRARDLNS-EHIEIINPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 ++ ++ DA + L + KG GYVP++ R E P G + +D ++PIK V Y +E+ Sbjct: 136 MLLATINEDAQLNFSLIIYKGMGYVPSEITR-ELMPEGYMPLDGSFTPIKNVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E+P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GEKPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELSLEQRESLKKRLEKLEDK 340 >gi|162751121|gb|ABY19915.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 142 bits (359), Expect = 5e-32, Method: Compositional matrix adjust. 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|119668351|emb|CAK95512.1| RNA polymerase alpha subunit [Lactobacillus pentosus] Length = 160 Score = 142 bits (359), Expect = 5e-32, Method: Compositional matrix adjust. Identities = 75/160 (46%), Positives = 110/160 (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 DHVICNLDVDAVVRMELTVSKGHGYVPAK--HHRTENDPIGLITIDALYSPIKKVSYTVE 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|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 = 142 bits (359), Expect = 5e-32, Method: Compositional matrix adjust. 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|161511745|emb|CAP16883.1| DNA-directed RNA polymerase subunit alpha [Pediococcus inopinatus] Length = 141 Score = 142 bits (359), Expect = 6e-32, Method: Compositional matrix adjust. 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 IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A ++ Sbjct: 61 IDVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAILTADTGRGYVSADENKARK 120 Query: 166 D--PIGLITIDALYSPIKKVS 184 D PIG++ ID++Y+PI++V+ Sbjct: 121 DDMPIGVLPIDSIYTPIERVN 141 >gi|317178032|dbj|BAJ55821.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori F16] Length = 344 Score = 142 bits (359), Expect = 6e-32, Method: Compositional matrix adjust. Identities = 103/328 (31%), Positives = 172/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMELRARDLNS-EHIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E P G + +D ++PIK V Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKNVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEITEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L E++++ +K EDK Sbjct: 313 DLGYPVGTELNPEQRENLKKRLEKLEDK 340 >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 = 142 bits (359), Expect = 6e-32, Method: Compositional matrix adjust. Identities = 104/328 (31%), Positives = 172/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPIGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK G + A D+ + + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GSMELRARDLNS-DHIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP++ R E P G + +D ++PIKKV Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSETTR-ELMPEGYMPLDGSFTPIKKVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|119029438|gb|ABL59935.1| DNA-directed RNA polymerase alpha subunit [uncultured bacterium] Length = 219 Score = 142 bits (358), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 82/207 (39%), Positives = 126/207 (60%), Gaps = 17/207 (8%) Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIF-KRGPGVVTAGDIQT 121 ++IDGVLH+ S++ G+ ED+ +++LN+K + ++ D + F K PG V A D Sbjct: 19 IKIDGVLHDYSALDGLQEDVVEVLLNLKELAFNIASDENTVAINFEKSSPGPVLASDFAD 78 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSP 179 ++IEV NP+ VICN+ V++MELT +G GY A + + + IG++ +DA YSP Sbjct: 79 QSNIEVFNPNLVICNV-TSGVLKMELTAQRGRGYELAVNRDVDRNEKSIGVLQLDASYSP 137 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE---- 235 +KKVSY VE AR G D DKL + ++T+G+I+ ED++ ++S ILQ QL F+N + Sbjct: 138 VKKVSYNVEVARFGGRADLDKLVIDLETNGAISPEDAIRISSTILQQQLLAFVNLDSKLL 197 Query: 236 -EPKKEVKEDINVKSLPFNPALLKKVE 261 EP K+ +E F+P L K E Sbjct: 198 KEPTKKEEE--------FDPILCDKGE 216 >gi|162751171|gb|ABY19940.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 142 bits (357), Expect = 9e-32, Method: Compositional matrix adjust. 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|162751022|gb|ABY19866.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 142 bits (357), Expect = 9e-32, Method: Compositional matrix adjust. 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|154424767|emb|CAL18486.1| RNA polymerase alpha subunit [Streptococcus constellatus subsp. constellatus] Length = 171 Score = 142 bits (357), Expect = 9e-32, Method: Compositional matrix adjust. Identities = 70/163 (42%), Positives = 107/163 (65%) Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ IILN+KGI +K + K + + GP +TAGDI T +DIE++NPDH + Sbjct: 2 GVREDVMQIILNVKGIAVKSYVEDEKTIELDVEGPAEITAGDILTDSDIEIVNPDHYLFT 61 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + A ++ +TV+ G GYVPA ++ ++ P+G + +D++Y+P+KKV+Y VE AR G Sbjct: 62 IGEGASLKAIMTVNAGRGYVPADENKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSND 121 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +DKL++ I TDG+I ED++ L++RIL L +F N E K Sbjct: 122 GFDKLTLEIMTDGTIIPEDALGLSARILTQHLDLFTNLTEVAK 164 >gi|162751051|gb|ABY19880.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 142 bits (357), Expect = 1e-31, Method: Compositional matrix adjust. 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|162751155|gb|ABY19932.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] Length = 146 Score = 142 bits (357), Expect = 1e-31, Method: Compositional matrix adjust. 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|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 = 141 bits (356), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 98/299 (32%), Positives = 159/299 (53%), Gaps = 19/299 (6%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 NR ++A P G+A TL + LRR+++ S G A +V+I+G HE +I+G+HED+ Sbjct: 22 NRAEIVAYPFESGYAVTLAHPLRRLILGSSIGYAPISVKIEGAAHEFDNIRGMHEDVAVF 81 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGV--VTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 I+N+K I K+ D RV + G VTA D+ + IEV+N D + L+ DA + Sbjct: 82 IINLKNIRFKIK-DGSDRVELKYSFSGYKEVTAQDLNN-DQIEVVNGDLPLATLNEDAEL 139 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 + ++KG GYVP++ R E P I +DA ++P++K +Y +E +++K++ Sbjct: 140 NFTMVIAKGIGYVPSEDLRDEVAPDS-IALDAFFTPVRKANYKIEPVLVEDNPNFEKITF 198 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMF-------INFEEPKKEVKEDINVKSLPFNPAL 256 I+TD I ++ A ++ QL +F I+ PK+ +D +K PF Sbjct: 199 DIETDAQIGPVEAFTNALEVMNKQLSVFNGVLDVDISTTLPKR-TNDDNELK--PF---- 251 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 L V+ L LS RS N L I ++G+L+ +E ++ + N G+KSL E L G Sbjct: 252 LAAVDALGLSARSFNSLDRAGIKFLGELVLMSENEIKNIKNLGKKSLDETNECLVEHGF 310 >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 = 141 bits (356), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 77/177 (43%), Positives = 113/177 (63%), Gaps = 8/177 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQ 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---HHRTENDPIGLITI 173 D+E++NP+HVIC+L D A + M + V +G GYVPA H + PIG + + Sbjct: 118 HDGDVEIVNPEHVICHLTSDNAAIAMRIKVERGRGYVPASARIHTEEDERPIGRLLV 174 >gi|119662379|emb|CAJ33178.1| RNA polymerase alpha subunit [Lactobacillus pentosus] Length = 158 Score = 141 bits (355), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 73/157 (46%), Positives = 107/157 (68%), Gaps = 2/157 (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 DAVVRMELTVSKGHGYVPAK--HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 A M +T + G GYV A+ HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D Sbjct: 62 GAHFHMRMTANTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNYQVETTRVGQRDD 121 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 +DKL++ + T+GSIT ++++L+++IL D L +F+N Sbjct: 122 FDKLTLDVWTNGSITPSEAISLSAKILTDHLSIFVNL 158 >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 = 141 bits (355), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 104/327 (31%), Positives = 170/327 (51%), Gaps = 18/327 (5%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMELRARDLNS-EHIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKKV Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKKVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYED 338 +G +G L E E L K+ E+ Sbjct: 313 DLGYPVGTELSH---EQRESLKKRLEN 336 >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 = 141 bits (355), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 103/328 (31%), Positives = 172/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++N + Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMELRARDLSS-EHIEIVNLE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKKV Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKKVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L E++++ +K EDK Sbjct: 313 DLGYPVGTELSPEQRENLKKRLEKLEDK 340 >gi|308064070|gb|ADO05957.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori Sat464] Length = 344 Score = 140 bits (354), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 103/328 (31%), Positives = 172/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++N + Sbjct: 78 VSLFIMNLKNIRFIAKVLVGQDSSLENQSVVVDYSFK-GPMELRARDLSS-EHIEIVNLE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKKV Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKKVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L E++++ +K EDK Sbjct: 313 DLGYPVGTELSPEQRENLKKRLEKLEDK 340 >gi|154424819|emb|CAL18512.1| RNA polymerase alpha subunit [Streptococcus mitis] Length = 171 Score = 140 bits (354), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 70/166 (42%), Positives = 108/166 (65%) Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ IILNIKGI +K + K + + GP VTAGDI T +DIE++NPDH + Sbjct: 2 GVREDVMQIILNIKGIAVKSYVEDEKIIELDVEGPAEVTAGDILTDSDIEIVNPDHYLFT 61 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + + ++ +TV+ G GYVPA ++ +N P+G + +D++Y+P+ KV+Y VE AR G Sbjct: 62 IGEGSSLKATMTVNSGRGYVPADENKKDNAPVGTLAVDSIYTPVTKVNYQVEPARVGSND 121 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 +DKL++ I T+G+I ED++ L++RIL + L +F N E K + Sbjct: 122 GFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSTE 167 >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 = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 97/316 (30%), Positives = 164/316 (51%), Gaps = 10/316 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E++ P+++ + +EE N+ + P GF ++ + +RR L++S G A A++I+G Sbjct: 7 EVLIPSDVSF----KEEGNKATIEVYPFEAGFGVSVAHPIRRTLIASTPGFAPIALKIEG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND-IE 126 V HE S+KG+ ED+ I+N+K I K+ V GP + D+ ND ++ Sbjct: 63 VKHEFDSLKGMLEDVASFIINLKNIRFKIKEGDEAVVDYVFVGPKEIKGSDL--ANDLVD 120 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 ++ P+ I L+ +A +++ L + KG G+V ++ R E P G I +DA +SPIKKV Y Sbjct: 121 IVTPNEYIATLNEEAELKLTLIIRKGMGFVAVENFRDE-IPEGFIGLDAYFSPIKKVVYN 179 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 +E+ +++K+ ++TDG I+ D+ A +Q +F +E K E K + Sbjct: 180 IENILVEDDPNFEKVIFEVETDGQISPIDAFKNAVNNYLNQFSVFS--KEFKLEQKTSQS 237 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 V+ L + +E L L RS N L I ++G+L+ + + + N G KSL EI Sbjct: 238 VELDEVYNVLFEPIENLNLRSRSFNALDRAGIRFVGELVLMGKEKISNIKNLGTKSLEEI 297 Query: 307 KGVLGTMGLFLGMNLP 322 L +G L LP Sbjct: 298 FDKLEEIGFPLNKTLP 313 >gi|150036780|emb|CAM98033.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. cremoris] Length = 153 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 71/153 (46%), 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 SKGHGYVPAKHHRTEND--PIGLITIDALYSPI 180 KG GY A ++ D PIG++ +D++Y+PI Sbjct: 121 VKGRGYTSADENKKLRDEMPIGVLAVDSIYTPI 153 >gi|119663528|emb|CAK22335.1| RNA polymerase alpha subunit [Lactobacillus malefermentans] Length = 175 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 74/167 (44%), Positives = 110/167 (65%), Gaps = 4/167 (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 CNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESARE 192 + A M +T +KG GYV A + R E+ PIG++ ID++Y+PI++V+Y VE+ R Sbjct: 61 ATVAEGATFHMRMTANKGRGYVSADQNKVRDEDMPIGVLPIDSIYTPIERVNYQVENTRV 120 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 G DYDKL++ + TDGSI +S++LA++IL + L MF+N + K Sbjct: 121 GHKSDYDKLTLDVWTDGSINPSESISLAAKILMEHLDMFVNLTDEAK 167 >gi|261840008|gb|ACX99773.1| DNA-directed RNA polymerase alpha subunit [Helicobacter pylori 52] Length = 344 Score = 140 bits (353), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 103/328 (31%), Positives = 171/328 (52%), Gaps = 15/328 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL-------KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ I+N+K I + S ++ V + FK GP + A D+ + IE++NP+ Sbjct: 78 VSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFK-GPMELRARDLNS-EHIEIVNPE 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + L + KG GYVP+++ R E G + +D ++PIK V Y +E+ Sbjct: 136 MPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMHEGYMPLDGSFTPIKNVVYEIENVL 194 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 195 VEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTEYSGDYAQRD 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI L Sbjct: 253 DAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLN 312 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G +G L ES+++ +K EDK Sbjct: 313 DLGYPVGTELNPEQRESLKKRLEKLEDK 340 >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 = 140 bits (352), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 97/312 (31%), Positives = 159/312 (50%), Gaps = 29/312 (9%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 NR + A P G+A TL + +RR+L+SS G A TA++I GV HE SI+G+ ED++ Sbjct: 22 NRIRISAYPFESGYAITLAHPIRRLLLSSSVGYAPTALRIQGVTHEFDSIRGIVEDVSHF 81 Query: 86 ILNIKGINLKMSGDSHKRVTIFK--RGPGVVTAGDIQTVND-IEVLNPDHVICNLDVDAV 142 I N+K I + V + +GP V++A ++ VND + ++NP+ + ++ +A Sbjct: 82 ITNLKNIRFLIKDTESDNVQLHYEFKGPMVLSANEL--VNDMVGIVNPEAYLATINENAS 139 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + L V KG GYVP++ R + I +DA ++P+KK Y +E+ +Y+K+ Sbjct: 140 LSFSLIVQKGIGYVPSESIRGKISE-DYIPLDAYFTPVKKAVYEIENVLVEDNPNYEKIV 198 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF-----------INFEEPKKEVKEDINVKSLP 251 I+TDG I + A I+ Q+ +F N E E+K Sbjct: 199 FDIETDGQIEPITAFKEAIAIMHKQMSIFGVDLSTASSGTRNISEDSGELK--------- 249 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L+ K++ L LS R NCL + Y+G+L+ +E ++ + N G+KS EI L Sbjct: 250 ---TLMIKIDTLNLSARCFNCLDRSGLKYVGELVIMSENELKNIKNMGKKSYDEIADKLE 306 Query: 312 TMGLFLGMNLPD 323 +G +G + D Sbjct: 307 ELGYPVGGEIAD 318 >gi|42906|emb|CAA23646.1| unnamed protein product [Escherichia coli] Length = 159 Score = 139 bits (351), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 73/158 (46%), Positives = 104/158 (65%), Gaps = 4/158 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 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|119662839|emb|CAJ33212.1| RNA polymerase alpha subunit [Lactobacillus acidophilus] Length = 151 Score = 139 bits (351), Expect = 5e-31, Method: Compositional matrix adjust. 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|154424841|emb|CAL18523.1| RNA polymerase alpha subunit [Streptococcus pneumoniae] Length = 150 Score = 139 bits (350), Expect = 6e-31, Method: Compositional matrix adjust. 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|154424815|emb|CAL18510.1| RNA polymerase alpha subunit [Streptococcus minor] Length = 174 Score = 139 bits (349), Expect = 8e-31, Method: Compositional matrix adjust. Identities = 68/165 (41%), Positives = 109/165 (66%) 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 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +DKL++ I T+G+ ED++ L++RIL + LG+F + + K Sbjct: 121 NDGFDKLTLEIMTNGTTNPEDALGLSARILMEHLGLFTDLTDVAK 165 >gi|161511737|emb|CAP16879.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 171 Score = 139 bits (349), Expect = 9e-31, Method: Compositional matrix adjust. Identities = 72/171 (42%), 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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSY 185 LNP+ IC + LT KG GY A + R + 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|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 = 138 bits (348), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 73/159 (45%), Positives = 107/159 (67%), Gaps = 5/159 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQINSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG++++++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLSVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPA 158 D+E+ NP+HVIC+L D +A + M + V +G GYVPA Sbjct: 118 HDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPA 156 >gi|150186916|emb|CAK30127.1| RNA polymerase alpha subunit [Streptococcus oligofermentans] Length = 170 Score = 138 bits (347), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 68/163 (41%), Positives = 106/163 (65%) Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 +I GV ED+ IILNIKGI +K K + + GP VTAGDI T +DIE++NPDH Sbjct: 3 TISGVREDVMQIILNIKGIAVKSYVQDEKMIELDVEGPAEVTAGDILTDSDIEIVNPDHY 62 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 + + A + ++ V+ G GYVPA ++ ++ P+G + +D++Y+P+ KV+Y VE AR G Sbjct: 63 LFTISEGARFKAKMAVNSGRGYVPADENKKDDAPVGTLAVDSIYTPVTKVNYQVEPARVG 122 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 +DKL++ I T+G+I ED++ L++RIL + L +F + E Sbjct: 123 SNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLNLFTDLTE 165 >gi|154424737|emb|CAL18471.1| RNA polymerase alpha subunit [Streptococcus oligofermentans] Length = 168 Score = 138 bits (347), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 68/163 (41%), Positives = 106/163 (65%) Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 +I GV ED+ IILNIKGI +K K + + GP VTAGDI T +DIE++NPDH Sbjct: 3 TISGVREDVMQIILNIKGIAVKSYVQDEKMIELDVEGPAEVTAGDILTDSDIEIVNPDHY 62 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 + + A + ++ V+ G GYVPA ++ ++ P+G + +D++Y+P+ KV+Y VE AR G Sbjct: 63 LFTISEGARFKAKMAVNSGRGYVPADENKKDDAPVGTLAVDSIYTPVTKVNYQVEPARVG 122 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 +DKL++ I T+G+I ED++ L++RIL + L +F + E Sbjct: 123 SNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLNLFTDLTE 165 >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 = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 96/301 (31%), Positives = 164/301 (54%), Gaps = 43/301 (14%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+ +R L+ + L +G T+GN LRRVL++ L G AITAV+I+G+ +E ++I GV ED+ Sbjct: 18 EQSSRFLL--KELTQGQGLTIGNTLRRVLLTELEGTAITAVRINGINNEFATIPGVREDV 75 Query: 83 TDIILNIKGINLKMSG------DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 +I+LN+K I K +G +H V +GP +VTA +I + + +LN +H I Sbjct: 76 LEILLNLKQI--KFTGLVTEPFFTHVSV----QGPQLVTAANISLPDGLSLLNSNHYIAA 129 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREG 193 + +EL + G GY + E + I +++D++++P+K V+Y ++ + + Sbjct: 130 VAEQTNFEIELKIESGTGY----NFTDEENRICSGDFLSLDSIFTPVKNVNYQIKDSYKI 185 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 + L + I T+GSIT D++ A+ +LQ G + + L N Sbjct: 186 DEKITEILDLEIITNGSITPNDALNKAALVLQTLFGSLV--------------IDELQTN 231 Query: 254 PALLKK--------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 P L ++ +EEL+LSVR+ NCL+ NI + DL+Q + ++ + NFG+KS E Sbjct: 232 PVLPEQTETELDILIEELQLSVRAYNCLKRVNIKTIADLVQYSVKELKDIKNFGQKSANE 291 Query: 306 I 306 + Sbjct: 292 V 292 >gi|119672803|emb|CAK95517.1| RNA polymerase alpha subunit [Lactobacillus alimentarius] Length = 149 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 64/146 (43%), Positives = 100/146 (68%) 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 GLITIDALYSPIKKVSYTVESAREGQ 194 G++ +D++++P++KV+Y VE+ R G+ Sbjct: 121 GVLPVDSIFTPVEKVNYQVENTRVGK 146 >gi|150187149|emb|CAK30181.1| RNA polymerase alpha subunit [Streptococcus ratti] Length = 178 Score = 137 bits (346), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 66/166 (39%), Positives = 110/166 (66%) Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 ++ GV ED+ IILN+KG+ +K + K + + GP +TAGDI T +DIE++NPDH Sbjct: 3 TVPGVREDVMQIILNLKGLAVKSYVEEEKIIELDVEGPAEITAGDILTDSDIEIVNPDHY 62 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 + + A ++ LTV GY+PA+ ++ ++ P+G + ID++Y+P+KKV+Y VE AR G Sbjct: 63 LFTIAEGASLKATLTVGTNRGYIPAEENKKDDAPVGTLAIDSIYTPVKKVNYQVEPARVG 122 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 ++DKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 123 SNDNFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAK 168 >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 = 137 bits (345), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 90/307 (29%), Positives = 161/307 (52%), Gaps = 18/307 (5%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E + A P GFA TL + LRR+L+SS G + AV+I+G HE S++G+ ED+ Sbjct: 21 ETEAKISAYPFESGFAITLAHPLRRLLLSSSVGYSPIAVKIEGASHEFDSLRGMLEDIAI 80 Query: 85 IILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 I+N+K I K+ D ++ V GP + D+ +D+E+++P+ + ++ D + Sbjct: 81 FIINLKNIKFKILSDENQVEVEYSFNGPKEIKGSDLVN-SDVEIVSPEAHLATINADCNL 139 Query: 144 RMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + + KG GY+P++ R +D I +DA ++P+KKV Y +E +++K Sbjct: 140 TFSVIIQKGIGYMPSEDIRDMVSSD---YIPLDAFFTPVKKVVYDIEKMLVEDNPNFEKA 196 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMF---INFEE--PKKEVKEDINVKSLPFNPAL 256 T+ T+G IT ++ A ++ Q+ +F + E +E + +K L Sbjct: 197 VFTVQTNGQITPINAFKEAVSVMYSQMSVFNKVFDLSEVTVSDSTEEPVELKD------L 250 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 + K+++L LS RS N L + Y+G+L+ +E ++ + N G+KS EI L ++G Sbjct: 251 IVKIDDLNLSARSFNSLDRAGLKYLGELVLMSEVEVKNIKNLGKKSYDEIADKLASLGFP 310 Query: 317 LGMNLPD 323 + LP+ Sbjct: 311 VENTLPE 317 >gi|117575081|emb|CAJ84780.1| RNA polymerase alpha subunit [Lactobacillus amylophilus] Length = 159 Score = 137 bits (345), Expect = 2e-30, Method: Compositional matrix adjust. 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|119663524|emb|CAK22333.1| RNA polymerase alpha subunit [Lactobacillus graminis] Length = 160 Score = 137 bits (345), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 67/160 (41%), Positives = 109/160 (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 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 D+DKL++ + T+GSI+ ++++LA++I+ + L +F++ Sbjct: 121 RNDFDKLTLDVWTNGSISPREAISLAAKIMTEHLAIFVDL 160 >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 = 137 bits (345), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 85/218 (38%), Positives = 130/218 (59%), Gaps = 7/218 (3%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 L EPL G+ T+GN LRRVL+SSL G AI++V+I+GV HE S+IKGV ED+T+IILN Sbjct: 23 LFKIEPLFPGWGVTIGNTLRRVLLSSLEGYAISSVKIEGVNHEFSTIKGVIEDMTEIILN 82 Query: 89 IKGINLKMSGDSHKRVT-----IFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAV 142 +K + K + + I +TAGD+ + +N ++LNPD +I N Sbjct: 83 LKKVRFKKNKKKENFESEVFNMIISNDKEEITAGDLGKYINKFDILNPDLIILNKQKLIS 142 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + + + + KG GYVP++ ++ G I +D++++PIK V Y +++ + +Y+ L Sbjct: 143 LDISIVIKKGIGYVPSEENKENLIVSGSIPMDSIFTPIKNVKYKIDNCSINKNSNYESLL 202 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 + I TDGSI D++ AS IL L MFI +E KK+ Sbjct: 203 LEIKTDGSINPRDALTNASNILIQHLKMFI-YETRKKK 239 >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 = 137 bits (345), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 93/320 (29%), Positives = 165/320 (51%), Gaps = 13/320 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 Q EN ++A P GFA +L + LRR L+SS G A A++I+G HE S++G+ ED Sbjct: 18 QISENEANIMAYPFETGFAISLAHPLRRFLLSSSVGYAPIAIKIEGAKHEFDSVRGMLED 77 Query: 82 LTDIILNIKGINLK-MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 ++D ILN+K K + G + + GP + ++ +++E++ P+ + L+ D Sbjct: 78 ISDFILNLKETRFKLLGGATEAEINYNFTGPCDIKGSNLSN-SEVEIVTPNTHLATLNED 136 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + + + +++G GYV ++ E G I +DA ++P++ +Y +E+ ++++ Sbjct: 137 STLNFSIRIAQGIGYVASEDTYDELQD-GYIALDAYFTPVRSATYKIENVLVEDNPNFER 195 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK-- 258 + + I TDG IT D+ + ++ QL +F + VK ++ +P L K Sbjct: 196 VILNIKTDGQITPLDAFRNSLEVMYAQLAVF----NSEISVKAPATIERAEESPDLKKLT 251 Query: 259 -KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 ++ L LS RS NCL NI +G++ + D+ + N G+KS EI L G + Sbjct: 252 AHIDSLGLSARSFNCLDRSNIKLIGEIALMSTNDLKNVKNLGKKSYDEIVEKLQEFGYEV 311 Query: 318 GMNLPDWPPESIEELAKKYE 337 G +L D + + L KK E Sbjct: 312 GGDLAD---DVVSALKKKIE 328 >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 = 137 bits (345), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 85/218 (38%), Positives = 130/218 (59%), Gaps = 7/218 (3%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 L EPL G+ T+GN LRRVL+SSL G AI++V+I+GV HE S+IKGV ED+T+IILN Sbjct: 23 LFKIEPLFPGWGVTIGNTLRRVLLSSLEGYAISSVKIEGVNHEFSTIKGVIEDMTEIILN 82 Query: 89 IKGINLKMSGDSHKRVT-----IFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLDVDAV 142 +K + K + + I +TAGD+ + +N ++LNPD +I N Sbjct: 83 LKKVRFKKNKKKENFESEVFNMIISNDKEEITAGDLGKYINKFDILNPDLIILNKQKLIS 142 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + + + + KG GYVP++ ++ G I +D++++PIK V Y +++ + +Y+ L Sbjct: 143 LDISIVIKKGIGYVPSEENKENLIGSGSIPMDSIFTPIKNVKYKIDNCSINKNSNYESLL 202 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 + I TDGSI D++ AS IL L MFI +E KK+ Sbjct: 203 LEIKTDGSINPRDALTNASNILIQHLKMFI-YETRKKK 239 >gi|117575083|emb|CAJ84781.1| RNA polymerase alpha subunit [Lactobacillus amylophilus] Length = 171 Score = 137 bits (345), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 65/154 (42%), Positives = 104/154 (67%) 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 KLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 KL+M + TDGSIT D+++ ++IL + L +F+N Sbjct: 121 KLTMEVWTDGSITPNDALSFGAKILTEHLNVFMN 154 >gi|154424725|emb|CAL18465.1| RNA polymerase alpha subunit [Streptococcus gallolyticus] Length = 158 Score = 137 bits (344), Expect = 3e-30, Method: Compositional matrix adjust. 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|290790733|gb|ADD62991.1| RNA polymerase alpha subunit [Oryza australiensis] Length = 337 Score = 137 bits (344), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 99/309 (32%), Positives = 160/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL R+EL + Sbjct: 92 KEIVLRSNLYGVRNASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPTDFRIELRI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY T++ G IDA+ P++ V+Y++ S G Y+ L + I T+G Sbjct: 152 KRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFSCGNGNA-KYEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKRLTNLKKNKKRI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + + K + T+ Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---RMQDGKQIWDTL 324 Query: 314 GLFLGMNLP 322 L M+LP Sbjct: 325 EKHLPMDLP 333 >gi|150187010|emb|CAK30150.1| RNA polymerase alpha subunit [Streptococcus pyogenes] Length = 184 Score = 137 bits (344), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 68/166 (40%), Positives = 110/166 (66%) Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 +I GV ED+ IILN+KG+ +K + K + + GP VTAGDI T +DIE++NPDH Sbjct: 1 TIPGVREDVMQIILNVKGLAVKSYVEDEKIIELEVEGPAEVTAGDILTDSDIELVNPDHY 60 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 + + +R +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G Sbjct: 61 LFTIAEGHSLRATMTVAKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVG 120 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +DKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 SNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAK 166 >gi|84874036|gb|ABC68041.1| RNA polymerase subunit [Oryza officinalis] gi|84874042|gb|ABC68044.1| RNA polymerase subunit [Oryza australiensis] Length = 317 Score = 136 bits (343), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 99/309 (32%), Positives = 160/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ G IT + V HE S+I G+ E + +I+LN+ Sbjct: 12 FILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGIEESVQEILLNL 71 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL R+EL + Sbjct: 72 KEIVLRSNLYGVRNASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPTDFRIELRI 131 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY T++ G IDA+ P++ V+Y++ S G Y+ L + I T+G Sbjct: 132 KRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFSCGNGNA-KYEILFLEIWTNG 187 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 188 SLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKRLTNLKKNKKRI 247 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + + K + T+ Sbjct: 248 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---RMQDGKQIWDTL 304 Query: 314 GLFLGMNLP 322 L M+LP Sbjct: 305 EKHLPMDLP 313 >gi|84874038|gb|ABC68042.1| RNA polymerase subunit [Oryza rhizomatis] Length = 317 Score = 136 bits (343), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 99/309 (32%), Positives = 160/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ G IT + V HE S+I G+ E + +I+LN+ Sbjct: 12 FILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGIEESVQEILLNL 71 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL R+EL + Sbjct: 72 KEIVLRSNLYGVRNASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPTDFRIELRI 131 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY T++ G IDA+ P++ V+Y++ S G Y+ L + I T+G Sbjct: 132 KRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFSCGNGNA-KYEILFLEIWTNG 187 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 188 SLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENQNRFTSPLLSFQKRLTNLKKNKKRI 247 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + + K + T+ Sbjct: 248 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---RMQDGKQIWDTL 304 Query: 314 GLFLGMNLP 322 L M+LP Sbjct: 305 EKHLPMDLP 313 >gi|119668277|emb|CAK95449.1| RNA polymerase alpha subunit [Lactobacillus acidophilus] Length = 150 Score = 136 bits (343), Expect = 4e-30, Method: Compositional matrix adjust. 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|84874040|gb|ABC68043.1| RNA polymerase subunit [Oryza punctata] Length = 317 Score = 136 bits (343), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 99/309 (32%), Positives = 160/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ G IT + V HE S+I G+ E + +I+LN+ Sbjct: 12 FILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGIEESVQEILLNL 71 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL R+EL + Sbjct: 72 KEIVLRSNLYGVRNASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPEDFRIELRI 131 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY T++ G IDA+ P++ V+Y++ S G Y+ L + I T+G Sbjct: 132 KRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFSCGNGNA-KYEILFLEIWTNG 187 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 188 SLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKRLTNLKKNKKRI 247 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + + K + T+ Sbjct: 248 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---RMQDGKQIWDTL 304 Query: 314 GLFLGMNLP 322 L M+LP Sbjct: 305 EKHLPMDLP 313 >gi|154424843|emb|CAL18524.1| RNA polymerase alpha subunit [Streptococcus porcinus] Length = 148 Score = 136 bits (342), Expect = 5e-30, Method: Compositional matrix adjust. 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|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 = 135 bits (341), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 98/309 (31%), Positives = 160/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL R+EL + Sbjct: 92 KEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPTDFRIELRI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY T++ G IDA+ P++ V+Y++ + G Y+ L + I T+G Sbjct: 152 KRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFACGNGNA-KYEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKRLTNLKKNKKRI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + + K + T+ Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---RMQDGKQIWDTL 324 Query: 314 GLFLGMNLP 322 L M+LP Sbjct: 325 EKHLPMDLP 333 >gi|20160832|dbj|BAB89772.1| Chloroplast RNA polymerase alpha chain [Oryza sativa Japonica Group] Length = 337 Score = 135 bits (341), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 98/309 (31%), Positives = 160/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL R+EL + Sbjct: 92 KEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPTDFRIELRI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY T++ G IDA+ P++ V+Y++ + G Y+ L + I T+G Sbjct: 152 KRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFACGNGNA-KYEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKRLTNLKKNKKRI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + + K + T+ Sbjct: 268 PLSCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---RMQDGKQIWDTL 324 Query: 314 GLFLGMNLP 322 L M+LP Sbjct: 325 EKHLPMDLP 333 >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 = 135 bits (340), Expect = 8e-30, Method: Compositional matrix adjust. Identities = 98/309 (31%), Positives = 160/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ G IT + V HE S+I G+ E + +I+LN+ Sbjct: 12 FILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGIEESVQEILLNL 71 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL R+EL + Sbjct: 72 KEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPTDFRIELRI 131 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY T++ G IDA+ P++ V+Y++ + G Y+ L + I T+G Sbjct: 132 KRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFACGNGNA-KYEILFLEIWTNG 187 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 188 SLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKRLTNLKKNKKRI 247 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + + K + T+ Sbjct: 248 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---RMQDGKQIWDTL 304 Query: 314 GLFLGMNLP 322 L M+LP Sbjct: 305 EKHLPMDLP 313 >gi|119662801|emb|CAJ33192.1| RNA polymerase alpha subunit [Lactobacillus kefiri] Length = 153 Score = 135 bits (340), Expect = 9e-30, Method: Compositional matrix adjust. Identities = 77/151 (50%), Positives = 100/151 (66%), Gaps = 4/151 (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 KVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 +V+Y VES R GQ D+DKL++ I TDGSIT Sbjct: 121 RVNYQVESTRVGQRDDFDKLTLDIWTDGSIT 151 >gi|84874044|gb|ABC68045.1| RNA polymerase subunit [Oryza granulata] Length = 317 Score = 135 bits (340), Expect = 9e-30, Method: Compositional matrix adjust. Identities = 98/309 (31%), Positives = 160/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ G IT + V HE S+I G+ E + +I+LN+ Sbjct: 12 FILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGIEESVQEILLNL 71 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL R+EL + Sbjct: 72 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDMAQPIANLTEPMDFRIELRI 131 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY ++ G IDA+ P++ V+Y++ S G Y+ L + I T+G Sbjct: 132 KRDRGYHTEVRKNAQD---GSYPIDAVSMPVRNVNYSIFSCGNGNA-KYEILFLEIWTNG 187 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 188 SLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKRLTNLKKNKKRI 247 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + + K + T+ Sbjct: 248 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---RMQDGKQIWDTL 304 Query: 314 GLFLGMNLP 322 +L M+LP Sbjct: 305 EKYLPMDLP 313 >gi|154424777|emb|CAL18491.1| RNA polymerase alpha subunit [Streptococcus dysgalactiae subsp. dysgalactiae] Length = 185 Score = 135 bits (340), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 67/166 (40%), Positives = 110/166 (66%) Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 +I GV ED+ IILN+KG+ +K + K + + GP VTAGDI T +DIE++NPDH Sbjct: 3 TIPGVREDVMQIILNVKGLAVKSYVEDEKIIELEVEGPAEVTAGDILTDSDIELVNPDHY 62 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 + + +R +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G Sbjct: 63 LFTIAEGHSLRATMTVAKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVG 122 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +DKL++ I T+G+I ED++ L++R+L + L +F + + K Sbjct: 123 SNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTDVAK 168 >gi|47679547|gb|AAT36717.1| RNA polymerase alpha subunit [Corethron hystrix] Length = 301 Score = 135 bits (339), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 92/279 (32%), Positives = 151/279 (54%), Gaps = 19/279 (6%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS 97 G T+G LRR L+S L AIT V+I GV +E S I+GV ED+ +++LN++ I +K + Sbjct: 32 GQGITIGTVLRRFLLSELNATAITGVRIAGVNNEFSIIEGVREDVLELLLNLRPIVIKNN 91 Query: 98 GDSHK----RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 D+ + R+ + +GP V+TA IQ ++E+LNP+ I + ++ ME G Sbjct: 92 SDNSEMKFGRLKV--QGPAVITANAIQLPTELEILNPNQYIATISRSMILEMEFKFESGI 149 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY + E+ + IDA++ P++KV + VE+ + + L + I T+GSI+ Sbjct: 150 GYRLVNQTKMESSS-DFLEIDAVFMPVQKVDFKVENIYDKNKHISENLIIDIWTNGSISP 208 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK------VEELELSV 267 E ++ +S + + I + KKE+ E LP N + + +EEL+LSV Sbjct: 209 ETALYESSNNIIELFNSLIE-NKFKKEILE-----PLPENTRINSENHTNISIEELQLSV 262 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 RS NCL+ I + DL++ + + + NFGRKS E+ Sbjct: 263 RSYNCLKRAQINSISDLLKYSPEKLQEIKNFGRKSADEV 301 >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 = 134 bits (338), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 90/315 (28%), Positives = 162/315 (51%), Gaps = 35/315 (11%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 N + A P +A T+ + +RR+L+SS G A ++I+GV HE +++GV ED+ Sbjct: 22 NHIRLHAYPFEPHYAVTIAHPVRRLLLSSSVGYAPIGIKIEGVRHEFDTVRGVAEDVAPF 81 Query: 86 ILNIKGINLKMSGD--SHKRVTIFKRGPGVVT-AGDIQTVNDIEVLNPDHVICNLDVDAV 142 I+NIK + K++ D H++ + G + G+ + +I VL+ D + N++ DA Sbjct: 82 IVNIKNLKFKVNEDMQQHEKFELHYEFNGPMELRGEHLSNENITVLSTDSHLANINSDAK 141 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIG--LITIDALYSPIKKVSYTVESAREGQVLDYDK 200 ++ + + KG G+V ++ R E IG I +DA ++P+K+ Y +E+ +++K Sbjct: 142 LKFSILIHKGLGFVASETIREE---IGSEYIPLDADFTPVKRAVYDIENVLHESNPNFEK 198 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMF-------------INFEEPKKEVKEDINV 247 + ++T+G I ++ A I+ Q+ +F +N + P+ +V Sbjct: 199 IVFEVETNGQIEPMEAFKEAVAIMHSQMSVFGAELSDVPTSNGRLNDDSPELKV------ 252 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 LL VE L L R +NCL+ NI Y+G+L+ E+D+ + N G++S EI Sbjct: 253 --------LLSSVEILNLEHRPSNCLQKSNIKYIGELVLMNESDLKNIKNLGKRSFDEIT 304 Query: 308 GVLGTMGLFLGMNLP 322 L +G +G +LP Sbjct: 305 AKLNEVGYAVGADLP 319 >gi|161511741|emb|CAP16881.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 179 Score = 134 bits (338), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 69/171 (40%), Positives = 110/171 (64%), Gaps = 2/171 (1%) Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 +I+GV ED+T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ Sbjct: 1 TIEGVVEDVTQIILNLKKVSLKVESDEEKSLEINVMGPANVTAGDIVGDGDVTILNPELP 60 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAR 191 IC + LT KG GY A + R + PIG++ ID++Y+PI++V+Y VE+ R Sbjct: 61 ICTVAEGTTFHAVLTAEKGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTR 120 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 GQ DYDKL++ + TDGS+ ++++L+++IL + L +F+N ++ K+ + Sbjct: 121 VGQRDDYDKLTLDVWTDGSLAASEAISLSAKILTEHLTIFVNLDDQAKDTE 171 >gi|119662401|emb|CAJ33190.1| RNA polymerase alpha subunit [Lactobacillus frumenti] Length = 162 Score = 134 bits (338), Expect = 1e-29, Method: Compositional matrix adjust. 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 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVES 189 I + A + +++T KG GY+ A ++ D 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|32487326|emb|CAE05901.1| OSJNBa0061C08.8 [Oryza sativa Japonica Group] gi|57834095|emb|CAE04760.3| OSJNBa0079C19.1 [Oryza sativa Japonica Group] Length = 446 Score = 134 bits (338), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 98/309 (31%), Positives = 160/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ G IT + V HE S+I G+ E + +I+LN+ Sbjct: 141 FILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGIEESVQEILLNL 200 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL R+EL + Sbjct: 201 KEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPTDFRIELRI 260 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY T++ G IDA+ P++ V+Y++ + G Y+ L + I T+G Sbjct: 261 KRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFACGNGNA-KYEILFLEIWTNG 316 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 317 SLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKRLTNLKKNKKRI 376 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + + K + T+ Sbjct: 377 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---RMQDGKQIWDTL 433 Query: 314 GLFLGMNLP 322 L M+LP Sbjct: 434 EKHLPMDLP 442 >gi|154424763|emb|CAL18484.1| RNA polymerase alpha subunit [Streptococcus canis] Length = 173 Score = 134 bits (338), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 67/165 (40%), Positives = 109/165 (66%) 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 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +DKL++ I T+G+I ED++ L++R+L + L +F + + K Sbjct: 121 NDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTDVAK 165 >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 = 134 bits (338), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 98/309 (31%), Positives = 160/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ G IT + V HE S+I G+ E + +I+LN+ Sbjct: 141 FILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGIEESVQEILLNL 200 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL R+EL + Sbjct: 201 KEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPTDFRIELRI 260 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY T++ G IDA+ P++ V+Y++ + G Y+ L + I T+G Sbjct: 261 KRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFACGNGNA-RYEILFLEIWTNG 316 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 317 SLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKRLTNLKKNKKRI 376 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + + K + T+ Sbjct: 377 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---RMQDGKQIWDTL 433 Query: 314 GLFLGMNLP 322 L M+LP Sbjct: 434 EKHLPMDLP 442 >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 = 134 bits (337), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 95/322 (29%), Positives = 162/322 (50%), Gaps = 42/322 (13%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 L IA PL G A TLG A+RR L+ S++G AI A +I G HE S+++G+ E + DI+LN Sbjct: 33 LFIASPLLAGQATTLGVAIRRTLLESIQGTAIVAAKIYGAAHEYSTLEGIQESIHDILLN 92 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 +K + +K ++ I GP VTA DI+ +I + NP H I + ++EL Sbjct: 93 LKQVIIKNKICEFQKCLISIIGPKKVTAADIELSQNITISNPYHHIATITKPIRFQVELI 152 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 ++KG GY+ + ++ G +DAL++P++ V++++ + E Q + L + I T+ Sbjct: 153 INKGRGYLIQDGNDVQD---GYFPVDALFNPVRNVNFSIHNLAEQQ----EALILEIWTN 205 Query: 209 GSITGEDSVALASRILQDQLGMFI-----------------------------NFEEPKK 239 G+IT D++ S ++ + +F+ FE Sbjct: 206 GAITPLDALRQGS---ENLIHLFLPPFGLEDDTYMTSLGSQDYNIHIKNSLKEKFELHSI 262 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 E ED ++ F +E LELS R CL+ NI + DL++ ++ D+L+++N G Sbjct: 263 ERIEDSHLIKDQFLEYSKTPIELLELSTRPFKCLKNANIYTINDLLKLSQQDLLKISNMG 322 Query: 300 RKSLVEIKGVLGTMGLFLGMNL 321 S +K ++ + G+NL Sbjct: 323 PSS---VKQIVEALDKRFGINL 341 >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 = 134 bits (337), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 68/175 (38%), Positives = 114/175 (65%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 ++ +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL+ Sbjct: 1 MKATMTVAKNRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLT 60 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + I T+G+I ED++ L++R+L + L +F + E K + + + L + +EE Sbjct: 61 IEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKATEVMKETEKVNDEKVLDRTIEE 120 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K L +GL L Sbjct: 121 LDLSVRSYNCLKRAGINTIFDLTEKTEPEMMKVRNLGRKSLEEVKIKLADLGLGL 175 >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 = 134 bits (337), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 70/155 (45%), Positives = 100/155 (64%), Gaps = 4/155 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILNIKGI +K + K + + GP +TAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKIIELDVEGPAEITAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 +NPDH + + + ++ +TV+ G GYVPA ++ Sbjct: 119 VNPDHYLFTIGEGSSLKATMTVNSGRGYVPADENK 153 >gi|154424801|emb|CAL18503.1| RNA polymerase alpha subunit [Streptococcus hyointestinalis] Length = 162 Score = 134 bits (337), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 66/161 (40%), Positives = 107/161 (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 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 R G +DKL++ I T+G+I ED++ L++RIL + L +F Sbjct: 121 RVGSNDGFDKLTVEIMTNGTIIPEDALGLSARILIEHLNLF 161 >gi|165932201|emb|CAP66258.1| RNA polymerase alpha subunit [Lactobacillus oligofermentans] Length = 151 Score = 134 bits (336), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 70/151 (46%), Positives = 103/151 (68%), 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 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTV 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|84874032|gb|ABC68039.1| RNA polymerase subunit [Oryza glumipatula] Length = 317 Score = 134 bits (336), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 98/309 (31%), Positives = 159/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ G IT + V HE S+I G+ E + +I+LN+ Sbjct: 12 FILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGIEESVQEILLNL 71 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL R+EL + Sbjct: 72 KEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPTDFRIELRI 131 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY T++ G IDA+ P++ V+Y++ + G Y+ L + I T+G Sbjct: 132 KRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFACGNGNA-KYEILFLEIWTNG 187 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T +++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 188 SLTPMEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKRLTNLKKNKKRI 247 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + + K + T+ Sbjct: 248 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---RMQDGKQIWDTL 304 Query: 314 GLFLGMNLP 322 L M+LP Sbjct: 305 EKHLPMDLP 313 >gi|254553679|gb|ACT67298.1| RNA polymerase alpha subunit [Joinvillea plicata] Length = 339 Score = 133 bits (335), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 98/312 (31%), Positives = 166/312 (53%), Gaps = 29/312 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLIKGQADTIGIAMRRALLGEIEGTCITRAKSGKVPHEYSTIVGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + + +I +GP +TA DI + +E+++ I NL +D + +++ Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIISPPSVEIVDTTQHIANLTEPIDLCIELQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA-REGQVLDYDKLSMTID 206 +G+ P K N G IDA+ P++ V+Y++ S E + Y+ L + I Sbjct: 152 KRDRGYHTEPRK-----NSQDGSYPIDAVSMPVRNVNYSIYSCGNENE--KYEILFLEIW 204 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK-- 259 T+GS+T ++++ ASR L D F++ EE +E+ N +LP F L LKK Sbjct: 205 TNGSLTPKEALYEASRNLIDLFIPFLHAEEEDTNFEENKNRFTLPLLTFQKRLTNLKKNK 264 Query: 260 ---------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R+ NCL+ NI + DL+ ++E D++++ NF + + K +L Sbjct: 265 KGIPLNCIFIDQLELPSRTYNCLKRSNIHTLLDLLSKSEEDLMKIENF---RMEDGKQIL 321 Query: 311 GTMGLFLGMNLP 322 T+ L M+LP Sbjct: 322 DTLQKHLSMDLP 333 >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 = 133 bits (334), Expect = 4e-29, Method: Compositional matrix adjust. Identities = 93/312 (29%), Positives = 167/312 (53%), Gaps = 30/312 (9%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 N+ ++A P G+A TL + LRR+L+SS G A A++I+GV HE SI+G+ ED++ Sbjct: 22 NKVRVMAYPFESGYAVTLAHPLRRLLLSSSVGLAPIALKIEGVAHEFDSIRGIVEDVSPF 81 Query: 86 ILNIKGINL--KMSG---DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 I+N+K I K G + + +GP V++ G + + I+++N + + ++ D Sbjct: 82 IVNLKNIRFLGKEGGFLEEEKVELHYSFQGPMVLSGGHLAN-DQIDIVNKEAPLATINED 140 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLIT-----IDALYSPIKKVSYTVESAREGQV 195 AV+ + V KG GYVP++ R GLI+ +DA ++P++K Y +E+ Sbjct: 141 AVLNFSIIVQKGIGYVPSEDIR------GLISEDYIPLDAYFTPVRKAVYEIENVLVEDN 194 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF------INFEEPKKEVKEDINVKS 249 Y+K+ ++TDG + ++ A I+ Q+ +F I+ + K+ ++++ + K Sbjct: 195 PTYEKIIFDVETDGQVDPYEAFKQAIAIMYSQMSIFNADISSISTTQ-KQAIEDNFDFKD 253 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 LL K++ L L+ R NCL I Y+G+L+ +E+++ + N G+ S EI Sbjct: 254 ------LLMKIDSLNLNARCFNCLDRIGIRYVGELVLMSESEIKGVKNLGKTSYNEIVEK 307 Query: 310 LGTMGLFLGMNL 321 L +G +G L Sbjct: 308 LQEIGYPIGTEL 319 >gi|84874028|gb|ABC68037.1| RNA polymerase subunit [Oryza sativa] Length = 317 Score = 133 bits (334), Expect = 5e-29, Method: Compositional matrix adjust. Identities = 97/309 (31%), Positives = 159/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ G IT + V HE S+I G+ E + +I+LN+ Sbjct: 12 FILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGIEESVQEILLNL 71 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 72 KEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPTDFHIELRI 131 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY T++ G IDA+ P++ V+Y++ + G Y+ L + I T+G Sbjct: 132 KRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFACGNGNA-KYEILFLEIWTNG 187 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 188 SLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKRLTNLKKNKKRI 247 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + + K + T+ Sbjct: 248 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---RMQDGKQIWDTL 304 Query: 314 GLFLGMNLP 322 L M+LP Sbjct: 305 EKHLPMDLP 313 >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 = 132 bits (333), Expect = 5e-29, Method: Compositional matrix adjust. Identities = 88/302 (29%), Positives = 160/302 (52%), Gaps = 8/302 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +N + A P GFA TL + LRR+L+SS G A AV+I+G HE S++G+ ED+ Sbjct: 21 DNEAKISAYPFEDGFAITLAHPLRRLLLSSSVGCAPIAVKIEGASHEFDSLRGMLEDVAI 80 Query: 85 IILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 ++N+K I K++GD + V + GP + D+ ++++V++ D + ++ D + Sbjct: 81 FVINLKNIKFKINGDKEQVVVEYSFNGPRDIKGEDLIN-SEVDVVSKDAHLATINSDCNL 139 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIG--LITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + + KG GY+P++ R D +G I IDA ++P+KKV Y +E +Y+K Sbjct: 140 TFSVILQKGIGYMPSEDIR---DIVGADYIPIDAFFTPVKKVVYDIEKMLVEDNPNYEKA 196 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + T+G I+ + A ++ Q+ +F + + D + + L+ +++ Sbjct: 197 VFRVQTNGQISPVTAFKEAVSVMYSQMSVFNKVFDLSEVAVSDSGEEPVELK-ELVIRID 255 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +L LS RS N L + Y+G+L+ +E ++ + N G+KS EI L ++G + L Sbjct: 256 DLNLSARSFNSLDRAGLKYLGELVLMSEVEVKNIKNLGKKSYDEIAEKLESLGYPVENTL 315 Query: 322 PD 323 P+ Sbjct: 316 PE 317 >gi|150036738|emb|CAM98024.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. dextranicum] Length = 171 Score = 132 bits (333), Expect = 6e-29, Method: Compositional matrix adjust. Identities = 69/169 (40%), Positives = 108/169 (63%), Gaps = 2/169 (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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSY 185 LNPD I + + M ++ KG GY A ++ D PIG++ +D++Y+PI++V+Y Sbjct: 61 LNPDLHIATVAAGKSLHMTVSAVKGRGYTSADENKKLRDEMPIGVLAVDSIYTPIERVNY 120 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 VE+ R G DYDKL+ I T+GSI D+++L ++IL + LG+F++ Sbjct: 121 QVENTRIGARDDYDKLTFDIWTNGSIKPSDALSLGAKILAEHLGLFMDI 169 >gi|150036718|emb|CAM98022.1| DNA-directed RNA polymerase alpha chain [Fructobacillus durionis] Length = 178 Score = 132 bits (332), Expect = 7e-29, Method: Compositional matrix adjust. Identities = 72/178 (40%), 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVS 184 VLNPD I L + M +TV KG GY A+ ++ D 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|150187031|emb|CAK30155.1| RNA polymerase alpha subunit [Streptococcus urinalis 2285-97] Length = 169 Score = 132 bits (332), Expect = 8e-29, Method: Compositional matrix adjust. Identities = 65/160 (40%), Positives = 106/160 (66%) 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 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 KL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 KLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAK 160 >gi|154424741|emb|CAL18473.1| RNA polymerase alpha subunit [Streptococcus thermophilus] Length = 155 Score = 132 bits (331), Expect = 9e-29, Method: Compositional matrix adjust. Identities = 64/151 (42%), Positives = 103/151 (68%) Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 ++ GV ED+ IILNIKG+ +K + K + + +GP VTAGDI T +DIE++NPDH Sbjct: 3 TVPGVREDVMQIILNIKGLAVKSYVEDEKTIELDVQGPAEVTAGDILTDSDIEIVNPDHY 62 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 + + A + +TVS GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G Sbjct: 63 LFTIAEGASFQATMTVSTNRGYVPAEENKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVG 122 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 +DKL++ I T+G+I ED++ L++R+L Sbjct: 123 SNDGFDKLTIEIVTNGTIIPEDALGLSARVL 153 >gi|119662843|emb|CAJ33214.1| RNA polymerase alpha subunit [Lactobacillus bifermentans] Length = 142 Score = 132 bits (331), Expect = 9e-29, Method: Compositional matrix adjust. Identities = 68/140 (48%), Positives = 95/140 (67%) 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 EGQVLDYDKLSMTIDTDGSI 211 GQ D+DKL++ + T+GSI Sbjct: 121 VGQRNDFDKLTLDVWTNGSI 140 >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 = 132 bits (331), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 93/308 (30%), Positives = 162/308 (52%), Gaps = 23/308 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL G A+T+G +RR L+ ++G IT + + + HE S++ G+ E + DI++N Sbjct: 35 FILSPLKVGQANTIGLVMRRALLGEIKGTCITCAKFENITHEYSTMDGIQESVHDILINS 94 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK ++ I GP VTA DI+ +EV++P I + + +EL + Sbjct: 95 KEIVLKSKSSEAQKAFISIVGPRRVTAQDIELPTSVEVIDPMQHIATITKKVKLNIELKI 154 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES-AREGQVLDYDKLSMTIDTD 208 K GY + G T+DA+++PI+ V+Y++ + + + L I ++ Sbjct: 155 EKDSGY---RRQNIVEYKDGNFTVDAVFTPIRSVNYSIHCFESHDKSIMKEMLLYEIWSN 211 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVK-EDINVKSLPFNPA-------LLKKV 260 GSIT E+++ ASR + F+ E+ K++ K EDI+ +S +P+ + KKV Sbjct: 212 GSITPEEAIYEASRSSINLFLPFLQAEKEKEDFKGEDIH-ESNALHPSVSIVVDQMAKKV 270 Query: 261 -------EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 E+LELS ++ N L+ N+ + DL+ ++ D+++M NFG+KS ++ +L + Sbjct: 271 TFQHIFIEQLELSPKAYNFLKKINVHTISDLLDYSQDDLMKMKNFGKKS---VEQILEAL 327 Query: 314 GLFLGMNL 321 GM L Sbjct: 328 QKRFGMRL 335 >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 = 131 bits (330), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 96/341 (28%), Positives = 168/341 (49%), Gaps = 26/341 (7%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++ N Q ++ +E V G+ ++ P G A+T+G ++++ L+ + GAA++ Sbjct: 117 LKSNAQSALQWKCVETQVEGERLHYGRFAVS-PFRSGQANTVGVSMQKALLGEVEGAAVS 175 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V E +++KGV E DI++N+K + ++ D ++ I GPG VTAGDI Sbjct: 176 CATFKNVKSEYAAMKGVEETPMDILVNLKELVIRSDSDEPQKAIISAIGPGPVTAGDIVL 235 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +EV +P I L + + +EL V KG GY H ++ + G ID+++ P++ Sbjct: 236 PPSLEVTDPTQHIAYLTKEVSLDIELDVEKGCGYRMGDHTKSGD---GRFYIDSVFMPVR 292 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP-KKE 240 +Y+V S + + L + I T+GSIT E+++ A+R L D +F+ F P KKE Sbjct: 293 NANYSVHSYESEPDVTQEILFLEIWTNGSITPEEALHEAARCLID---LFLPFLHPKKKE 349 Query: 241 VKEDINVKSLPFNPALLKK---------------VEELELSVRSTNCLRGENIVYMGDLI 285 V F + V++L + ++ N L+ NI + DL+ Sbjct: 350 VTNSATKMHKSFTMSQFNSSAEMSAKEVDLRHVYVDQLRIPSKAYNSLKRANINTVSDLL 409 Query: 286 QRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 T+ D+L + NFGRKS + +L + ++LP+ P Sbjct: 410 DYTQDDLLSIPNFGRKS---VDDILEALQAQFSIDLPENNP 447 >gi|154424733|emb|CAL18469.1| RNA polymerase alpha subunit [Streptococcus pasteurianus] Length = 173 Score = 131 bits (330), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 64/159 (40%), Positives = 105/159 (66%) 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 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 L++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 LTLEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAK 159 >gi|161511733|emb|CAP16877.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 180 Score = 131 bits (329), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 68/171 (39%), Positives = 109/171 (63%), Gaps = 2/171 (1%) Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 +I+GV ED+T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ Sbjct: 1 TIEGVVEDVTQIILNLKKVSLKVESDEEKSLEINVMGPANVTAGDIVGDGDVTILNPELP 60 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAR 191 IC + LT KG GY A + R + PIG++ ID++Y+PI++V+Y VE+ R Sbjct: 61 ICTVAEGTTFHAVLTAEKGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTR 120 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 GQ DYDKL++ + TD S+ ++++L+++IL + L +F+N ++ K+ + Sbjct: 121 VGQRDDYDKLTLDVWTDXSLAASEAISLSAKILTEHLTIFVNLDDQVKDTE 171 >gi|119662345|emb|CAJ33161.1| RNA polymerase alpha subunit [Lactobacillus pontis] Length = 160 Score = 130 bits (327), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 67/160 (41%), Positives = 110/160 (68%), Gaps = 2/160 (1%) Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+T IILN+K ++LK++ + K + + +GP VTA DIQ ++ +LNPD I Sbjct: 1 GVTEDVTQIILNLKKVSLKINSEDQKDLELDVKGPAEVTAADIQGDGEVTILNPDLHIAT 60 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 + A + +++T KG GY+ A + R E+ IG++ ID++Y+PI++V+YTVE+AR GQ Sbjct: 61 VADGAELHIKMTADKGRGYLSANDNKARMEDLAIGVLPIDSIYTPIERVNYTVENARVGQ 120 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 DYDKL++ + TDGS+T ++V+L ++IL + L +F++ Sbjct: 121 RNDYDKLTLDVWTDGSLTPTEAVSLGAKILTEHLAIFVDL 160 >gi|154424849|emb|CAL18527.1| RNA polymerase alpha subunit [Streptococcus ratti] Length = 170 Score = 130 bits (327), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 63/159 (39%), Positives = 105/159 (66%) 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 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 L++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 LTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLPEVAK 159 >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 = 130 bits (327), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 96/314 (30%), Positives = 164/314 (52%), Gaps = 40/314 (12%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P +G A+T+G A+RR L++ + GA+IT+ I G+ HE S+I G+ E + DI++N+K I Sbjct: 37 PFRKGQANTVGIAMRRALLNEIEGASITSATIRGIKHEYSAINGIRESIHDILINLKEII 96 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ ++ I GP VTA DIQ + I V++ + + + +EL + K Sbjct: 97 LRSDSPEPQKAYICVSGPSEVTARDIQGSSLIHVIDNTQYVATITGKISLDIELDIEKDR 156 Query: 154 GYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVES--AREGQVLDYDKLSMTIDTD 208 GY R EN G IDA++ PI+ +Y+V S +RE + L + I T+ Sbjct: 157 GY------RMENSRKYREGFFPIDAVFMPIRNANYSVHSFGSREKT---KEILLLEIWTN 207 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEP---------KKEVKEDINVKSLPFNPALLKK 259 GS+T E ++ ASR L D +FI P K++ + D++ ++ F +++ Sbjct: 208 GSLTPEKALYEASRNLID---LFIPSMNPGGEEKNSGTKEKPESDLSHSTVQFLSTDMEQ 264 Query: 260 -----------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 +++LEL R+ NCL+ N+ + DL+ E D++++ NFG++S+ ++ Sbjct: 265 MTRDVAPKHIFIDQLELPARAYNCLKRVNVHTVADLLDYGENDLMKIKNFGKESIKQVSE 324 Query: 309 VLGTMGLFLGMNLP 322 L L +NLP Sbjct: 325 ALKKRFL---VNLP 335 >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 = 130 bits (327), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 95/310 (30%), Positives = 163/310 (52%), Gaps = 25/310 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + PL +G A T+G A+RR L+ + G IT + VLHE S I G+ E + DI++N+ Sbjct: 32 FVLSPLMKGQADTIGIAMRRALLGRIEGTCITRATSENVLHEYSMIAGIEESVHDILINL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK + + +I RGP +TA DI + +++++ I NL + +EL + Sbjct: 92 KEIVLKSNLYGVRDASICVRGPKYITAQDIISPPSVKIVDTTQHIANLTEPIDLCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPI-GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 +G GY H ++ N+ G ID + P++ ++++ S G + L + I T+ Sbjct: 152 KRGRGY----HMKSTNESHDGSYPIDIVSMPVRNANHSIHSYGNGNE-KQEILFLEIWTN 206 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK---- 259 GS+T ++++ ASR L D L F++ EE ++E+ +LP F LKK Sbjct: 207 GSLTPKEALYEASRNLIDLLIPFLHAEEEDMNLEENEKRWNLPLFSFQDRFTNLKKNKKG 266 Query: 260 -------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +++ ELS R+ NCL+ NI + DL+ ++ D+++M F + ++K +LGT Sbjct: 267 IPLTCIFIDQSELSSRTYNCLKRSNIHTLLDLLNHSQEDLMKMEYF---RIEDVKQILGT 323 Query: 313 MGLFLGMNLP 322 + +NLP Sbjct: 324 LQKHFAINLP 333 >gi|290489666|gb|ADD31217.1| RNA polymerase alpha subunit protein [Meliosma aff. cuneifolia Moore 333] Length = 337 Score = 130 bits (327), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 89/309 (28%), Positives = 166/309 (53%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FIMSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSETIPHEYSTIVGIEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I RGPG VTA DI + + +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTRDASICVRGPGYVTAQDIISPSSVEIVDTTQHIASLTEPINLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + HGY + +N G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNHGY---RMKTPKNSQDGSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF-----NPALLKK----- 259 S+T ++++ ASR L D F++ EE ++++ N ++PF A L+K Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHTEEEDIIIEDNQNRFTVPFFTFHDRLAKLRKNKKEI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++ EL R+ NCL+ NI + DL+ +++ D++R+ +F + ++K +LG + Sbjct: 268 ALKFIFIDQSELPPRTYNCLKRSNIHTLLDLLNKSQEDLMRIEHF---RIEDVKHILGIL 324 Query: 314 GLFLGMNLP 322 +NLP Sbjct: 325 QKHFEINLP 333 >gi|150186957|emb|CAK30136.1| RNA polymerase alpha subunit [Streptococcus hyointestinalis] Length = 171 Score = 130 bits (327), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 64/159 (40%), Positives = 105/159 (66%) 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 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 L++ I T+G+I ED++ L++RIL + L +F + E K Sbjct: 121 LTVEIMTNGTIIPEDALGLSARILIEHLNLFTDLTEVAK 159 >gi|69215828|gb|AAZ03870.1| RNA polymerase alpha chain [Yucca schidigera] Length = 337 Score = 130 bits (326), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 97/309 (31%), Positives = 162/309 (52%), Gaps = 25/309 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + V HE S+I G+ E + +I +N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKVPHEYSTIVGIEESVHEIFINL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L + G + +I RGP VTA DI + +E+++ I NL +R+EL + Sbjct: 92 KEIVLNLYGV--RDASICVRGPRYVTAQDIISPPSVEIVDTTQHIANLTEPIDLRIELQI 149 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + + T N G IDA+ P++ ++++ S G + L + I T+G Sbjct: 150 KRDRGY---RINPTNNSQDGSYPIDAVSMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 205 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N +LP F L LKK Sbjct: 206 SLTPKEALYEASRNLIDLFIPFLHAEEGDIHFEENKNRFTLPLFTFQNRLTNLKKNKKGI 265 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R+ NCL+ NI + DL+ ++ D++R+ F + ++K +L T+ Sbjct: 266 PLKCIFIDQLELPPRTYNCLKRSNIHTLLDLLSNSQEDLMRIEYFRTE---DVKQILDTL 322 Query: 314 GLFLGMNLP 322 +NLP Sbjct: 323 QKHFAINLP 331 >gi|119662293|emb|CAJ33133.1| RNA polymerase alpha subunit [Lactobacillus coryniformis subsp. torquens KCTC 3535] Length = 161 Score = 130 bits (326), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 62/152 (40%), Positives = 100/152 (65%) 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 DGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +GSI+ ++++LA++IL + L +F+N + K Sbjct: 121 NGSISPREAISLAAKILTEHLDIFVNLTDEAK 152 >gi|228016583|gb|ACP51413.1| RNA polymerase alpha subunit [Abies firma] Length = 336 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 91/306 (29%), Positives = 153/306 (50%), Gaps = 24/306 (7%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V++D + HE S+I G+ E + DI++N+K I Sbjct: 36 PLCKGRADTIGIAMRRALLGEVEGTCITHVKLDNIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITFDIRLRIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIR-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPK----KEVKEDINVKSLPFNPALLKK---------- 259 +++ ASR L D L F++ EE K N+ P + Sbjct: 212 REALYEASRNLIDLLIPFLHGEEQNIDGMNNRKGSSNMPPFPLSHVFTDTGETKEKIAFQ 271 Query: 260 ---VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +++LEL R+ NCLR NI + DL+ + D++R+ +FG++S I+ VL + Sbjct: 272 HIFIDQLELPPRTYNCLRRANIHTLLDLLNYSREDLMRIEHFGKES---IEQVLEVLRKR 328 Query: 317 LGMNLP 322 +NLP Sbjct: 329 FAINLP 334 >gi|291533601|emb|CBL06714.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Megamonas hypermegale ART12/1] Length = 179 Score = 130 bits (326), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 68/142 (47%), Positives = 95/142 (66%), Gaps = 1/142 (0%) Query: 24 EENRT-LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E+NR + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE S+I GV +D+ Sbjct: 16 EDNRYGKFVCEPLERGYGTTLGNSLRRILLSSLEGAAITSIKIDGVLHEFSTIPGVRDDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T+IILN+K + LKM + + I G VTA DI +DIE+LN D I +D Sbjct: 76 TNIILNLKELCLKMHDEEPHTIRIDVTGEKEVTAADIIVDSDIEILNKDLHIATVDETGS 135 Query: 143 VRMELTVSKGHGYVPAKHHRTE 164 ++ME+ V +G GY PA ++ + Sbjct: 136 LKMEMVVERGRGYTPADKNKNQ 157 >gi|119663526|emb|CAK22334.1| RNA polymerase alpha subunit [Lactobacillus paracollinoides] Length = 154 Score = 129 bits (325), Expect = 5e-28, Method: Compositional matrix adjust. 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 CNLDVDAVVRMELTVSKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREG 193 + A M +T +KG GYV A ++ + D 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|58758766|gb|AAW81772.1| RNA polymerase alpha subunit [Buxbaumia aphylla] Length = 340 Score = 129 bits (323), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 90/305 (29%), Positives = 160/305 (52%), Gaps = 23/305 (7%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P G A+T+G A+RR L+ ++G +IT + + V HE S+I G+ E + DI +N K I Sbjct: 36 PFRCGQANTVGIAMRRALLGEVKGTSITCAKFEKVTHEYSTIAGIQESVHDISINSKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + ++ I GP +TA DI +++++ I L + +EL + K + Sbjct: 96 LESNSSETQKAFISILGPKKITAQDIILPPSVKIIDGKQYIATLTKAIQLDIELEIEKDY 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY +++ N IDA++ PI+ +Y+V S E + + L + I T+GSIT Sbjct: 156 GYRIQNSNKSTNSH---FFIDAIFMPIRNANYSVHSF-ENENKTQEMLFIEIWTNGSITP 211 Query: 214 EDSVALASRILQDQLGMFINFE--EPKKEVKEDINVKSL-------PFNPALLKKV---- 260 +D++ ASR L D F++ E E E++ + + ++ P + K+V Sbjct: 212 KDALYEASRSLIDLFIPFLHAERREIINELENEYKLSNISYFSSFSPLADKITKEVSFKH 271 Query: 261 ---EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 ++LEL R+ NCL+ N+ + DL+ ++ D++++ NFG+KS ++ VL + Sbjct: 272 IFIDQLELPARAYNCLKRVNVNTLADLLNYSQEDLMKIKNFGKKS---VEQVLEALQKQF 328 Query: 318 GMNLP 322 +NLP Sbjct: 329 SINLP 333 >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 = 129 bits (323), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 85/297 (28%), Positives = 153/297 (51%), Gaps = 20/297 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + PL +G A T+G A+RR L+ ++G IT V+++ + HE S+I G+ E + DI++N+ Sbjct: 32 FVLSPLRKGRADTIGIAMRRALLGEVKGTCITHVKLENIKHEYSAIIGIEESVHDILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I+ GP VTA DI +++++ I L + L + Sbjct: 92 KEIVLRSDSYGIQEASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITFDIRLRI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 K GY+ H N G+ IDA++ P++ +Y++ S G + + L + I T+G Sbjct: 152 EKNRGYLI---HSPTNYGDGIFPIDAVFMPVRDANYSIHSYGSGNEIR-EVLFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALLKK------- 259 +T +++ ASR L + F++ EE + ++ N+ S P + L Sbjct: 208 GLTPREALYEASRNLINFFIPFLHGEEQNIDGMNSRKGSNIPSFPLSHVLTNTGETKEIF 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R NCLR NI + DL+ ++ D++R+ FG+KS+ ++ +L Sbjct: 268 EFQHIFIDQLELPSRIYNCLRRANIYTLLDLLNYSQEDLMRIEQFGKKSVEQVLEIL 324 >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 = 129 bits (323), Expect = 9e-28, Method: Compositional matrix adjust. Identities = 92/318 (28%), Positives = 161/318 (50%), Gaps = 37/318 (11%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E ++ PL RG +T+GN LRR+L+SS+ A+ A+++ G+ HE S IKGV ED+T Sbjct: 18 ETSASVVFYPLERGLGNTIGNTLRRLLLSSIPSPAVFAIRVAGLPHEFSPIKGVAEDVTQ 77 Query: 85 IILNIKGINL----KMSGDSHKR---------VTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 +I+ IK + L K++ H + + I K GVV A DI+ +EV+NP+ Sbjct: 78 LIIAIKKLVLKVDEKIADFEHLKDLPIEKWPFLKIRKSKVGVVQAKDIECFAGVEVVNPE 137 Query: 132 HVICNLDVDAV-VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 +C + + + ++L G+ + +R + LI ID +SP+ V + V Sbjct: 138 LKLCEITEEGTSLEIDLYCMVDRGHRSSNENRERLSTLSLIPIDTTFSPVLLVDWKVSEE 197 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV--------- 241 + + D+L + + T+GSI D+V A++IL + MF E E+ Sbjct: 198 KTTKYGISDRLRLNVSTNGSIKALDAVWYAAKIL---ISMFTKIAEHDVELFKLDSYAKK 254 Query: 242 -----KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 KE+++ S+ +P +E+LEL+ R+ N L+ I + +L+ + ++ Sbjct: 255 VDRKEKEEVH-SSISSSP-----IEDLELTQRTFNILKNSGINTISELVAYSFDELAEFR 308 Query: 297 NFGRKSLVEIKGVLGTMG 314 N G+K+L+E++ L G Sbjct: 309 NLGKKALLEVQAKLEERG 326 >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 = 129 bits (323), Expect = 9e-28, Method: Compositional matrix adjust. Identities = 96/308 (31%), Positives = 160/308 (51%), Gaps = 23/308 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + + K + T+ Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIESF---RMEDRKQIWDTL 324 Query: 314 GLFLGMNL 321 +L M+L Sbjct: 325 EKYLPMDL 332 >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 = 128 bits (322), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 92/318 (28%), Positives = 161/318 (50%), Gaps = 37/318 (11%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E ++ PL RG +T+GN LRR+L+SS+ A+ A+++ G+ HE S IKGV ED+T Sbjct: 21 ETSASVVFYPLERGLGNTIGNTLRRLLLSSIPSPAVFAIRVAGLPHEFSPIKGVAEDVTQ 80 Query: 85 IILNIKGINL----KMSGDSHKR---------VTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 +I+ IK + L K++ H + + I K GVV A DI+ +EV+NP+ Sbjct: 81 LIIAIKKLVLKVDEKIADFEHLKDLPIEKWPFLKIRKSKVGVVQAKDIECFAGVEVVNPE 140 Query: 132 HVICNLDVDAV-VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 +C + + + ++L G+ + +R + LI ID +SP+ V + V Sbjct: 141 LKLCEITEEGTSLEIDLYCMVDRGHRSSNENRERLSTLSLIPIDTTFSPVLLVDWKVSEE 200 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV--------- 241 + + D+L + + T+GSI D+V A++IL + MF E E+ Sbjct: 201 KTTKYGISDRLRLNVSTNGSIKALDAVWYAAKIL---ISMFTKIAEHDVELFKLDSYAKK 257 Query: 242 -----KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 KE+++ S+ +P +E+LEL+ R+ N L+ I + +L+ + ++ Sbjct: 258 VDRKEKEEVH-SSISSSP-----IEDLELTQRTFNILKNSGINTISELVAYSFDELAEFR 311 Query: 297 NFGRKSLVEIKGVLGTMG 314 N G+K+L+E++ L G Sbjct: 312 NLGKKALLEVQAKLEERG 329 >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 = 128 bits (322), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 97/313 (30%), Positives = 161/313 (51%), Gaps = 24/313 (7%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 N +PL RGF +T+ ALRRVL+S++ A+ A++I GV HE +I G+ ED+T I Sbjct: 22 NEVTFSLKPLERGFGNTVAVALRRVLLSNVTSLALFAIKISGVSHEFQTIPGIVEDVTAI 81 Query: 86 ILNIKGINLKMSGDSHK-----RVTIFKRGPGVVTAGDIQTVN-DIEVLNPDHVICNLDV 139 I+N++ + K + + K + TI PG+VT+ I+ N +E++N I N+ Sbjct: 82 IMNLRKVKFKYNPEFVKDGEIIKATIKAEQPGIVTSKSIEITNPSVEIINKSQEIANIQK 141 Query: 140 DAVVRMELTVSKGHGYVPAKHHRT--ENDPI-----------GL-ITIDALYSPIKKVSY 185 ++V +EL + G G++ + ++ +ND + GL I +D+ +SP++K SY Sbjct: 142 GSLV-IELFLRPGRGFISNESNKKFIQNDSLFASKIESNIKKGLFIAVDSNFSPVEKCSY 200 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TV ++L TI TDG+I + ++ A +IL + + K +V E+ Sbjct: 201 TVRELNTSSNKIEEELLFTIKTDGTIDAKSAINQACKILVAHFMAVGDVDSMKLDVFEEE 260 Query: 246 NVKS-LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 VK+ P + + +L LSVRS N L+ ++ T ++ + N GRKSL Sbjct: 261 KVKNDEPIENDV--DINQLGLSVRSLNALKRIGKTKASEVAAMTWEELEQTKNLGRKSLD 318 Query: 305 EIKGVLGTMGLFL 317 EI+ L G L Sbjct: 319 EIQECLKVNGFTL 331 >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 = 128 bits (322), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 100/325 (30%), Positives = 164/325 (50%), Gaps = 46/325 (14%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 N +PL RGFA+T+ ALRRVL+S++ A+ A++I GV HE +I G+ ED+T I Sbjct: 22 NEVTFSLKPLERGFANTVAVALRRVLLSNITSLALFAIKISGVSHEFQTIPGIVEDVTAI 81 Query: 86 ILNIKGINLKMSGDSHK-----RVTIFKRGPGVVTAGDIQTVN-DIEVLNPDHVICNLDV 139 I+N++ + K + + K + TI PGVVT+ I+ N +E++N I N+ Sbjct: 82 IMNLRKVKFKYNPEFVKDGEIIKATIKAEQPGVVTSKSIEISNPSVEIINKSQEIANIQK 141 Query: 140 DAVVRMELTVSKGHGYVPAKHHRT--ENDPI-----------GL-ITIDALYSPIKKVSY 185 A+V +EL + G G++ + ++ +ND + GL I +D+ +SP++K SY Sbjct: 142 GALV-IELFLRPGRGFISNESNKKFIQNDSLFASKIESNIKKGLFIAVDSNFSPVEKCSY 200 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL-------GMFIN-FEEP 237 TV+ ++L TI TDG++ + ++ A +IL M I+ FEE Sbjct: 201 TVKELNTSSNKIEEELLFTIKTDGTVDAKSAINQACKILVAHFMTVGDVDAMKIDVFEEE 260 Query: 238 K----KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 K + ++ D+++ +L LSVRS N L+ ++ T ++ Sbjct: 261 KINNDEPIENDVDIN-------------QLGLSVRSLNALKRIGKTKASEVAAMTWEELE 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLG 318 + N GRKSL EI+ L G L Sbjct: 308 QTKNLGRKSLDEIQECLKLNGFTLN 332 >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 = 128 bits (322), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 93/312 (29%), Positives = 161/312 (51%), Gaps = 25/312 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + D + HE S++ G+ E + DI++N+ Sbjct: 32 FIMSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFDKIPHEYSTLMGIQESVHDILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGPG VTA DI +EV++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTCDASICVRGPGYVTAQDIILPPYVEVVDNTQHIASLTEPIELCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK---LSMTID 206 + GY+ + D G IDA++ P++ ++++ S G DK L + I Sbjct: 152 ERNRGYLIKTPNNNSQD--GSYPIDAVFMPVRNANHSIHSYGNGN----DKQEILFLEIW 205 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLKK---- 259 T+GS+T ++++ ASR L D F++ EE + ++ ++ LP F+ L KK Sbjct: 206 TNGSLTPKEALHEASRNLIDLFITFLHTEEENLHLADNQHMVPLPPFTFHDKLRKKQKKI 265 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++ EL R NCL+ NI + DL+ ++ D++++ F K ++K +LG + Sbjct: 266 ALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQKDLMKIDRFRIK---DVKHILGIL 322 Query: 314 GLFLGMNLPDWP 325 L ++LP P Sbjct: 323 EKHLSIDLPKKP 334 >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 = 128 bits (321), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 94/312 (30%), Positives = 159/312 (50%), Gaps = 29/312 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGNVPHEYSTIVGIEESIQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLREPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY +++ G IDA++ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYHTELRKNSQD---GSYPIDAVFMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFIN-------FEEPKKEVKEDI------------NVKSL 250 S+T ++++ ASR L D FI+ FEE K + + N K + Sbjct: 208 SLTPKEALYEASRNLIDLFLPFIHTEEEGTSFEESKNRLTPPLLTFQKRFTNLKKNKKGI 267 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 P N +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + + K + Sbjct: 268 PLNCIF---IDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRINSF---RMEDGKLIW 321 Query: 311 GTMGLFLGMNLP 322 T+ L ++LP Sbjct: 322 DTLEKHLPIDLP 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 = 128 bits (321), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 95/309 (30%), Positives = 160/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGNVPHEYSTIVGIEESIQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTTQPIANLREPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY +++ G IDA++ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYHTELRKNSQD---GSYPIDAVFMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D FI+ EE +E+ N + P F LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFIHTEEEGTSFEENKNRLTPPLLTFQKRFTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + + K + T+ Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRSNIHTLLDLLSKTEEDLMRINSF---RMEDGKLIWDTL 324 Query: 314 GLFLGMNLP 322 L ++LP Sbjct: 325 EKHLPIDLP 333 >gi|150187084|emb|CAK30167.1| RNA polymerase alpha subunit [Streptococcus hyovaginalis] Length = 165 Score = 128 bits (321), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 63/163 (38%), Positives = 106/163 (65%) 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 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +DKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 GFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAK 163 >gi|307683477|dbj|BAJ19717.1| RNA polymerase alpha chain [Pseudotsuga sinensis var. wilsoniana] Length = 335 Score = 128 bits (321), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 88/293 (30%), Positives = 149/293 (50%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RRVL+ + G IT VQ D + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRVLLGEVEGTCITHVQFDNIKHEYSAIIGIEESVHDILVNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLRIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYI---MHSPNNYKDGIFPIDAVFMPVRDANYSIHSYGSGNEIR-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALLKK----------- 259 +++ ASR L D F++ EE + ++ N+ P + L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNNRKGSNMPPFPLSHVLTDTRETIEKIAFQY 271 Query: 260 --VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R NCLR NI + DL+ + D++R+ N G++S+ ++ VL Sbjct: 272 IFIDQLELPPRIYNCLRRANIHTLLDLLNYSREDLMRIENLGKESVEQVLEVL 324 >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 = 128 bits (321), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 89/295 (30%), Positives = 156/295 (52%), Gaps = 30/295 (10%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A+T+G ALRR L+S + G IT+V+I +HE SS+ GV E + DI++N+ Sbjct: 32 FIISPLWKGQANTIGLALRRTLLSEVEGTCITSVKIKNAIHEYSSLSGVQESVHDILINL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L S + GP V A D+ + I+++NPD I ++ +++ + Sbjct: 92 KKIILSSSFSGIFEGFLSVVGPKTVLASDLNLPSFIKIVNPDQYIATVNKPINFNLQIYI 151 Query: 150 SKGHGYVPAKHHRTENDPI----GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 KG GY + +PI G +D ++ PI+ V+Y++ S + + + L + + Sbjct: 152 QKGKGY-------SLKNPISIKQGFFLVDPVFIPIRSVNYSIHSFEDEKATK-EFLIVEV 203 Query: 206 DTDGSITGEDSVALASRILQDQLGMFIN--FEEPKKEV-KEDINVKSLPF---------- 252 T+GSI ++++ AS L + ++ +++ K ++ KED K L F Sbjct: 204 WTNGSIEPKEAIKEASYNLVNLFTPLVSQEYQQLKNQLFKEDEKNKELNFIETNSNAISD 263 Query: 253 ---NPALLKKV--EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L ++ ++LELS R+ N L+ NI + DL++ + D+L++ NFG+KS Sbjct: 264 NENSYNLYNQIFLDQLELSSRAYNSLKKNNINTISDLLKYSYEDLLKIKNFGKKS 318 >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 = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 95/309 (30%), Positives = 160/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFWNVPHEYSTIVGIEESIQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTTQPIANLREPVDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY +++ G IDA++ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYHTELRKNSQD---GSYPIDAVFMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D FI+ EE +E+ N + P F LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFIHTEEEGTSFEENKNRLTPPLLTFQKRFTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + + K + T+ Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRINSF---RMEDGKLIWDTL 324 Query: 314 GLFLGMNLP 322 L ++LP Sbjct: 325 EKHLPIDLP 333 >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 = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 97/314 (30%), Positives = 162/314 (51%), Gaps = 24/314 (7%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 N +PL RGFA+T+ ALRRVL+S++ A+ A++I GV HE +I G+ ED+T I Sbjct: 22 NEVTFSLKPLERGFANTVAVALRRVLLSNITSLALFAIKISGVSHEFQTIPGIVEDVTAI 81 Query: 86 ILNIKGINLKMSGDSHK-----RVTIFKRGPGVVTAGDIQTVN-DIEVLNPDHVICNLDV 139 I+N++ + K + + K + TI PGVVT+ I+ N +E++N I N+ Sbjct: 82 IMNLRKVKFKYNPEFVKDGEIIKATIKAEQPGVVTSKSIEISNPSVEIINKSQEIANIQK 141 Query: 140 DAVVRMELTVSKGHGYVPAKHHR--TENDPI-----------GL-ITIDALYSPIKKVSY 185 A+V +EL + G G++ + ++ +ND + GL I +D+ +SP++K SY Sbjct: 142 GALV-IELFLRPGRGFISNESNKRFIQNDSLFASKIESNIKKGLFIAVDSNFSPVEKCSY 200 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TV+ ++L TI TDG++ + ++ A +IL + + K +V E+ Sbjct: 201 TVKELNTSSNKIEEELLFTIKTDGTVDAKSAINQACKILVAHFMTVGDVDTMKIDVFEEE 260 Query: 246 NVKS-LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + P + + +L LSVRS N L+ ++ T ++ + N GRKSL Sbjct: 261 RINNDEPIENDV--DINQLGLSVRSLNALKRIGKTKASEVAAMTWEELEQTKNLGRKSLD 318 Query: 305 EIKGVLGTMGLFLG 318 EI+ L G L Sbjct: 319 EIQECLKLNGFTLN 332 >gi|154424729|emb|CAL18467.1| RNA polymerase alpha subunit [Streptococcus gallolyticus] Length = 167 Score = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 64/159 (40%), Positives = 104/159 (65%) 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 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 L++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 LTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAK 159 >gi|150036752|emb|CAM98261.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis] Length = 187 Score = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 67/166 (40%), Positives = 104/166 (62%), Gaps = 2/166 (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 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 + R G DYDKL+ I T+GSI D+++L ++IL + L +F++ Sbjct: 121 NTRVGARDDYDKLTFDIWTNGSIKPSDALSLGAKILAEHLNLFMDI 166 >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 = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 90/285 (31%), Positives = 149/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF--------NPALLKK-- 259 S+T ++++ ASR L D F++ EE +E+ N + P NP KK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNPKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF 312 >gi|150186949|emb|CAK30134.1| RNA polymerase alpha subunit [Streptococcus dysgalactiae subsp. dysgalactiae] Length = 161 Score = 127 bits (320), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 63/159 (39%), Positives = 105/159 (66%) 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 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 L++ I T+G+I ED++ L++R+L + L +F + + K Sbjct: 121 LTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTDVAK 159 >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 = 127 bits (319), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 92/285 (32%), Positives = 151/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + GA IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGACITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF 312 >gi|290489654|gb|ADD31211.1| RNA polymerase alpha subunit protein [Antirrhinum majus] Length = 336 Score = 127 bits (319), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 90/308 (29%), Positives = 163/308 (52%), Gaps = 22/308 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT V+ + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRVKSENIPHEYSTITGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGPG VTA DI +E+++ I +L + L + Sbjct: 92 KEIVLRTNLYGTCDASICARGPGYVTAQDIILPPYVEIVDNTQHIASLTEPINFCIGLEI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY+ H ++ G +IDA++ P++ V++++ S G + L + I T+G Sbjct: 152 ERNRGYLIKMPHNFQD---GSYSIDAVFMPVRNVNHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEE---PKKEVKEDINVKSLPFNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE P + + I + F+ L L+K Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHKEEENLPLDDNQHTIPLSPFSFHDKLDKLRKNKKIA 267 Query: 260 -----VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +++ ELS R+ NCL+ NI + DL+ ++ D++++ +F L ++K +LG + Sbjct: 268 LKSIFIDQSELSPRAYNCLKRSNIYTLFDLLNNSQEDLMKIEHF---RLKDVKEILGILE 324 Query: 315 LFLGMNLP 322 ++LP Sbjct: 325 KHFAIDLP 332 >gi|311990456|gb|ADQ26358.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii] Length = 185 Score = 127 bits (319), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 65/155 (41%), Positives = 96/155 (61%) Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+T IILN+K + L+ + K + + GP VTA D++ D+EVLNPD IC Sbjct: 2 GVKEDVTKIILNLKKLVLRAYTEEVKTIELDVEGPATVTAEDLKADADVEVLNPDQYICT 61 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + + M + V G GYVPA +++ IG I +D+L+SPI+KV+Y VES R G+ Sbjct: 62 IAQGGHLHMWIDVCNGRGYVPASENKSAEMSIGDIPVDSLFSPIEKVNYQVESTRVGKRE 121 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 D+DKL++ I T+GSI D++ A+R+L + F Sbjct: 122 DFDKLTLEIWTNGSIAPNDALNFAARVLVEHFKAF 156 >gi|119662809|emb|CAJ33196.1| RNA polymerase alpha subunit [Lactobacillus perolens] Length = 138 Score = 127 bits (319), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 61/135 (45%), Positives = 94/135 (69%) 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 DYDKLSMTIDTDGSI 211 D+DKL++ + T+GSI Sbjct: 121 DFDKLTLAVWTNGSI 135 >gi|187233921|gb|ACD01207.1| RNA polymerase alpha subunit [Phyllostachys propinqua] Length = 339 Score = 127 bits (318), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 95/309 (30%), Positives = 160/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY +++ G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYHTELRKNSQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLLTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + + K + T+ Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---RMEDGKQIWDTL 324 Query: 314 GLFLGMNLP 322 L ++LP Sbjct: 325 EKHLPIDLP 333 >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 = 127 bits (318), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 90/308 (29%), Positives = 156/308 (50%), Gaps = 28/308 (9%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P +G A+T+G A+RR L+ + G AIT + V+HE S+I G+ E + DI++N K I Sbjct: 36 PFRKGQANTVGIAIRRSLLGEIEGTAITYAKSKNVIHEYSTIIGIEESINDILINFKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ ++ I GP +TA DI ++ ++ I + D + +E+ + K Sbjct: 96 LRSDSYETQKAYISITGPKDITAEDILLPPSVQAIDDSQHIATITKDITLDIEIEIQKDR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY + ++ G IDA++ PI+K +Y+V S + + L + I TDGS+T Sbjct: 156 GY---RIQDSKESQAGEFFIDAVFMPIRKANYSVHSFGNNKKFQ-EILFIEIWTDGSLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK-------------- 259 ++++ ASR L D F++ EE +E+ D + KS LL Sbjct: 212 KEALYEASRNLIDLFLPFLHTEE--EEIISDRDEKSESNGNILLSNSISTDIDRMAKEVA 269 Query: 260 -----VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +++LEL R+ NCL+ ++ + DL++ ++ D+ ++ NFG+KS + VL + Sbjct: 270 FKHIFIDQLELPARAYNCLKKVDVHTISDLLKYSQDDLRKIKNFGKKS---VDQVLEALQ 326 Query: 315 LFLGMNLP 322 +NLP Sbjct: 327 ERFAINLP 334 >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 = 127 bits (318), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 87/287 (30%), Positives = 151/287 (52%), Gaps = 19/287 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P +G A+T+G A+RR L+ + G +IT+ + G HE S++ G+ E + DI++N+K I Sbjct: 36 PFQKGQANTVGIAIRRALLGEVGGTSITSAKFQGAAHEYSTMAGIQESIHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + ++ I GP + AGDIQ + +++++P I + + +EL + K Sbjct: 96 LENNSYEVQKGFIQVIGPKKILAGDIQVCSSVKIIDPSQYIATITKSISLNIELKIEKDR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY EN+ IDA++ PI+ +Y+V S ++ + L Y+ L + I T+GS+T Sbjct: 156 GYRIKNTDLKENE----FPIDAIFMPIRNANYSVHSFQKNKQL-YEILFLEIWTNGSLTP 210 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEV----KEDINVKSLPFNPALLKKVEE------- 262 E +++ A+R L D + I+ + E DIN S+ L K +E Sbjct: 211 EKAISEATRNLIDLVVPLIHIGDKLTENPINGTSDINFPSVSGTNDLNKIAQEVAFKNIF 270 Query: 263 ---LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 LEL R+ N L+ N+ + DL+ TE D+ + + G+KS+ +I Sbjct: 271 IDQLELPARAYNGLKKVNVHTVSDLLMYTETDLRNIRSLGKKSVEQI 317 >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 = 127 bits (318), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 92/312 (29%), Positives = 161/312 (51%), Gaps = 31/312 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L++ + G IT V+ HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLTKGQADTIGIAMRRALLAEIEGTRITRVKFANTSHEYSTIAGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I +GPG VTA DI +E+++ I L + L + Sbjct: 92 KEIVLRSNLYGTCDASISIKGPGYVTAEDIILPPHVEIVDSTQHIAWLTEPINFFIGLKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES-AREGQVLDYDKLSMTIDTD 208 + HGY H E+ G IDAL+ P++ ++++ S E Q + L + I T+ Sbjct: 152 ERNHGYFIKTHANFED---GSYPIDALFMPVRNANHSINSYGNEKQEI----LFLEIWTN 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP-------ALLKK-- 259 GS+T ++++ ASR L D F++ EE + ED + ++P +P A L+K Sbjct: 205 GSLTPKEALHEASRNLIDLFIPFLHMEEENLHL-EDAD-HTIPLSPFTVYDKVAKLRKNK 262 Query: 260 ---------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LE + NCL+ NI + DL+ ++ D++++ +F L ++K +L Sbjct: 263 KKLSLESIFIDQLEFPPKIYNCLKKSNIFTLLDLLNNSQEDLIKIEHF---HLEDVKQIL 319 Query: 311 GTMGLFLGMNLP 322 G +G ++LP Sbjct: 320 GILGKHFALDLP 331 >gi|228017404|gb|ACP52221.1| RNA polymerase alpha subunit [Larix occidentalis] Length = 335 Score = 127 bits (318), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 86/293 (29%), Positives = 152/293 (51%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLRIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIR-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALLKK----------- 259 +++ ASR L D L F++ EE + ++ N+ P + L Sbjct: 212 REALYEASRNLIDLLIPFLHGEEQNIDGMNNRKGSNMPPFPLSHVLTDTRETKEKIAFKH 271 Query: 260 --VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R+ NCLR NI + DL+ + D++R+ +FG++S+ ++ VL Sbjct: 272 IFIDQLELPPRTYNCLRRANIHTLLDLLNYSREDLMRIEHFGKESVEQVLEVL 324 >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 = 127 bits (318), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 94/309 (30%), Positives = 158/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSERVPHEYSTIIGIEESVHEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I RGP VTA DI +E+++P I NL + +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVRGPRYVTAQDIILPPSVEIVDPTQHIANLTEPIDLYIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + T N G IDA+ P++ ++++ S G + L + I T+G Sbjct: 152 KRDRGY---RMEPTNNSQDGSYPIDAVSMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF-----NPALLKK----- 259 S+T ++++ ASR L D F++ EE +E+ N +LPF LKK Sbjct: 208 SLTPKEALYEASRNLIDLFIPFLHAEEEDINFEENKNRFTLPFLTFQDRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R+ NCL+ NI + DL+ + D++R+ + ++K +L T+ Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRSNIHTLLDLLSNGQEDLMRIEYL---RMEDVKQILDTL 324 Query: 314 GLFLGMNLP 322 ++LP Sbjct: 325 QKNFAIDLP 333 >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 = 126 bits (317), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 86/304 (28%), Positives = 151/304 (49%), Gaps = 34/304 (11%) Query: 28 TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIIL 87 T + EPL RG+A+TLG LRR L+SS+ A A++I+ V HE ++ GV ED+ +I Sbjct: 22 TTFVIEPLMRGYANTLGTVLRRTLLSSITSVAPFAIKINNVQHEFETLPGVKEDVVTLIA 81 Query: 88 NIKGINLK-----MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 NI+ I ++ R++ G +TA DI + +E++N D IC+L Sbjct: 82 NIRKIRFTYKPELFEKENLARISFKATHDGDITASDINEPSGLEIVNKDQHICSLQKGTT 141 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIG-----------LITIDALYSPIKKVSYTVESAR 191 + +L + G GY+ + ++T G + ID+ +SP+K + E Sbjct: 142 LEFDLFLRVGRGYIDFEENKTIIQEYGPKLESKIKKGQFLAIDSDFSPVKNCAIHFEELN 201 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ---------DQLGMFINFEEPKKEVK 242 ++L +++ TDG++ + ++ A+ I+ D LG IN E ++ K Sbjct: 202 TSAKNVEERLKISVQTDGTLDAKSAMQQAATIIVAHFQIIGNIDALGT-INLFEEARDKK 260 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 E +LP +E+L L++RS N LR N + +L++ +E ++ + N G+KS Sbjct: 261 EKTTKLNLP--------IEKLNLTIRSLNALRRANYNTIDELLKLSEDELSNIKNLGKKS 312 Query: 303 LVEI 306 + +I Sbjct: 313 VQDI 316 >gi|150036826|emb|CAM98280.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gasicomitatum] Length = 186 Score = 126 bits (317), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 66/165 (40%), Positives = 103/165 (62%), Gaps = 2/165 (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 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVES 189 I + + M +T KG GY A ++ D PIG++ +D++Y+PI++V+Y VE+ Sbjct: 61 LHIATVAAGKSLHMTITAFKGRGYSSADENKQLRDEMPIGVLAVDSIYTPIERVNYHVEN 120 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 R G DYDKL+ I T+GSI D+++L S+IL + L +F++ Sbjct: 121 TRVGSRDDYDKLTFDIWTNGSIKPSDALSLGSKILAEHLNLFMDI 165 >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 = 126 bits (316), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 91/308 (29%), Positives = 158/308 (51%), Gaps = 23/308 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + PL +G A T+G A+RR L+ + G IT + VLHE S+I G+ E + +I+LN+ Sbjct: 32 FVLSPLMKGQADTIGIAIRRALLGEIEGTCITRATSENVLHEYSTIAGIEESVHEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I RGP +TA DI + +E+++ I NL + +EL + Sbjct: 92 KDIVLRSNLYGVRNASICVRGPKYITAQDIISPPSVEIVDTTQHIANLTEPINLCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + T + G ID + P++ ++++ S G + L + I T+G Sbjct: 152 KRDRGY---RMKSTNDSHDGSYPIDIVSMPVRNANHSIHSYGNGNE-KQEILFIEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL-PFN--------------- 253 S+T ++++ ASR L D L F++ EE KE+ N +L PF+ Sbjct: 208 SLTPKEALYEASRNLIDLLIPFLHAEEEDMNFKENENRWNLPPFSFQDKFTNFKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P +++ ELS R+ NCL+ NI + DL+ ++ D+++M F + ++K +L T+ Sbjct: 268 PLTCIFIDQSELSSRTYNCLKRSNIHTLLDLLSHSQEDLMKMEYFRTE---DVKQILSTV 324 Query: 314 GLFLGMNL 321 +NL Sbjct: 325 QKHFAINL 332 >gi|73747870|gb|AAZ82836.1| RNA polymerase subunit a [Elymus mutabilis] Length = 339 Score = 126 bits (316), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 91/285 (31%), Positives = 151/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICIKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G + ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNG-IEKHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF 312 >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 = 125 bits (315), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 69/143 (48%), Positives = 98/143 (68%), Gaps = 3/143 (2%) Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PIK+V++ VE+AR G+V DYDKL++ + TDGS+T ++V+ ++ IL++ L + I EE Sbjct: 1 PIKRVNFHVENARVGRVTDYDKLNLEVWTDGSVTPLEAVSSSASILREHLAICIPSEE-M 59 Query: 239 KEVKEDINVK--SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 KEV+ D + N L + V ELELSVR+ NCL+ NI + DL+Q+TE +ML+ Sbjct: 60 KEVEHDSAYEETQAELNKHLARSVNELELSVRAANCLKNANIKTIEDLVQKTEIEMLKTK 119 Query: 297 NFGRKSLVEIKGVLGTMGLFLGM 319 NFG+KSL EIK VL MGL LG+ Sbjct: 120 NFGKKSLNEIKEVLAEMGLSLGL 142 >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 = 125 bits (315), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 91/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVXMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF 312 >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 = 125 bits (315), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 89/287 (31%), Positives = 148/287 (51%), Gaps = 24/287 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK---------- 259 S+T ++++ ASR L D F++ EE +E+ N + P P KK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPP--PFTFKKRLTNLKKNKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 266 GIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF 312 >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 = 125 bits (315), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 87/294 (29%), Positives = 147/294 (50%), Gaps = 21/294 (7%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V ++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVTLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITFDIRLRIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIR-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPK----KEVKEDINVKSLPFNPALLKK---------- 259 +++ ASR L D F++ EE K N+ P L Sbjct: 212 REALYEASRNLIDFFIPFLHGEEQNIDGINNRKGSSNMPPFPLLHVLTDTGETKEKIAFQ 271 Query: 260 ---VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R+ NCLR NI + DL+ + D++RM +FG++S+ ++ VL Sbjct: 272 HIFIDQLELPPRTYNCLRRANIHTLLDLLNYSREDLMRMEHFGKESVEQVLEVL 325 >gi|300431268|gb|ADK12599.1| RNA polymerase alpha subunit [Poa holciformis] Length = 341 Score = 125 bits (315), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 92/287 (32%), Positives = 149/287 (51%), Gaps = 22/287 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIGGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI IE+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSIEIVDTSQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL----LKK--- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLLTFQKRLTNLNLKKNKK 267 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 GIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 314 >gi|154424769|emb|CAL18487.1| RNA polymerase alpha subunit [Streptococcus criceti] Length = 168 Score = 125 bits (315), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 59/153 (38%), Positives = 103/153 (67%) Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+KG+ +K + K + + +GP VTAGD+ T +DIE++NPDH + + ++ Sbjct: 1 LNVKGLAVKSYVEDEKTIELDVQGPAEVTAGDVLTDSDIEIINPDHYLFTIAEGHSLKAT 60 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +TV+K GYVPA+ +++++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I Sbjct: 61 MTVAKNRGYVPAEGNKSDSAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIM 120 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 TNGTIIPEDALGLSARVLIEHLNLFTDLTEIAK 153 >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 = 125 bits (315), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 85/293 (29%), Positives = 152/293 (51%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L ++L + K Sbjct: 96 LRSDSYGVREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIKLRIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIR-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALLKK----------- 259 +++ ASR L D F++ EE + ++ N+ P + L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNNRKGSNMPPFPLSHVLTDTGETKEKIAFQH 271 Query: 260 --VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R+ NCLR NI + DL+ + D++R+ +FG++S+ ++ VL Sbjct: 272 IFIDQLELPPRTYNCLRRANIHTLLDLLNYSREDLMRIEHFGKESVEQVLEVL 324 >gi|22657314|gb|AAM97460.1| RNA polymerase alpha subunit [Heteranthelium piliferum] Length = 339 Score = 125 bits (315), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 91/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFWSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPKYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELIKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF 312 >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 = 125 bits (315), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 91/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF 312 >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 = 125 bits (315), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 91/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFWSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPKYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELIKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 268 PLNCIFIDQLELTSRTXNCLKRANIHTLLDLLSKTEEDLLRIDSF 312 >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 = 125 bits (315), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 91/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPPFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF 312 >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 = 125 bits (315), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 91/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF 312 >gi|154424817|emb|CAL18511.1| RNA polymerase alpha subunit [Streptococcus minor] Length = 167 Score = 125 bits (315), Expect = 8e-27, Method: Compositional matrix adjust. Identities = 61/155 (39%), Positives = 101/155 (65%) 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 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 +G+ ED++ L++RIL + LG+F + + K + Sbjct: 121 NGTTNPEDALGLSARILMEHLGLFTDLTDVAKSAE 155 >gi|22657232|gb|AAM97419.1| RNA polymerase alpha subunit [Aegilops tauschii] Length = 339 Score = 125 bits (314), Expect = 8e-27, Method: Compositional matrix adjust. Identities = 91/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 268 PLNSIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF 312 >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 = 125 bits (314), Expect = 8e-27, Method: Compositional matrix adjust. Identities = 91/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 268 PLNSIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF 312 >gi|73747868|gb|AAZ82835.1| RNA polymerase subunit a [Elymus dentatus] Length = 339 Score = 125 bits (314), Expect = 8e-27, Method: Compositional matrix adjust. Identities = 91/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICIKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF 312 >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 = 125 bits (314), Expect = 8e-27, Method: Compositional matrix adjust. Identities = 91/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFKKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF 312 >gi|161511739|emb|CAP16880.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 166 Score = 125 bits (314), Expect = 9e-27, Method: Compositional matrix adjust. Identities = 64/162 (39%), Positives = 102/162 (62%), Gaps = 2/162 (1%) Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ IC + Sbjct: 1 TQIILNLKKVSLKVESDEEKSLEINVMGPANVTAGDIVGDGDVTILNPELPICTVAEGTT 60 Query: 143 VRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 LT KG GY A + R + PIG++ ID++Y+PI++V+Y VE+ R GQ DYDK Sbjct: 61 FHAVLTAEKGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDK 120 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 L++ + TDGS+ ++++L+++IL + L +F+N ++ K+ + Sbjct: 121 LTLDVWTDGSLAASEAISLSAKILTEHLTIFVNLDDQAKDTE 162 >gi|300431284|gb|ADK12607.1| RNA polymerase alpha subunit [Nassella arcuata] Length = 339 Score = 125 bits (314), Expect = 9e-27, Method: Compositional matrix adjust. Identities = 86/285 (30%), Positives = 146/285 (51%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I+ +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPMDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 S+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKKLTNLKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >gi|58491826|gb|AAW78552.1| RNA polymerase alpha subunit [Sphagnum fimbriatum] Length = 338 Score = 125 bits (314), Expect = 9e-27, Method: Compositional matrix adjust. Identities = 98/310 (31%), Positives = 164/310 (52%), Gaps = 36/310 (11%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P G A+T+G A+RR L+ + G IT + + V HE S+I G+ E + DI++N+K I Sbjct: 37 PFRSGQANTVGIAVRRALLGGVEGTCITRAKSEKVTHEYSTILGIQESVRDILINLKEIV 96 Query: 94 LKMSGDSHKR----VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 LK +S + ++IF GP VTA DI +EV++ I L + +EL + Sbjct: 97 LKSKSNSCETQKAFLSIF--GPKEVTARDIIFPPSVEVIDTTQYIATLTKAIHLDIELKI 154 Query: 150 SKGHGYVPAKHHRTENDPI----GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 K GY RT+ D I G ++DA+++PI+ +Y+V S E + + L + I Sbjct: 155 EKDCGY------RTQ-DSIKSADGYFSVDAVFTPIRNANYSVHSF-ENKNETQEILFIEI 206 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN------VKSLPFNPALLKK 259 T+GS+T ++++ ASR L D F++ E K+EV D N S P + K+ Sbjct: 207 WTNGSVTPKEALYEASRSLIDLFIPFLHAE--KEEVMHDKNESNTLHFSSSPSENKMEKE 264 Query: 260 -------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +++LEL R+ NCL+ ++ + DL+ ++ D++++ NFG+KS ++ VL Sbjct: 265 MTFKHIFIDQLELPARAYNCLKRVDVHTISDLLSYSQDDLMKIKNFGKKS---VEQVLEA 321 Query: 313 MGLFLGMNLP 322 + + LP Sbjct: 322 LQKRFSIKLP 331 >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 = 125 bits (314), Expect = 9e-27, Method: Compositional matrix adjust. Identities = 91/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDRAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF 312 >gi|300431329|gb|ADK12627.1| RNA polymerase alpha subunit [Achnatherum diegoense] Length = 339 Score = 125 bits (314), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 86/285 (30%), Positives = 146/285 (51%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I+ +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 QRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 S+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKKLTNLKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >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 = 125 bits (314), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 91/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFWSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF 312 >gi|300431309|gb|ADK12619.1| RNA polymerase alpha subunit [Achnatherum psilantherum] Length = 339 Score = 125 bits (314), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 86/285 (30%), Positives = 146/285 (51%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I+ +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVDTGQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 S+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKKLTNLKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >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 = 125 bits (314), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 93/300 (31%), Positives = 160/300 (53%), Gaps = 15/300 (5%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 NR + A P G+A TL + LRR+L+ S G A TA++I GV HE SI+G+ ED++ Sbjct: 22 NRIKISAYPFESGYAITLAHPLRRLLLLSSVGYAPTALKIQGVTHEFDSIRGIVEDVSHF 81 Query: 86 ILNIKGINLKMSGDSHKRVTIFK--RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 I N+K I + ++ V + +GP V++A ++ ++V+NP+ + ++ +A + Sbjct: 82 ISNLKNIRFLIKDETLDSVQVHYEFKGPMVLSANELAN-ESVDVVNPEAYLATINENASI 140 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 L V KG GYVP++ R + I +DA ++P+KK Y +E+ +Y+K+ Sbjct: 141 SFSLIVQKGIGYVPSESIRGKIAE-DYIPLDAYFTPVKKAIYEIENVLVEDNPNYEKIIF 199 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMF-INFEEP---KKEVKEDI-NVKSLPFNPALLK 258 I+TDG I + A ++ Q+ +F ++ K + ED +K+ L+ Sbjct: 200 DIETDGQIEPLTAFKEAISVMHKQMSIFGVDLSATPNGSKSIAEDSGELKT------LMI 253 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 K++ L LS R NCL + Y+G+L+ +E ++ + N G+KS EI L +G +G Sbjct: 254 KIDTLNLSARCFNCLDRSGLKYVGELVIMSENELKNIKNMGKKSYDEITEKLEELGYPVG 313 >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 = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 86/285 (30%), Positives = 146/285 (51%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I+ +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 S+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKKLTNLKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >gi|12661177|gb|AAK01152.2|AF311314_2 RPoA [Marsilea quadrifolia] Length = 347 Score = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 81/297 (27%), Positives = 154/297 (51%), Gaps = 22/297 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + P +G A+T+G A+RR L+ + GA+IT+ + +GV HE S++ G+ E + DI++N+ Sbjct: 38 FVISPFKKGQANTVGIAMRRALLGEVGGASITSARFEGVAHEYSTVAGIQETIHDILVNL 97 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ D +++ + GP VTAGDI ++V++ I + V +EL + Sbjct: 98 KEIVLRSDSDGNQKAILSVTGPKRVTAGDISLPPSVKVIDDSQYIVTITQPISVNIELNI 157 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 GY + + G +DA++ P++ V+Y+V G+ + + L + + T+G Sbjct: 158 ECDCGYRIESLNEYRD---GEFPVDAVFMPVRNVNYSVHPFGSGKEM-REILFIEVWTNG 213 Query: 210 SITGEDSVALASRILQDQLGMFI--------NFEEPKKEVK--------EDINVKSLPFN 253 S+T ++++ AS+ D L F+ +FE + +D++ F Sbjct: 214 SLTPTEAISKASKSSIDLLSPFLHTKHEDIPDFESNRDSSSLMKFSSRVDDVDKSEGDFF 273 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R+ NCL+ I + DL+ + D+L++ +FG+KS+ ++ L Sbjct: 274 KNTF--IDQLELPARAFNCLKRAEIHTISDLLSYSRDDLLKLKSFGKKSVDQVSRAL 328 >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 = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 81/297 (27%), Positives = 154/297 (51%), Gaps = 22/297 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + P +G A+T+G A+RR L+ + GA+IT+ + +GV HE S++ G+ E + DI++N+ Sbjct: 32 FVISPFKKGQANTVGIAMRRALLGEVGGASITSARFEGVAHEYSTVAGIQETIHDILVNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ D +++ + GP VTAGDI ++V++ I + V +EL + Sbjct: 92 KEIVLRSDSDGNQKAILSVTGPKRVTAGDISLPPSVKVIDDSQYIVTITQPISVNIELNI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 GY + + G +DA++ P++ V+Y+V G+ + + L + + T+G Sbjct: 152 ECDCGYRIESLNEYRD---GEFPVDAVFMPVRNVNYSVHPFGSGKEM-REILFIEVWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFI--------NFEEPKKEVK--------EDINVKSLPFN 253 S+T ++++ AS+ D L F+ +FE + +D++ F Sbjct: 208 SLTPTEAISKASKSSIDLLSPFLHTKHEDIPDFESNRDSSSLMKFSSRVDDVDKSEGDFF 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R+ NCL+ I + DL+ + D+L++ +FG+KS+ ++ L Sbjct: 268 KNTF--IDQLELPARAFNCLKRAEIHTISDLLSYSRDDLLKLKSFGKKSVDQVSRAL 322 >gi|307683665|dbj|BAJ19811.1| RNA polymerase alpha chain [Picea morrisonicola] Length = 336 Score = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 87/294 (29%), Positives = 153/294 (52%), Gaps = 21/294 (7%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RRVL+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRVLLGEVEGTCITHVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIRGASICIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGNGNEIR-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALL-------KK---- 259 ++++ ASRIL + F++ EE + ++ N+ P + L KK Sbjct: 212 REALSEASRILIELFIPFLHGEEQNIDGMNNRKGSNMPPFPLSHVLTDTGETKEKKIAFQ 271 Query: 260 ---VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R NCLR NI + DL+ + D++R+ FG++S+ ++ +L Sbjct: 272 HIFIDQLELPPRVYNCLRRANIHTLSDLLNYSREDLMRIERFGKESVEQVFEIL 325 >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 = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 67/126 (53%), Positives = 85/126 (67%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA +V+IDGVLHE S++ GV ED+ +IILN+K + Sbjct: 2 EPLERGYGITLGNSLRRVLLSSLPGAAPKSVKIDGVLHEFSTLPGVKEDVVEIILNLKEV 61 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K+ D I G G VTAG I+ DIE+LNPDH I L D + ME+ KG Sbjct: 62 AVKLHSDEPVVGRIDVEGKGEVTAGHIKGSADIEILNPDHHIATLSDDGKLHMEIVFVKG 121 Query: 153 HGYVPA 158 GYVP+ Sbjct: 122 KGYVPS 127 >gi|51859695|gb|AAU11127.1| RNA polymerase alpha subunit [Psathyrostachys caduca] Length = 339 Score = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 90/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >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 = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 91/285 (31%), Positives = 149/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLXEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDXF 312 >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 = 125 bits (313), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 90/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >gi|307697293|gb|ADN86101.1| RNA polymerase alpha subunit [Chasmanthium latifolium] Length = 339 Score = 124 bits (312), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 95/313 (30%), Positives = 159/313 (50%), Gaps = 31/313 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGNVPHEYSTIVGIEESIQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLREPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY +++ G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYHTELRKNSQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL---------LKK- 259 S+T ++++ ASR L D F++ EE +E+ N F P L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGSSFEENKNR----FTPPLLTFQKRFTNLKKN 263 Query: 260 ----------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + + K + Sbjct: 264 KKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---RMEDGKLI 320 Query: 310 LGTMGLFLGMNLP 322 T+ L ++LP Sbjct: 321 WDTLEKHLPIDLP 333 >gi|300431307|gb|ADK12618.1| RNA polymerase alpha subunit [Achnatherum chingii] Length = 339 Score = 124 bits (312), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 87/285 (30%), Positives = 144/285 (50%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y++ S G ++ L + I T G Sbjct: 152 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTTG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 S+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKKLTNLKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ NF Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDNF 312 >gi|51859683|gb|AAU11121.1| RNA polymerase alpha subunit [Psathyrostachys fragilis subsp. secaliformis] Length = 339 Score = 124 bits (312), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 90/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIXIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >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 = 124 bits (312), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 90/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >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 = 124 bits (312), Expect = 1e-26, Method: Compositional matrix adjust. 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|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 = 124 bits (312), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 90/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGXVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTXQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNYIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >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 = 124 bits (312), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 88/295 (29%), Positives = 155/295 (52%), Gaps = 19/295 (6%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM- 96 G+A TL + LRR+L+ S G A A++I+GV HE S++G+ ED+ I N+K I L Sbjct: 35 GYAITLAHPLRRLLLQSSVGFAPIAIKIEGVAHEFDSVRGMAEDVALFIANLKNIRLVAK 94 Query: 97 ---SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 + + V GP ++ D+ T ++EV++ + + ++ D + L + KG Sbjct: 95 NLENAEDQLVVHYSFNGPAKLSGKDLAT-EEVEVVDTETYLATINEDGQLGFSLIIQKGM 153 Query: 154 GYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GYVP++ R +D I +DA ++PIKK Y +E+ +++K+ I++DG + Sbjct: 154 GYVPSESIRGFISSD---YIPLDACFTPIKKAIYHIENILVDGNPNFEKVIFEIESDGQV 210 Query: 212 TGEDSVALASRILQDQLGMF-INFEEPKK--EVKEDINVKSLPFNPALLKKVEELELSVR 268 + + A + + Q+ +F N + K ++ ++ +K L+KKVE+L+LS R Sbjct: 211 DPKQAFQEAIKTMHAQMHIFSTNLSDSKNAYHLENNLEIKE------LIKKVEDLDLSAR 264 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 NCL I Y+G+L+ ++ + N G+KS EI L + +G LP+ Sbjct: 265 CLNCLDKVGIKYIGELVLMDVYELKGIKNLGKKSYDEIAEKLEQLKYPVGQELPE 319 >gi|117575077|emb|CAJ84778.1| RNA polymerase alpha subunit [Lactobacillus amylophilus] Length = 138 Score = 124 bits (312), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 61/136 (44%), Positives = 92/136 (67%) Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+T IILN+K + LK K I GP VTAGD++ +++++LNPD I Sbjct: 2 GVLEDVTQIILNLKKLTLKSIAADEKLAEIDVEGPATVTAGDLKVDDEVQILNPDQYIAT 61 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + A ++M + + +G GYVPA +++++ PIG++ +D+L+SPI+KV+Y VE R G+ Sbjct: 62 VAEGAHLQMTVAIKQGRGYVPADQNKSDDMPIGVVPVDSLFSPIEKVNYQVEGTRVGRNN 121 Query: 197 DYDKLSMTIDTDGSIT 212 DYDKL+M + TDGSIT Sbjct: 122 DYDKLTMEVWTDGSIT 137 >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 = 124 bits (312), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 86/285 (30%), Positives = 145/285 (50%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDITLPPSVEIVDTAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 S+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKKLTNLKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >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 = 124 bits (312), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 91/309 (29%), Positives = 164/309 (53%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGPG VTA DI + +E+++ I NL +R+EL + Sbjct: 92 KEIVLRSTFYGTCDASICVRGPGGVTAQDIISPPYVEIVDTTQHIANLTEPIDLRIELQL 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + N G ID ++ P++ V++++ S G + L + I T+G Sbjct: 152 ERNRGY---RIKTPNNFQDGSYPIDVVFMPVRNVNHSIHSYSNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F+ E+ ++++ + +LP F+ L L+K Sbjct: 208 SLTPKEALYEASRNLIDLFIPFLYAEKENFHLEDNQDRVTLPLFLFHDRLIELRKNKKKI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R NCL+ NI + DL+ ++ D++++ +F S+ ++K +L T+ Sbjct: 268 ALKSIFIDQLELPPRIYNCLKNSNIHTLLDLLTNSQDDIMKIEHF---SIEDVKQILDTL 324 Query: 314 GLFLGMNLP 322 +NLP Sbjct: 325 EKHFAINLP 333 >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 = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 90/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ ++Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNLNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF 312 >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 = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 90/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFWSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >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 = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 90/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGXVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >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 = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 91/285 (31%), Positives = 149/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAESMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF 312 >gi|58758781|gb|AAW81783.1| RNA polymerase alpha subunit [Polytrichastrum pallidisetum] Length = 338 Score = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 95/308 (30%), Positives = 159/308 (51%), Gaps = 31/308 (10%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P G A+T+G A+RR L+ + G IT V HE S+I G+ E + DI++N+K I Sbjct: 36 PFRCGQANTVGIAMRRALLGEIEGTCITCAIFKKVTHEYSTIVGIQESVHDILINLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK + ++ I GP +TA DI +++++ I + + +EL + K Sbjct: 96 LKSNSSETQKAFISILGPKKITAQDIILPPSVKIIDTTQYIATITKPIHLDIELEIEKDC 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY ++ + G IDA++ PI+ +Y+V S + + L + I T+GSIT Sbjct: 156 GYRIQDSVKSID---GYFPIDAIFMPIRNANYSVHSFENNNKIQ-EILFIEIWTNGSITP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDIN-VKSLP--------FNPA---LLKK-- 259 ++++ ASR L D +FI F P+K KE I+ +K P F+P L K+ Sbjct: 212 KEALYEASRSLID---LFIPFLHPEK--KETIDRLKYTPNDISDFSSFSPVTGKLTKEIT 266 Query: 260 -----VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +++LEL R+ NCL+ N + DL+ ++ D++++ NFG+KS ++ VL + Sbjct: 267 FKHIFIDQLELPARAYNCLKRVNGHTISDLLNYSQDDLMKIKNFGKKS---VEQVLEALE 323 Query: 315 LFLGMNLP 322 +NLP Sbjct: 324 KQFSINLP 331 >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 = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 86/303 (28%), Positives = 153/303 (50%), Gaps = 19/303 (6%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 Q E T +PL RG +TLGNALRR ++SS+ A+ V+I+G+ HE + + V ED Sbjct: 16 QVNEFETSFEIKPLERGLGNTLGNALRRTVLSSIPSCAVFGVKIEGIKHEFTVLDDVIED 75 Query: 82 LTDIILNIKGINLK-----MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 + I+ N+K + S +S + + G + A DI++ + ++++NPD I + Sbjct: 76 VVTILNNLKRVRFFYNPSVFSQNSIHVASFLGQKAGQIYARDIESHSGLKIVNPDLYIAD 135 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGL---------ITIDALYSPIKKVSYT 186 + ++ EL ++ G G+V + ++ N+ I L + +D+ +SP+ +Y Sbjct: 136 VSKVGALKFELFITNGKGFVDFETNKKYVNEVISLLESQIEGSVLAVDSDFSPVLNANYQ 195 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE--- 243 + +KL+ +I TDGSI +D+++ ++IL L + + E K + Sbjct: 196 AVEINSASPIIEEKLNFSIKTDGSIFAKDALSQGAKILIAHLNLLADVENLNKFSADFFG 255 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 D +K P ++ L+LSVRS N LR + D+ + ++ D + N GRKS+ Sbjct: 256 DQEIKEEPIRR-FSNSIDALDLSVRSLNALRRAQYYKISDIEKLSQDDFENIKNLGRKSV 314 Query: 304 VEI 306 EI Sbjct: 315 QEI 317 >gi|119663522|emb|CAK22332.1| RNA polymerase alpha subunit [Lactobacillus acetotolerans] Length = 140 Score = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. 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|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 = 124 bits (311), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 86/294 (29%), Positives = 152/294 (51%), Gaps = 21/294 (7%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RRVL+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRVLLGEVEGTCITHVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIRGASICIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIR-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALL-------KK---- 259 ++++ ASRIL + F++ EE + ++ N+ P + L KK Sbjct: 212 REALSEASRILIELFIPFLHGEEQNIDGMNNRKGSNMPPFPLSHVLTDTGETKEKKIAFQ 271 Query: 260 ---VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LE R NCLR NI + DL+ + D++R+ FG++S+ ++ +L Sbjct: 272 HIFIDQLEFPPRVYNCLRRANIHTLSDLLNYSREDLMRIERFGKESVEQVFEIL 325 >gi|300431322|gb|ADK12624.1| RNA polymerase alpha subunit [Amelichloa brevipes] Length = 339 Score = 124 bits (310), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 86/285 (30%), Positives = 146/285 (51%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL + +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDLCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 S+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKKLTNLKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >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 = 124 bits (310), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 90/285 (31%), Positives = 149/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E ++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVETVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >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 = 124 bits (310), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 90/287 (31%), Positives = 148/287 (51%), Gaps = 22/287 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G I + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCIARAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTSQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL----LKK--- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLNLKKNKK 267 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 GIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 314 >gi|300431303|gb|ADK12616.1| RNA polymerase alpha subunit [Aciachne flagellifera] Length = 339 Score = 123 bits (309), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 86/285 (30%), Positives = 145/285 (50%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 S+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKKLTNLKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >gi|300431320|gb|ADK12623.1| RNA polymerase alpha subunit [Amelichloa caudata] Length = 339 Score = 123 bits (309), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 86/285 (30%), Positives = 145/285 (50%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I+ +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 S T ++++ ASR L D F++ EE +E+ N + P Sbjct: 208 SSTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKKLTNLKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >gi|51859679|gb|AAU11119.1| RNA polymerase alpha subunit [Psathyrostachys lanuginosa] Length = 339 Score = 123 bits (309), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 90/285 (31%), Positives = 150/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGXVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDMAQPIANLTEPIDFCIDLRI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >gi|254751247|ref|ZP_05203285.1| DNA-directed RNA polymerase subunit alpha [Bacillus anthracis str. Vollum] Length = 136 Score = 123 bits (309), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 68/134 (50%), Positives = 94/134 (70%), Gaps = 2/134 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L ++ + +I EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKPK-IETVELNEDAKYGKFVI-EPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 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 LNPDHVICNLDVDA 141 LNPD I L DA Sbjct: 121 LNPDLHIATLAKDA 134 >gi|58758770|gb|AAW81775.1| RNA polymerase alpha subunit [Oedipodium griffithianum] Length = 340 Score = 123 bits (309), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 94/307 (30%), Positives = 158/307 (51%), Gaps = 27/307 (8%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P G A+T+G A+RR L+ + G IT + V HE S+I G+ E + DI++N+K I Sbjct: 36 PFRCGQANTVGIAMRRALLGEVEGTCITCAKFKKVTHEYSTIAGIQESVHDILINLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + ++ I GP VTA DI +++++ I L + +EL + K Sbjct: 96 LRSNSYETQKAFISILGPKKVTAQDIILPPSVKIIDTTQYIATLTKTIHLDIELEIEKDC 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY ++ + G IDA++ PI+ +Y+V S E + + L + I T+GSIT Sbjct: 156 GYRIQDSIKSTD---GHFPIDAIFMPIRNANYSVHSF-EHENKTQEILFIEIWTNGSITP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEV------KEDINVKSL-----PFNPALLKKV-- 260 ++++ ASR L D F++ E KKE+ K + N S P + K+V Sbjct: 212 KEALYEASRSLIDLFIPFLHAE--KKEIINGLENKYESNNMSYFSSFSPLADRITKEVTF 269 Query: 261 -----EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 ++LEL R+ NCL+ N+ + DL+ ++ D++++ NFG+KS ++ VL + Sbjct: 270 KHIFIDQLELPARAYNCLKRVNVHTISDLLNYSQDDLMKIKNFGKKS---VEQVLEALQK 326 Query: 316 FLGMNLP 322 +NLP Sbjct: 327 QFSINLP 333 >gi|161511735|emb|CAP16878.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 161 Score = 123 bits (309), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 66/161 (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 VICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESA 190 IC + LT KG GY A + R + 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|150186925|emb|CAK30129.1| RNA polymerase alpha subunit [Streptococcus thermophilus] Length = 145 Score = 123 bits (309), Expect = 3e-26, Method: Compositional matrix adjust. 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|300431288|gb|ADK12609.1| RNA polymerase alpha subunit [Jarava leptostachya] Length = 339 Score = 123 bits (309), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 85/285 (29%), Positives = 146/285 (51%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I+ +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 S+T ++++ ASR L D F++ EE +++ N + P Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGASFEKNKNRFTPPLFTFQKKLTNLKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >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 = 123 bits (309), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 83/303 (27%), Positives = 152/303 (50%), Gaps = 19/303 (6%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 Q E T +PL RG +TLGNALRR ++SS+ A+ V+I+G+ HE + + V ED Sbjct: 16 QVNEFETSFEIKPLERGLGNTLGNALRRTVLSSIPSCAVFGVKIEGIKHEFTVLDDVIED 75 Query: 82 LTDIILNIKGINLK-----MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 + I+ N+K + S +S + + G + A DI++ + ++++NPD I + Sbjct: 76 VVTILNNLKRVRFFYNPSVFSQNSIHVASFLGQKAGQIYARDIESHSGLKIVNPDLYIAD 135 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPI----------GLITIDALYSPIKKVSYT 186 + ++ EL ++ G G+V + ++ + + ++ +D+ +SP+ +Y Sbjct: 136 VSKVGALKFELFITNGKGFVDFETNKKYVNEVISRLESQIEGSVLAVDSDFSPVLNANYQ 195 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE--- 243 + +KL+ +I TDGSI +D+++ ++IL L + + E K + Sbjct: 196 AVEINSASPIIEEKLNFSIKTDGSIFAKDALSQGAKILIAHLNLLADVENLNKFSADFFG 255 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 D +K P ++ L+LSVRS N LR + D+ + ++ D + N GRKS+ Sbjct: 256 DQEIKEEPIR-RFSNSIDALDLSVRSLNALRRAQYYKISDIEKLSQDDFENIKNLGRKSV 314 Query: 304 VEI 306 EI Sbjct: 315 QEI 317 >gi|1771084|emb|CAB01369.1| alpha subunit of RNA polymerase [Hordeum vulgare subsp. spontaneum] Length = 339 Score = 123 bits (309), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 90/285 (31%), Positives = 148/285 (51%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E ++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVETVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDXF 312 >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 = 123 bits (309), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 87/309 (28%), Positives = 160/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLIKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTIVGIEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I RGPG VTA DI + +E ++ I NL +EL + Sbjct: 92 KEIVLRSNLYGTRNASICIRGPGYVTAQDIISPPSVETVDNTQHIANLTEPIDFCIELEI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + N G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGY---RMKTPNNSQDGSYPIDAVFMPVRNANHSIHSYANGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF-----NPALLKK----- 259 S+T ++++ ASR L D F++ +E ++++ N +LPF A ++K Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHAQEENILLEDNQNGVTLPFFTFHDRLAKIRKNEKEI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++ EL R+ NCL+ NI + DL ++ D++++ +F + ++K +LG + Sbjct: 268 ALKYIFIDQSELPPRTYNCLKRSNIHTLLDLFNNSQEDLMKIEDF---RIEDVKQILGIL 324 Query: 314 GLFLGMNLP 322 ++LP Sbjct: 325 QKHFTVDLP 333 >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 = 123 bits (308), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 86/311 (27%), Positives = 160/311 (51%), Gaps = 27/311 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT V+ + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRVKSEKAPHEYSTIAGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I +GPG VTA DI +E+++ I L + L + Sbjct: 92 KEIVLRSNLYGTCDASICVKGPGCVTAEDIILPPSVEIVDNTQHIAWLTEPIDFCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY+ HH E+ G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGYILKTHHNFED---GSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP-------ALLKK--- 259 S+T ++++ ASR L D F++ EE +++ ++P +P A L+K Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHMEEENLHLED--GEHTIPLSPLSFHDKVAKLRKNKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +++LE + NCL+ NI + DL+ +++ D++++ +F + ++K +LG Sbjct: 266 KLALKSIFIDQLEFPPKIYNCLKKSNISTLLDLLNKSQEDLMKIEHF---HIEDVKQILG 322 Query: 312 TMGLFLGMNLP 322 + ++LP Sbjct: 323 ILEKHFAIDLP 333 >gi|300431335|gb|ADK12628.1| RNA polymerase alpha subunit [Achnatherum eminens] Length = 339 Score = 123 bits (308), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 85/285 (29%), Positives = 145/285 (50%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I+ +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 +T ++++ ASR L D F++ EE +E+ N + P Sbjct: 208 RLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKKLTNLKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >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 = 123 bits (308), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 90/311 (28%), Positives = 161/311 (51%), Gaps = 27/311 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ++RR L+ + G IT + + V HE S++ G+ E + +I+ N+ Sbjct: 32 FILSPLMKGQADTIGISMRRALLGEIEGTCITRAKSEKVPHEYSTVVGIEESVHEILFNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + + +I RGP VTA DI + +E+++ I NL +D + +E+ Sbjct: 92 KEIVLRSNLYEIRDASICVRGPRYVTAQDIISPPYVEIVDTTQYIANLTEPIDLCIELEI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G+ P N G IDA++ P++ ++++ S G + L + I T Sbjct: 152 KRDRGYRMKPIT-----NSQDGSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK--- 259 +GS+T ++++ ASR L D F++ EE +E+ N +LP F L LKK Sbjct: 206 NGSLTPKEALYEASRNLIDLFVPFLHAEEEDINFEENKNKFTLPPLTFQDRLSNLKKNKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +++LEL R+ NCL+ NI + DL+ + + ++++M F + ++K +L Sbjct: 266 GIPLKYIFIDQLELPSRTYNCLKRSNIHTLLDLLSKGQENLIKMEYF---HIEDVKQILD 322 Query: 312 TMGLFLGMNLP 322 T+ ++LP Sbjct: 323 TLQKHFAVDLP 333 >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 = 123 bits (308), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 92/309 (29%), Positives = 159/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGNVPHEYSTIVGIEESIQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTTQPIANLREPVDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + Y +++ G IDA++ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRAYHTELRKNSQD---GSYPIDAVFMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHTEEEGTSFEENKNRLTPPLLTFQKRFTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R+ NCL+ NI + DL+ +TE D++++ +F + + K + T+ Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMQINSF---RMEDGKLIWDTL 324 Query: 314 GLFLGMNLP 322 L ++LP Sbjct: 325 EKHLPIDLP 333 >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 = 123 bits (308), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 96/313 (30%), Positives = 162/313 (51%), Gaps = 31/313 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLIKGQADTVGIALRRALLGEIEGTCITRAKSENVPHEYSTIVGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI + +E+++ I L +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIISPPSVEIVDTAQHIATLTEPIDFCIELQI 151 Query: 150 SKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + GY K+ + E+ P IDA+ P++ V+Y++ S G + L + I T Sbjct: 152 KRDRGYYTELRKNSQDESYP-----IDAVSMPVQNVNYSIFSCGNGNE-KQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK-------- 259 +GS+T ++++ ASR L D F++ EE +E+ N + P P L+K Sbjct: 206 NGSLTPKEALYEASRNLIDLFIPFLHAEEESTNFEENKNRFTQP--PLTLQKKLTNLKKN 263 Query: 260 ----------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 +++L+L R+ NCL+ NI + DL+ +TE D+LR+ NF + + K + Sbjct: 264 KKGVPLNSIFIDQLKLPSRTYNCLKRANIHTLLDLLSKTEEDLLRIDNF---RMEDGKQI 320 Query: 310 LGTMGLFLGMNLP 322 L T+ L ++LP Sbjct: 321 LDTLEKDLPIDLP 333 >gi|156598227|gb|ABU85377.1| RNA polymerase alpha subunit [Elaeis oleifera] Length = 339 Score = 123 bits (308), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 93/308 (30%), Positives = 158/308 (51%), Gaps = 23/308 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKVAHEYSTIVGIEESVHEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGP VTA DI + +E+++ I NL + +EL + Sbjct: 92 KEIILRSNLYGVIDASICVRGPRYVTAQDIISPPYVEIVDTTQHIANLTEPIDLCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + N G IDA+ P++ ++++ S G + L + I T+G Sbjct: 152 KRDRGY---RMKSANNSQDGSYPIDAVSMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N LP F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFIPFLHAEEEDINFEENKNRFPLPLFTFQNRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++ EL R+ NCL+G NI + DL+ ++ D++R+ F + ++K +L T+ Sbjct: 268 PLKCIFIDQSELPSRTYNCLKGSNIHTLSDLLSNSQEDLMRIKFF---RIEDVKQILDTL 324 Query: 314 GLFLGMNL 321 + ++L Sbjct: 325 QKYFAIDL 332 >gi|300431299|gb|ADK12614.1| RNA polymerase alpha subunit [Hesperostipa comata] Length = 339 Score = 123 bits (308), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 87/285 (30%), Positives = 146/285 (51%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FN------------- 253 S+T ++++ ASR L D F++ EE +E+ N + P F Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPRFTFQKKLTNLKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >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 = 123 bits (308), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 93/308 (30%), Positives = 158/308 (51%), Gaps = 23/308 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKVAHEYSTIVGIEESVHEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGP VTA DI + +E+++ I NL + +EL + Sbjct: 92 KEIILRSNLYGVIDASICVRGPRYVTAKDIISPPYVEIVDTTQHIANLTEPIDLCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + N G IDA+ P++ ++++ S G + L + I T+G Sbjct: 152 KRDRGY---RMKSANNSQDGSYPIDAVSMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N LP F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFIPFLHAEEEDINFEENKNRFPLPLFTFQDRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++ EL R+ NCL+G NI + DL+ ++ D++R+ F + ++K +L T+ Sbjct: 268 PLKCIFIDQSELPSRTYNCLKGSNIHTLSDLLNNSQEDLMRIEFF---RIEDVKQILDTL 324 Query: 314 GLFLGMNL 321 + ++L Sbjct: 325 QKYFAIDL 332 >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 = 122 bits (307), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 87/323 (26%), Positives = 164/323 (50%), Gaps = 33/323 (10%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E + + I PL G A+TLG A+RR + L G IT+ + + ++HE S++ G+ E + Sbjct: 26 ERLHHSRFIISPLGIGQANTLGIAMRRASLGELEGTCITSAKFEKIIHEYSTVVGIQESV 85 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 D ++N+K I L+ + ++ I GPG +TA DI IE+++P I L Sbjct: 86 HDTLINLKEIVLRSNSSEIQKAYISIIGPGEITAQDIILPPSIEIIDPAQHIATLTKKIH 145 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES--AREGQVLDYDK 200 + +EL + + GY ++++ G ++A++ PI+ V+Y++ + + +++ + Sbjct: 146 LNIELRIERDRGYRRQNIVKSQD---GNFPLNAVFMPIRNVNYSIHCFESHDKKIMK-EM 201 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE---------------------PKK 239 L + I T+GSIT +++ ASR L + F++ E P Sbjct: 202 LLLEIWTNGSITPREAIYEASRSLINLFIPFLHAENGEKIYGMGNINESNALSCSVLPPM 261 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 ++ D K + F +++LEL R+ NCL+ N+ + DL+ ++ D++++ NFG Sbjct: 262 SIQVDQMAKEVTFRHIF---IDQLELPPRAYNCLKRINVHTISDLLDYSQDDLMKIKNFG 318 Query: 300 RKSLVEIKGVLGTMGLFLGMNLP 322 KS ++ VL + G++LP Sbjct: 319 IKS---VEQVLEALWKRFGISLP 338 >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 = 122 bits (307), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 89/285 (31%), Positives = 149/285 (52%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G I + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCIARAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFKKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >gi|300431293|gb|ADK12611.1| RNA polymerase alpha subunit [Piptatherum miliaceum] Length = 339 Score = 122 bits (307), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 86/285 (30%), Positives = 145/285 (50%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S++ G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTLAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASISVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPVDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 S+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKKLTNLKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >gi|300431291|gb|ADK12610.1| RNA polymerase alpha subunit [Jarava plumosula] Length = 339 Score = 122 bits (307), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 85/285 (29%), Positives = 145/285 (50%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I+ +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 S+T ++++ AS L D F++ EE +E+ N + P Sbjct: 208 SLTPKEALYEASHNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKKLTNLKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >gi|228017032|gb|ACP51855.1| RNA polymerase alpha subunit [Pinus canariensis] Length = 335 Score = 122 bits (307), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 85/293 (29%), Positives = 151/293 (51%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 + + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 FRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H N G+ IDA++ P++ V+Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSPNNYQDGIFPIDAVFMPVRDVNYSIHSYGSGNEIR-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPAL-------------L 257 +++ ASR L D F++ EE + K+ N+ P + L L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTDTGETKEKIAFQL 271 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL ++ N LR NI + DL+ + D++R+ +FG++S+ ++ VL Sbjct: 272 IFIDQLELPPKTYNSLRRANIHTLSDLLNYSREDLMRIEHFGKESVEQVLEVL 324 >gi|300431295|gb|ADK12612.1| RNA polymerase alpha subunit [Aciachne acicularis] Length = 339 Score = 122 bits (307), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 86/285 (30%), Positives = 144/285 (50%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDITLPPSVEIVDTAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 S+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKKLTNLKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D+ R+ +F Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLRRIDSF 312 >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 = 122 bits (307), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 93/313 (29%), Positives = 155/313 (49%), Gaps = 31/313 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDMAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY +N G IDA+ P++ V+Y++ G ++ L + I T+G Sbjct: 152 KRDRGY---HTELRKNSQDGSYPIDAVSMPVRNVNYSIFYCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK----------- 258 S+T ++++ ASR L D F++ EE +E+ N F P LL Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNR----FTPPLLTFQKKLTNLKKN 263 Query: 259 ---------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + + K + Sbjct: 264 KKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---RMEDGKQI 320 Query: 310 LGTMGLFLGMNLP 322 T+ L ++LP Sbjct: 321 WDTLEKHLPIDLP 333 >gi|19702212|emb|CAD28795.1| RNA polymerase alpha subunit [Cuscuta reflexa] Length = 335 Score = 122 bits (306), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 91/312 (29%), Positives = 159/312 (50%), Gaps = 31/312 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L++ + G IT V+ HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLTKGQADTIGIAMRRALLAEIEGTRITRVKFANTSHEYSTIAGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I +GPG VTA DI +E+++ I L + L + Sbjct: 92 KEIVLRSNLYGTCDASISIKGPGYVTAEDIILPPHVEIVDSTQHIAWLTEPINFFIGLKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES-AREGQVLDYDKLSMTIDTD 208 + HGY H E+ G IDAL P++ ++++ S E Q + L + I T+ Sbjct: 152 ERNHGYFIKTHANFED---GSYPIDALLMPVRNANHSINSYGNEKQEI----LFLEIWTN 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP-------ALLKK-- 259 GS+T ++++ ASR L D F++ EE + ED + ++P +P A L+K Sbjct: 205 GSLTPKEALHEASRNLIDLFIPFLHMEEENLHL-EDAD-HTIPLSPFTVYDKVAKLRKNK 262 Query: 260 ---------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LE + NCL+ NI + DL+ ++ D++++ +F L ++K +L Sbjct: 263 KKLSLESIFIDQLEFPPKIYNCLKKSNIFTLLDLLNNSQEDLIKIEHF---HLEDVKQIL 319 Query: 311 GTMGLFLGMNLP 322 G +G ++ P Sbjct: 320 GILGKHFALDSP 331 >gi|307683571|dbj|BAJ19764.1| RNA polymerase alpha chain [Larix decidua] Length = 335 Score = 122 bits (306), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 85/293 (29%), Positives = 150/293 (51%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLRIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H N G+ IDA++ P+ +Y++ S + + L + I T+G +T Sbjct: 156 GYII---HSPNNYQDGIFPIDAVFMPVPDANYSIHSYGSRNEIR-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALLKK----------- 259 +++ ASR L D L F++ EE + ++ N+ P + L Sbjct: 212 REALYEASRNLIDLLIPFLHGEEQNIDGMNNRKGSNMPPFPLSHVLTDTRETKEKIAFQH 271 Query: 260 --VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R+ NCLR NI + DL+ + D++R+ +FG++S+ ++ VL Sbjct: 272 IFIDQLELPPRTYNCLRRANIHTLLDLLNYSREDLMRIEHFGKESVEQVLEVL 324 >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 = 122 bits (306), Expect = 8e-26, Method: Compositional matrix adjust. Identities = 89/311 (28%), Positives = 164/311 (52%), Gaps = 25/311 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSKKIPHEFSTITGIQESIHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + +I +GPG VTA DI +E+++ I +L +D + +E+ Sbjct: 92 KEIVLRSNLYGTHNASICVKGPGCVTAQDIILPPSVEIIDNTQHIASLREPIDLHIGLEI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ P K N G +IDA++ P++ +++V S G + L + I T Sbjct: 152 ERNRGYCMKPPK-----NFQDGSYSIDAVFMPVRNANHSVHSYGNGNE-KQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP-----ALLKK--- 259 +GS+T ++++ ASR L D F++ EE ++++ + +LP A L+K Sbjct: 206 NGSLTPKEALHEASRNLIDLFIPFLHAEEESFHLEKNQHKITLPLFAFHDRLAKLRKNQK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +++LEL+ + NCL+ NI + DL++ ++ D++++ +F + + I G+L Sbjct: 266 EIALKSIFIDQLELAPKIYNCLKRSNIHTLWDLLKNSQEDLMKIEHFRIEDVKHIFGILK 325 Query: 312 TMGLFLGMNLP 322 F +NLP Sbjct: 326 IEKHF-TINLP 335 >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 = 122 bits (306), Expect = 8e-26, Method: Compositional matrix adjust. Identities = 86/301 (28%), Positives = 158/301 (52%), Gaps = 25/301 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKIPHEYSTIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GPG VTA DI +E+++ I NL + + L + Sbjct: 92 KEIVLRSNLYGTRNASICVKGPGCVTAQDIILPTSVEIVDNTQYIANLTEPINLCIGLQI 151 Query: 150 SKGHGYVPAKHHRT-ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + GY H +T +N G IDA++ P++ ++++ S G + L + I T+ Sbjct: 152 ERNRGY----HIKTPKNFQDGSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTN 206 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF-----NPALLKK---- 259 GS+T ++++ ASR L D F++ EE ++ + +LPF A L+K Sbjct: 207 GSLTPKEALHEASRNLIDLFIPFLHAEEENLHLENNQYKVTLPFFTFHDRLAKLRKTKKE 266 Query: 260 -------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +++ EL R+ NCL+ NI + DL+ +++ D+++M F + ++K +L + Sbjct: 267 IALKSIFIDQFELPPRTYNCLKRYNIHTLFDLLNKSQEDLMKMEYF---RIEDVKQILDS 323 Query: 313 M 313 + Sbjct: 324 L 324 >gi|262286211|gb|ACY41679.1| RNA polymerase alpha subunit [Streptococcus intermedius] Length = 140 Score = 122 bits (306), Expect = 9e-26, Method: Compositional matrix adjust. 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|156598421|gb|ABU85470.1| RNA polymerase alpha subunit [Musa acuminata] Length = 339 Score = 122 bits (305), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 92/311 (29%), Positives = 160/311 (51%), Gaps = 27/311 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + PL +G A T+G A+RR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FVLSPLMKGQADTIGIAMRRALLGEIEGTCITRANSEKVPHEYSTIIGIEESVHEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + + +I RGP VTA DI + +E+++ I NL +D + +++ Sbjct: 92 KEIVLRSNIYGVRDASICARGPKYVTAQDIISPPSVEIVDTTQHIANLTEPIDLCIGLQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G+ P T N G IDA+ P++ ++++ S G + L + I T Sbjct: 152 RRDRGYRTKP-----TTNSQNGSYPIDAVSMPVRNANHSIHSYGNGNE-KQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK--- 259 +GS+T ++++ ASR L D F++ EE KE+ N +LP F L LKK Sbjct: 206 NGSLTPKEALYEASRNLIDLFIPFLHAEEEDINFKENKNRFTLPIFTFQDRLTNLKKNKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +++ EL R+ NCL+ NI + DL+ +++ D++R+ F + ++K + Sbjct: 266 EIPLKCIFIDQSELPSRTYNCLKRSNIHTLLDLLNKSQEDLMRIEYF---RIEDVKEISD 322 Query: 312 TMGLFLGMNLP 322 T+ ++LP Sbjct: 323 TLQKHFAIDLP 333 >gi|262286213|gb|ACY41680.1| RNA polymerase alpha subunit [Streptococcus anginosus SK52] Length = 140 Score = 122 bits (305), Expect = 1e-25, Method: Compositional matrix adjust. 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|229915452|gb|ACQ90797.1| alpha subunit of RNA polymerase [Oocystis solitaria] Length = 356 Score = 122 bits (305), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 92/339 (27%), Positives = 165/339 (48%), Gaps = 45/339 (13%) Query: 24 EENRTL---MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 EEN+ I P G TL N+LRR L+S + G AI A++I+G LHE S++ GV E Sbjct: 20 EENKNFYGRFILGPFEVGQGLTLANSLRRTLLSEISGLAIVAMEIEGALHEYSNLPGVQE 79 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKR--GPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 + DI+LN+K I L + + V F + GPG+VTA D++ + I+ ++P I L Sbjct: 80 SILDILLNLKQIVLVSRFEMDQPVFGFLKVQGPGIVTASDLKLPSSIQCVDPHQYIATLS 139 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTE--------------------------NDPIGLIT 172 + + ++ V + Y+ K+ + N +++ Sbjct: 140 YNGFLSIKFFVCQKKNYIFLKNASLKKKKIYKLKKNKIQSPILEKKKSNFLINKTSNVVS 199 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDK----LSMTIDTDGSITGEDSVALASRILQDQL 228 ID + + KV+Y +E+ + ++K + + I T+GS+ ++ A++ + + Sbjct: 200 IDPNFFSVNKVNYLIETC---SLFLFEKPKEQIFLEIWTNGSLHPRQAINEAAKRIVNIF 256 Query: 229 GMF--INFEEPKK-EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLI 285 F F +P + + + ++K F + L+LS+RS CL+ NI + +L+ Sbjct: 257 SPFQETRFYKPGRLKSSKLFSLKRENFKKFTSLDIANLDLSLRSYTCLKRANIHTIDNLL 316 Query: 286 QRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 Q + ++L + NFG +SL E+ +L +GL NL D+ Sbjct: 317 QYSSEELLLLKNFGTRSLEEVLNILQQIGL----NLRDF 351 >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 = 122 bits (305), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 81/289 (28%), Positives = 152/289 (52%), Gaps = 20/289 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P +G A T+G A+RR L+ + G +IT + V+HE S++ G+ E + DI++N+K I Sbjct: 36 PFRKGQASTVGVAMRRALLGEVEGTSITYAKFKNVVHEYSTLVGIKESIHDILINLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ ++ +I GP VTAGDI +++++ I + + +EL + + Sbjct: 96 LQSDSYETQKASISILGPRDVTAGDILLPTSVKIIDASQHIATITTAIPLDVELRIERDC 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY +++ G IDAL++PI+ +Y++ S + + L + + T+GS+T Sbjct: 156 GYRTLNLKESQS---GEFFIDALFTPIRNANYSIHSFESNNKVR-EILFLEVWTNGSLTP 211 Query: 214 EDSVALASRILQDQLGMFINF---EEPKKEVKEDINVKSLPFNP-----------ALLKK 259 +++ ASR L D +F+N E K+ ++N+K+ P K+ Sbjct: 212 GAALSEASRDLIDLFIIFLNMEKEESIKEIENNELNIKNFPSTSISVDIDRMAKEVAFKQ 271 Query: 260 --VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 +++LEL R+ NCL+ + + DL++ T+ D+ ++ NFG KS+ ++ Sbjct: 272 IFIDQLELPARAYNCLKKMQVHTVSDLLKYTQYDLKKVKNFGNKSVEQV 320 >gi|300431278|gb|ADK12604.1| RNA polymerase alpha subunit [Piptochaetium montevidense] Length = 339 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 85/285 (29%), Positives = 145/285 (50%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDRAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 S+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKKLTNLKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D++++ +F Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMKIDSF 312 >gi|12372|emb|CAA33618.1| unnamed protein product [Triticum aestivum] Length = 339 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 89/285 (31%), Positives = 148/285 (51%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G + L + ++G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KLEILFLEYGSNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF 312 >gi|290489684|gb|ADD31226.1| RNA polymerase alpha subunit protein [Euonymus americanus] Length = 338 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 87/298 (29%), Positives = 160/298 (53%), Gaps = 22/298 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G +IT + + + HE S++ G+ E + ++++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTSITRAKSEKIPHEYSTVVGIQETVHELLMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GPG VTA D+ +E+++ I L +EL + Sbjct: 92 KEIVLRGNLYGIQNGSICIKGPGYVTAQDLVLPPSVEIVDNTQHIAILTEPIYFCIELQI 151 Query: 150 SKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + GY H +T N+ G IDA++ P++ +Y+++S R G + + L + I T+ Sbjct: 152 ERHRGY----HIKTPNNFQEGSFPIDAVFMPVRNTNYSIQSYRNGSEKE-EILFLEIWTN 206 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK---- 259 GS+T ++++ ASR L D F++ EE ++ D +LP F+ L LKK Sbjct: 207 GSLTPKEALHEASRNLIDLFIPFLHAEEENLHLENDWYKVTLPLFTFHDRLTKLKKNQKE 266 Query: 260 -------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL+ R+ NCL+ NI + DL+ ++ +++M +F + + I +L Sbjct: 267 MALKYIFIDQLELTSRTYNCLKRSNIHTLFDLLNKSHEYLMKMEHFHIEDVKHILNIL 324 >gi|290489662|gb|ADD31215.1| RNA polymerase alpha subunit protein [Ilex cornuta] Length = 337 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 87/309 (28%), Positives = 161/309 (52%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKIPHEYSTIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGPG VT DI +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTCDASICVRGPGYVTTQDIILPPYVEIVDNTQHIASLTEPIDLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY+ + ++ G IDA++ P++ ++++ S R G + L + I T+G Sbjct: 152 ERNRGYLIKTPNNFQD---GSYPIDAVFMPVRNANHSIHSYRNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL-PFNP----ALLKK----- 259 S+T ++++ ASR L D F++ EE ++++ + L PFN A L+K Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHMEEENLHLEDNQHTIPLPPFNFHDKLAKLRKNKKKI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R NCL+ NI + DL+ + D++++ +F + ++K +LG + Sbjct: 268 ALKSIFIDQLELPPRIYNCLKRSNIYTLLDLLNNVQEDLMKIEHF---RIEDVKQILGVL 324 Query: 314 GLFLGMNLP 322 ++LP Sbjct: 325 EKHFAIDLP 333 >gi|290489658|gb|ADD31213.1| RNA polymerase alpha subunit protein [Dillenia indica] Length = 353 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 87/309 (28%), Positives = 160/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+++G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTMRGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I RGPG VTA DI +E+++ I +L + +EL + Sbjct: 92 KEIVLRSNLYGTRNASICARGPGYVTAQDIILPPSVEIIDNTQHIASLTEPINLYIELQI 151 Query: 150 SKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + GY H +T N+ IDA++ P++ ++++ S G + L + I T+ Sbjct: 152 ERNRGY----HIKTPNNFQDESYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTN 206 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLK------- 258 GS+T ++++ ASR D FI+ E+ + ++ + + P F+ L K Sbjct: 207 GSLTPKEALHEASRNFIDLFIPFIHVEKENLYLGDNQDKDTFPLFTFHDELAKLRKNKKE 266 Query: 259 ------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL-G 311 +++LEL R NCL+ NI + DL+ ++ D++++ F R+ + +I G+L Sbjct: 267 IALKYLFIDQLELPPRIYNCLKRSNIHTLLDLLNNSQEDLMKIEYFRREDVKQIFGILEK 326 Query: 312 TMGLFLGMN 320 + FL N Sbjct: 327 HLNFFLTKN 335 >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 = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 89/311 (28%), Positives = 164/311 (52%), Gaps = 25/311 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSKKIPHEFSTITGIQESIHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + +I +GPG VTA DI +E+++ I +L +D + +E+ Sbjct: 92 KEIVLRSNLYGTHDASICVKGPGCVTAQDIILPPSVEIIDNTQHIASLREPIDLHIGLEI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ P K N G +IDA++ P++ +++V S G + L + I T Sbjct: 152 ERNRGYCMKPPK-----NFQDGSYSIDAVFMPVRNANHSVHSYGNGNE-KQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP-----ALLKK--- 259 +GS+T ++++ ASR L D F++ EE ++++ + +LP A L+K Sbjct: 206 NGSLTPKEALHEASRNLIDLFIPFLHAEEENFHLEKNQHKITLPLFAFHDRLAKLRKNQK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +++LEL+ + NCL+ NI + DL++ ++ D++++ +F + + I G+L Sbjct: 266 EIALKSIFIDQLELAPKIYNCLKRSNIHTLWDLLKNSQEDLMKIEHFRIEDVKHIFGILK 325 Query: 312 TMGLFLGMNLP 322 F +NLP Sbjct: 326 IEKHF-TINLP 335 >gi|290489694|gb|ADD31231.1| RNA polymerase alpha subunit protein [Oxalis latifolia] Length = 339 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 86/310 (27%), Positives = 163/310 (52%), Gaps = 25/310 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S++ G+ E + +I++N+ Sbjct: 34 FILSPLMKGQADTIGIAIRRALLGEIEGTCITRAKSEKIPHEYSTLAGIQESIHEILMNL 93 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + ++ +GPG VTA DI +E+++ I +L + + L + Sbjct: 94 KEIVLRSNLYGTHDASLCVKGPGYVTAQDIILPPSVEIIDNTQHIASLTEPIELCIGLQI 153 Query: 150 SKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + GY H +T N+ G IDA++ P++ ++++ S R G + L + I T+ Sbjct: 154 ERNRGY----HKKTPNNFQDGSYPIDAVFMPVRNANHSIHSYRNGNE-KQEMLFLEIWTN 208 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF-----NPALLKK---- 259 GS+T ++++ ASR L D F++ EE ++ + + +LP A L+K Sbjct: 209 GSLTPKEALHEASRNLIDLFIPFLHAEEENSHLETNQHKVTLPLFTFHDRLAKLRKIKKK 268 Query: 260 -------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +++LEL+ R NCL+ NI + DL+ ++ D++ + +F + ++K ++G Sbjct: 269 ISLKYIFIDQLELTPRIYNCLKRSNIHTLLDLLNNSQEDLMNIEHF---HIEDVKHIMGV 325 Query: 313 MGLFLGMNLP 322 + L ++LP Sbjct: 326 LENNLAIDLP 335 >gi|119662399|emb|CAJ33189.1| RNA polymerase alpha subunit [Lactobacillus equi] Length = 170 Score = 121 bits (304), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 64/159 (40%), Positives = 103/159 (64%), Gaps = 2/159 (1%) Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 ILN+K + LKM + + + I GP VTAGDI+ +D+EVLN D I + + + Sbjct: 1 ILNLKKVALKMDSEESQTLEIDVVGPLEVTAGDIKGPSDVEVLNDDLYIATVAEGHSLHV 60 Query: 146 ELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +T KG GYV A ++ +ND PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ Sbjct: 61 RMTADKGRGYVSANENKAKNDDMPIGVLAIDSIYTPIERVNYQVEKTRVGQKNDYDKLTL 120 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 + T+GSIT ++++L+++IL + L +F + + K V+ Sbjct: 121 DVWTNGSITPSEAISLSAKILTEHLTLFGDLTDEAKNVE 159 >gi|290489670|gb|ADD31219.1| RNA polymerase alpha subunit protein [Nerium oleander] Length = 337 Score = 121 bits (303), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 90/311 (28%), Positives = 159/311 (51%), Gaps = 27/311 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT V+ D V HE S+IKG+ E + +I++N+ Sbjct: 32 FILSPLLKGQADTIGIAMRRALLGEIEGTCITRVKFDKVPHEYSTIKGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGPG VTA DI +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTCDASICVRGPGYVTAQDIVLPPYVEIVDNTQHIASLMEPINLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY+ +N G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGYLIQT---PQNFQDGSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL----------KK 259 S+T ++++ ASR L D F++ EE ++ N ++P P + KK Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHMEEENSHLEN--NQHAVPLFPFIFHDKLTKLIKNKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +++LEL R NCL+ NI + DL+ ++ D++++ +F + ++K +L Sbjct: 266 EIALKSIFIDQLELPPRIYNCLKRSNIYTLLDLLNNSQEDLMKIEHF---RIEDVKQILV 322 Query: 312 TMGLFLGMNLP 322 + L + LP Sbjct: 323 ILEKHLAIFLP 333 >gi|161511751|emb|CAP16886.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus dextrinicus] Length = 138 Score = 121 bits (303), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 56/129 (43%), Positives = 90/129 (69%) 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 FEEPKKEVK 242 + K + Sbjct: 121 LSDEAKNTE 129 >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 = 121 bits (303), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 86/287 (29%), Positives = 153/287 (53%), Gaps = 24/287 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSXPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + + +I +GP +TA DI +E+++ I NL +D + +++ Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTXQPIANLTEPIDFCIDLQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G+ K+++ + PI +++ P++ V+Y++ S G ++ L + I T Sbjct: 152 KRDRGYQTELRKNYQDGSYPIXXVSM-----PVRNVNYSIFSCGNGNE-KHEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK--- 259 +GS+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 206 NGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 266 GIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >gi|228016968|gb|ACP51792.1| RNA polymerase alpha subunit [Pinus banksiana] Length = 335 Score = 121 bits (303), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 86/293 (29%), Positives = 150/293 (51%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIR-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPAL-------------L 257 +++ ASR L D F++ EE + K+ N+ P + L L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHLLTDTGETKEKIAFQL 271 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL + N LR NI + DL+ + D++R+ NFG++S+ ++ VL Sbjct: 272 IFIDQLELPPKIYNSLRRANIHTLLDLLNYSREDLMRIKNFGKESVEQVLEVL 324 >gi|58758777|gb|AAW81780.1| RNA polymerase alpha subunit [Dendroligotrichum dendroides] Length = 340 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 89/306 (29%), Positives = 155/306 (50%), Gaps = 23/306 (7%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P G A+T+G A+RR L+ + G IT + V HE S+I G+ E DI++N+K I Sbjct: 36 PFRCGQANTVGIAMRRALLGEIEGTCITCARSKKVTHEYSTIVGIQESAHDILINLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK + ++ + GP +TA DI +++++ I + + +EL + K Sbjct: 96 LKSNSYETQKAFLSILGPKKITAQDIILPPSVKIIDTTQYIATITKPIHLDIELEIDKDC 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY ++ + G +IDA++ PI+ +Y+V S + + L + I T+GSIT Sbjct: 156 GYRIXDSVKSID---GYFSIDAIFMPIRNANYSVHSFENNNKIQ-EILFIEIWTNGSITP 211 Query: 214 EDSVALASRILQDQLGMFINFEEP------KKEVKEDINVKSLPFNP---ALLKK----- 259 ++++ ASR L D F++ E+ K E K + F+P L K+ Sbjct: 212 KEALYEASRSLIDLFIPFLHTEKKETINGLKTEYKSNDMSDFSSFSPLADKLTKEIKFKH 271 Query: 260 --VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +++LEL R+ NCL+ N+ + DL+ + D +++ NFG+KS ++ VL + Sbjct: 272 IFIDQLELPARAYNCLKRVNVHPISDLLNYXQDDFMKIKNFGKKS---VEQVLEALQKQF 328 Query: 318 GMNLPD 323 +NLP+ Sbjct: 329 SINLPE 334 >gi|290489688|gb|ADD31228.1| RNA polymerase alpha subunit protein [Gunnera manicata] Length = 330 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 87/297 (29%), Positives = 158/297 (53%), Gaps = 20/297 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FIMSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK + + +I RGPG VTA DI + +E+++ I +L + ++L + Sbjct: 92 KEIILKSNIYGTRDASICVRGPGYVTAQDIISPPSVEIVDNTQHIASLTEPIDLCIQLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 K GY K T D G IDA++ P++ ++++ S G+ + L + I T+G Sbjct: 152 EKNRGY-RIKTPNTYQD--GSYPIDAVFMPVRNANHSIHSYGNGKE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF-----NPALLKK----- 259 S+T ++++ ASR L D F++ EE ++++ +LPF A L+K Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHAEEENLHLEDNQYKVTLPFFTFHDRLAKLRKNKKEI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R+ NCL+ NI + DL+ ++ D++++ +F + + +I +L Sbjct: 268 ALKSIFIDQSELPSRTYNCLKSSNIHTLLDLLNNSQEDLMKIKHFSIEDVKQILDIL 324 >gi|300431270|gb|ADK12600.1| RNA polymerase alpha subunit [Piptochaetium medium] Length = 339 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 85/285 (29%), Positives = 145/285 (50%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDRAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 S+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTCFEENKNRFTPPLFTFQKKLTNLKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D++++ +F Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMKIDSF 312 >gi|326200311|gb|ADZ52350.1| RNA polymerase alpha subunit [Asclepias syriaca] Length = 340 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 90/309 (29%), Positives = 157/309 (50%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL + A T+G A+RR L+ + G IT V+ D + HE S+IKG+ E + +I++N+ Sbjct: 32 FILSPLLKSQADTIGIAMRRALLGEIEGTCITHVKFDKIPHEYSTIKGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + I RGP VTA DI +E+++ I NL + + L + Sbjct: 92 KEIVLRSNLYEPCDAYICVRGPRSVTAQDIVLPPYVEIVDNTQHIANLTEPINLCIVLKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY+ +N P G IDA++ P++ +++V S G + L + I T+G Sbjct: 152 ERNRGYLIQT---PQNVPDGSYPIDAVFMPVRNANHSVHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN-VKSLPFN-----PALLKK---- 259 S+T ++++ ASR L D F++ EE ++ + + V PF L+K Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHMEEENSHLENNQHRVPLFPFTFHDKLTKLIKNKKEI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R NCL+ NI + DL+ ++ D++++ +F + ++K +L + Sbjct: 268 ALKSIFIDQLELPPRIYNCLKRSNIYTLLDLLNNSQEDLMKIEHF---RIEDVKQILVVL 324 Query: 314 GLFLGMNLP 322 L + LP Sbjct: 325 EKHLAIFLP 333 >gi|194132131|gb|ACF33385.1| RNA polymerase alpha subunit [Gonystylus bancanus] Length = 329 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 84/300 (28%), Positives = 156/300 (52%), Gaps = 26/300 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S I G+ E + +I++N+ Sbjct: 34 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSIIAGIQESVHEILMNL 93 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + + I +GPG VTA DI +E+++ I +L +D + +++ Sbjct: 94 KEIVLRSNLYGTRNAFICAKGPGYVTAQDIILPPSVEIVDNTQHIASLTEPIDLCIGLQI 153 Query: 148 TVSKGHGY-VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 ++G+G P H G ID ++ P++ V++++ S G + L + I Sbjct: 154 ERNRGYGIKTPNNFHD------GSYPIDVVFMPVRNVNHSIHSYGNGNE-KQEILFLEIW 206 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA----------- 255 T+GS+T ++++ ASR L D F++ EE ++ + +LPF P Sbjct: 207 TNGSLTPKEALHEASRNLIDLFIPFLHAEEENSHLENSQHKVTLPFFPFHDKLTKLRKKK 266 Query: 256 ---LLKK--VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 LK +++ EL R NCL+ NI + DL+ +++ D++++ +F R+ + +I G++ Sbjct: 267 KEIALKYFFIDQSELPPRIYNCLKTSNIHTLFDLLNKSQEDLMKIEHFHREDVKQILGII 326 >gi|150036840|emb|CAM98285.1| DNA-directed RNA polymerase alpha chain [Leuconostoc argentinum KCTC 3773] Length = 190 Score = 120 bits (302), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 63/157 (40%), Positives = 98/157 (62%), Gaps = 2/157 (1%) Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+T IILN+K + L + D + + I +GP VTA D+Q D+EVLNPD I + Sbjct: 7 EDVTQIILNLKKVVLAIDSDDERSLEIDVQGPAEVTAADLQAGADVEVLNPDLHIATVAA 66 Query: 140 DAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + M +T KG GY A ++ E PIG++ +D++Y+PI++V+Y VE+ R G D Sbjct: 67 GKSLHMTVTAVKGRGYSSADENKQLREEMPIGVLAVDSIYTPIERVNYHVENTRVGARDD 126 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 YDKL+ I T+GSI D+++L ++IL + L +F++ Sbjct: 127 YDKLTFDIWTNGSIKPSDALSLGAKILAEHLNLFMDI 163 >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 = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 91/317 (28%), Positives = 151/317 (47%), Gaps = 35/317 (11%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + P RG A T+G A+RR L+ + G +IT + GV+HE S+I G+ E + D+++N+ Sbjct: 32 FLVSPFKRGQASTVGIAMRRALLQEIEGTSITCARFCGVVHEYSTITGLQETIHDVLVNL 91 Query: 90 KGINLKMSGDSHKRVT---IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 K I L+ GDS + + + GP VTAGD+ +E ++ I + + +E Sbjct: 92 KEIVLR--GDSKEDIQEAFLSVTGPKEVTAGDLSLPPGVEAIDNSQYIATITQPISLTIE 149 Query: 147 LTVSKGHGYVPAKHHRTEN---DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 L + K GY R EN G IDA++ P++ V+Y++ G+ + L + Sbjct: 150 LEIEKDCGY------RIENLAKSGKGQFPIDAVFMPVRNVNYSIHLFGSGRATQ-EILFI 202 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN-----VKSLPFNPAL-- 256 I T+GS+T +++ AS L D L F+ + E+ KS P Sbjct: 203 EIWTNGSLTPHEALRKASEKLMDLLTTFLYVRGGDVSLFENGEDSLDLTKSPSLQPQFGD 262 Query: 257 ----------LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + +++LEL R+ NCL+ I + DL+ + D+ ++ NFGRKS+ ++ Sbjct: 263 TNNLEERVLENRFIDQLELPARAFNCLKRAEIYTIADLLNYSREDLSKLKNFGRKSVDQV 322 Query: 307 KGVLGTMGLFLGMNLPD 323 L LPD Sbjct: 323 SEALWDR---FAKELPD 336 >gi|150187079|emb|CAK30166.1| RNA polymerase alpha subunit [Streptococcus parasanguinis ATCC 15912] Length = 150 Score = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 56/128 (43%), Positives = 87/128 (67%) Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 GP VTAGDI T +DIE++NPDH + + A ++ LTV+ G GYVPA ++ ++ P+ Sbjct: 9 EGPAEVTAGDILTDSDIEIVNPDHYLFTIGEGASLKATLTVNSGRGYVPADQNKKDDAPV 68 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 G + +D++Y+P+ KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L Sbjct: 69 GTLAVDSIYTPVTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHL 128 Query: 229 GMFINFEE 236 +F N E Sbjct: 129 NLFTNLTE 136 >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 = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 85/293 (29%), Positives = 151/293 (51%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIR-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPAL-------------L 257 +++ ASR L D F++ EE + K+ N+ P + L L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHLLTDTGETKEKIAFQL 271 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL ++ N LR NI + DL+ + D++R+ +FG++S+ ++ VL Sbjct: 272 IFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMRIEHFGKESVEQVLEVL 324 >gi|300431280|gb|ADK12605.1| RNA polymerase alpha subunit [Piptochaetium napostaense] Length = 339 Score = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 84/285 (29%), Positives = 145/285 (50%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDRAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 S+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKKLTNLKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL ++ NCL+ NI + DL+ +TE D++++ +F Sbjct: 268 PLNCIFIDQLELPSKTYNCLKRANIHTLLDLLSKTEEDLMKIDSF 312 >gi|51859681|gb|AAU11120.1| RNA polymerase alpha subunit [Psathyrostachys lanuginosa] Length = 339 Score = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 89/285 (31%), Positives = 148/285 (51%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTXQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ ++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMXVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLLTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + +LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 268 PLNCIFIXQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 312 >gi|161511743|emb|CAP16882.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 158 Score = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 62/154 (40%), Positives = 96/154 (62%), Gaps = 2/154 (1%) Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ IC + Sbjct: 1 TQIILNLKKVSLKVESDEEKSLEINVMGPANVTAGDIVGDGDVTILNPELPICTVAEGTT 60 Query: 143 VRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 LT KG GY A + R + PIG++ ID++Y+PI++V+Y VE+ R GQ DYDK Sbjct: 61 FHAVLTAEKGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDK 120 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 L++ + TDGS+ ++++L+++IL + L +F+ Sbjct: 121 LTLDVWTDGSLAASEAISLSAKILTEHLXIFVTL 154 >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 = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 91/312 (29%), Positives = 161/312 (51%), Gaps = 31/312 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L++ + G IT V+ HE S+I G+ E + +I +N+ Sbjct: 32 FILSPLRKGQADTIGIAMRRALLAEIEGTRITRVKFAKASHEYSTIAGIQESVHEIFMNL 91 Query: 90 KGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K I L+ + G ++I +GPG VTA DI +E+++ I L + + L Sbjct: 92 KEIVLRSNLYGTCDASISI--KGPGHVTAKDIILPPHVEIVDSTQHIAWLTEPIDLCIGL 149 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES-AREGQVLDYDKLSMTID 206 + + GY H E+ G IDA++ P++ ++++ S E Q + L + I Sbjct: 150 KIERNRGYFIKTHPNFED---GSYPIDAVFMPVRNANHSIHSYGNEKQEI----LFLEIW 202 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL-PFN----PALLKK-- 259 T+GS+T ++++ ASR L D F++ EE +++ + SL PF A L+K Sbjct: 203 TNGSLTPKEALHEASRNLIDLFIPFLHMEEENLHLEDADHTISLSPFTVYDKVAKLRKNK 262 Query: 260 ---------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LE + NCL+ NI + DL+ ++ D++++ +F L ++K +L Sbjct: 263 KKRSLESIFIDQLEFPPKIYNCLKKSNIFTLLDLLNNSQEDLIKIEHF---RLEDVKQIL 319 Query: 311 GTMGLFLGMNLP 322 G +G ++LP Sbjct: 320 GILGKHFALDLP 331 >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 = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 85/293 (29%), Positives = 151/293 (51%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIR-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPAL-------------L 257 +++ ASR L D F++ EE + K+ N+ P + L L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHLLTDTGETKEKIAFQL 271 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL ++ N LR NI + DL+ + D++R+ +FG++S+ ++ VL Sbjct: 272 IFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMRIEHFGKESVEQVLEVL 324 >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 = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 87/311 (27%), Positives = 165/311 (53%), Gaps = 27/311 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ++RR L+ + G IT + D V HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGISMRRALLGEIEGTCITRAKFDKVTHEYSTIVGIEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + +I RGP VTA DI + +E+++ I NL +D + +++ Sbjct: 92 KEIVLRSNLYGTLDASICVRGPRSVTAQDIISPPSVEIVDTTQHIANLTEPIDLCIGLQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G+ +++ + P ID ++ P++ ++++ S G + L + I T Sbjct: 152 ERDRGYRLKTPNNYQDGSYP-----IDTVFMPVRNANHSIHSYGNG-TEKQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK--- 259 +GS+T ++++ ASR L + F++ EE + +++ N+ ++P F+ L LKK Sbjct: 206 NGSLTPKEALYEASRNLINLFIPFLHAEEQEILLEDSENISTVPLFTFHNELANLKKNKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +++LEL R+ NCL+ NI + DL+ ++ D++R+ +F + ++K +L Sbjct: 266 GIALKCIFIDQLELPSRTYNCLKRSNIHTLFDLLSNSKEDLMRIEHF---RVEDVKQILD 322 Query: 312 TMGLFLGMNLP 322 + MNLP Sbjct: 323 ILQKNFAMNLP 333 >gi|290489702|gb|ADD31235.1| RNA polymerase alpha subunit protein [Trochodendron aralioides] Length = 337 Score = 120 bits (301), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 88/310 (28%), Positives = 158/310 (50%), Gaps = 25/310 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTIVGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGPG VTA DI + +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTLDASICVRGPGYVTAQDIISPPSVEIVDATQHIASLTEPIDLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + N G IDA++ P++ S+++ S G + L + I T+G Sbjct: 152 ERNRGY---RMKTPNNSQDGSYPIDAVFMPVRNASHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL------ 263 S+T ++++ ASR L D F++ EE +++++ N SLPF A ++ L Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHAEEESIKLEDNQNGISLPFF-AFHDRLANLKKKKKE 266 Query: 264 -----------ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 EL R+ NCL+ NI + DL+ ++ D++++ +F + ++K +L Sbjct: 267 IAFKCIFIDQSELPPRTYNCLKRSNIYTLLDLLNNSQEDLMKIDHF---HIEDVKQILDI 323 Query: 313 MGLFLGMNLP 322 + ++LP Sbjct: 324 LQKHFSIDLP 333 >gi|225544155|ref|YP_002720144.1| rpoA [Jatropha curcas] gi|224979596|gb|ACN72723.1| rpoA [Jatropha curcas] Length = 339 Score = 120 bits (300), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 87/311 (27%), Positives = 163/311 (52%), Gaps = 25/311 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEFSTIAGIQESIHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL--DVDAVVRMEL 147 K + LK + +I+ +GPG VTA DI +E+++ I +L +D + +++ Sbjct: 92 KNVVLKSNLYGTCDASIYVKGPGYVTAQDIILPPFVEIIDNTQHIASLTESIDLCIGLQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ P T N G IDA++ P++ +++V S G + L + I T Sbjct: 152 ERNRGYRIKP-----TNNFQDGSYPIDAVFMPVRNANHSVHSYGNGNE-KQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLK------ 258 +GS+T ++++ ASR L D F++ EE ++ + + +LP F+ L K Sbjct: 206 NGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLEINQHKVTLPLFTFHGRLTKLRKNQK 265 Query: 259 -------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +++ EL+ ++ NCL+ NI + DL+ +++ D++++ NF + I G+L Sbjct: 266 EIALKYIFIDQSELTPKTYNCLKRSNIHTLSDLLNKSQEDLMKIENFRIDDVKHILGILE 325 Query: 312 TMGLFLGMNLP 322 F ++LP Sbjct: 326 IEKHF-AIDLP 335 >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 = 120 bits (300), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 90/301 (29%), Positives = 156/301 (51%), Gaps = 36/301 (11%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 +PL RGFA+TLGN+LRR ++SS+ A+ V+I+GV HE S I V ED+ I+ N+K + Sbjct: 27 QPLERGFANTLGNSLRRTILSSVPSVAVFGVKIEGVEHEFSVIDKVREDVVTILNNLKKL 86 Query: 93 NLKMSGD----SHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 + + +V F R G +T DI + +E++N D V+ N ++ E+ Sbjct: 87 RFSFKKEVFLQNEIQVASFDGRKVGKITGADILVNSALEIVNKDQVVANTSEVGALKFEM 146 Query: 148 TVSKGHGYVPAKHHRTENDPIG-----------LITIDALYSPIKKVSYTVESAREGQVL 196 ++ G G+V + ++ + +G +I +D+ +S ++ V ++ + Sbjct: 147 FLTYGRGFVDFETNKRKIQELGPALESKLGYGQIIAVDSDFSAVENVKFSSTELNSSNPI 206 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN-----------FEEPKKEVKEDI 245 +KL+ ++ TDG+I +D++A A++IL L + + FEE K+ KE+ Sbjct: 207 VEEKLTFSVKTDGTILAKDALAEAAKILIAHLKLVSDTANLDAEVDSFFEEVKQ--KEEA 264 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 K N A L L+L+VRS N LR + DL++ T ++ + N G+KS+ E Sbjct: 265 PKK----NSADLTT---LDLTVRSLNALRRAQYYKISDLLELTLEELENIKNLGKKSVEE 317 Query: 306 I 306 I Sbjct: 318 I 318 >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 = 120 bits (300), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 88/285 (30%), Positives = 147/285 (51%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL+ R+ NC + + DL+ +TE D+LR+ +F Sbjct: 268 PLNCIFIDQLELTSRTYNCXKRXXXXTLLDLLSKTEEDLLRIDSF 312 >gi|165910449|gb|ABY73979.1| RNA polymerase alpha subunit [Cuscuta lupuliformis] Length = 335 Score = 120 bits (300), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 91/312 (29%), Positives = 161/312 (51%), Gaps = 31/312 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L++ + G IT V+ HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIALRRALLAEIEGTRITRVKFANASHEYSTIAGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I +GPG VTA DI +EV++ I L + + L + Sbjct: 92 KEIVLRSNLYGTCDASISIKGPGYVTAEDIILPPHVEVVDSTQHIAWLMEPIDLCIGLKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES-AREGQVLDYDKLSMTIDTD 208 + GY H E+ G IDA++ P++ ++++ S E Q + L + I T+ Sbjct: 152 ERNRGYFLKTHANFED---GSYPIDAVFMPVQNANHSIHSYGNEKQEI----LFLEIWTN 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP-------ALLKK-- 259 GS+T ++++ ASR L D F++ E+ + ED + +++P +P A L+K Sbjct: 205 GSLTPKEALHEASRNLIDLFIPFLHIEKENLHL-EDAD-RTIPLSPFTVYDKVAKLRKNK 262 Query: 260 ---------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LE NCL+ NI + DL+ ++ D++++ +F L ++K +L Sbjct: 263 KKLALESLFIDQLEFPPNIYNCLKKSNIFTLLDLLNNSQEDLMKIEHF---RLEDVKQIL 319 Query: 311 GTMGLFLGMNLP 322 G +G ++LP Sbjct: 320 GILGKHFALDLP 331 >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 = 120 bits (300), Expect = 4e-25, Method: Compositional matrix adjust. 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|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 = 120 bits (300), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 84/293 (28%), Positives = 150/293 (51%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLHKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 + + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 FRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIR-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPAL-------------L 257 +++ ASR L D F++ EE + K+ N+ P + L L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTDTGETKEKIAFQL 271 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL ++ N LR NI + DL+ + D++R+ +FG++S+ ++ VL Sbjct: 272 IFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMRIEHFGKESVEQVLEVL 324 >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 = 120 bits (300), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 86/287 (29%), Positives = 147/287 (51%), Gaps = 13/287 (4%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINL--- 94 G+A TL + LRR L+ S G A ++++GV HE S++G+ ED+ I N+K I L Sbjct: 34 GYAITLAHPLRRFLLLSSVGYAPIGIKVEGVNHEFDSLRGISEDMALFIANLKNIRLVGK 93 Query: 95 KMSGDSHKRVTIFK--RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 + + +V + +GP ++ D++ +I V+N D + ++ DA + L V KG Sbjct: 94 HLDSAQNDQVVVHYTFKGPAKLSGKDLEN-EEISVVNHDAYLATINEDAHLEFSLIVQKG 152 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYVP++ R I +DA ++PIKKV Y +E+ +++KL I++DG + Sbjct: 153 MGYVPSESIRGYISS-DYIPLDAYFTPIKKVVYNIENMLVDGNPNFEKLIFEIESDGQVD 211 Query: 213 GEDSVALASRILQDQLGMF-INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTN 271 + + A R + Q+ +F N + K + ++ LL ++E L LS R N Sbjct: 212 PQRAFQEAIRTMNAQMHIFNTNIADYKGNAHLEEGLER-----DLLMEIEGLNLSARCFN 266 Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 CL + Y+G+L+ ++ + N G+KS EI L +G +G Sbjct: 267 CLDKIGLKYVGELVLMDAYELKNIKNLGKKSYDEIAEKLEGLGYPVG 313 >gi|54144446|dbj|BAD60947.1| DNA-dependent RNA polymerase alpha subunit [Sphagnum girgensohnii] Length = 341 Score = 120 bits (300), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 93/311 (29%), Positives = 158/311 (50%), Gaps = 35/311 (11%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P G A+T+G A+RR L+ + G IT + + V HE S+I G+ E + DI++N+K I Sbjct: 37 PFRSGQANTVGIAVRRALLGGVEGTCITRAKSEKVTHEYSTILGIQESVRDILINLKEIV 96 Query: 94 LKMSGDSHKRVTIFKR--GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 LK +S + F GP VTA DI +EV++ I L + +EL + K Sbjct: 97 LKSKSNSCETQKAFLSIFGPKEVTARDIVFPPSVEVIDTTQYIATLTKAIHLDIELKIEK 156 Query: 152 GHGYVPAKHHRTEN---DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 GY RT++ G ++DA+++PI+ +Y+V S E + + L + I T+ Sbjct: 157 DCGY------RTQDSIKSADGYFSVDAVFTPIRNANYSVHSF-ENKNETQEILFIEIWTN 209 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEV-------KEDINVKSLPFNPALLKK-- 259 GS+T ++++ ASR L D +FI F +KE K + N +P+ K Sbjct: 210 GSVTPKEALYEASRSLID---LFIPFLHAEKEEVMHGLGNKNESNTLHFSSSPSENKMEK 266 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +++LEL R+ NC + ++ + DL+ ++ D++++ NFG+KS ++ VL Sbjct: 267 EMTFKHIFIDQLELPARAYNCPKRVDVHTISDLLSYSQDDLMKIKNFGKKS---VEQVLE 323 Query: 312 TMGLFLGMNLP 322 + + LP Sbjct: 324 ALQKRFSIKLP 334 >gi|228016017|gb|ACP50856.1| RNA polymerase alpha subunit [Pinus resinosa] Length = 335 Score = 120 bits (300), Expect = 4e-25, Method: Compositional matrix adjust. Identities = 84/293 (28%), Positives = 150/293 (51%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 + + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 FRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIR-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPAL-------------L 257 +++ ASR L D F++ EE + K+ N+ P + L L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTDTGETKEKIAFQL 271 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL ++ N LR NI + DL+ + D++R+ +FG++S+ ++ VL Sbjct: 272 IFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMRIEHFGKESVEQVLEVL 324 >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 = 119 bits (299), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 92/311 (29%), Positives = 161/311 (51%), Gaps = 36/311 (11%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G A+T+G A+RR L+ + G IT V+ + V HE S+I G+ E + DI++N+K I Sbjct: 36 PLRPGQANTVGIAIRRALLGEIEGTCITYVKFEKVTHEYSTIMGIQESVHDILINLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK + + +I GP VTA DI + +EV++ I + ++L + K Sbjct: 96 LKSNSYKTQEASISILGPKRVTAEDIVLPSSVEVIDATQHIATITKAVYFNIKLGIRKDR 155 Query: 154 GYVPAKHHRTENDPI----GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 GY R EN P+ G ++A ++PI+ +Y+V S E + + L + + T+G Sbjct: 156 GY------RIEN-PVKYEDGNFAVNAAFTPIRNANYSVHSF-ENEKEKQEILFIEVWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEV-------KEDINVKSLPF---NPALLKK 259 S+T ++++ AS Q + +FI KKE K++ NV F N ++K Sbjct: 208 SLTPKEALREAS---QSLINLFIPLLHEKKERENRKLENKDEYNVLRSCFSLTNIGEVRK 264 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +++LEL R+ N L+ ++ + DL+ ++ D++++ NFG+KS I+ V+ Sbjct: 265 EISFKHIFIDQLELPARAYNGLKKVDVHTISDLLNYSQEDLMKIKNFGKKS---IQQVVE 321 Query: 312 TMGLFLGMNLP 322 + ++LP Sbjct: 322 ALQKHFAIHLP 332 >gi|300431314|gb|ADK12620.1| RNA polymerase alpha subunit [Pappostipa vaginata] Length = 319 Score = 119 bits (299), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 85/285 (29%), Positives = 143/285 (50%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A +G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 12 FILSPLRKGQADPVGIALRRALLXEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 71 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+ + I NL + +EL + Sbjct: 72 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIXDTAQPIANLTEPIDLCIELQI 131 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y++ S G + L + I T+G Sbjct: 132 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KPEILFLEIWTNG 187 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 S+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 188 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKKLTNLKKNKKGI 247 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 248 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 292 >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 = 119 bits (299), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 86/293 (29%), Positives = 151/293 (51%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT +++ V HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGQASTIGIAMRRALLGEIEGTCITHAKLEKVTHEYSAIIGIEESVHDILINLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I GP VTA DI + +++ I +L + L + K Sbjct: 96 LRSDPYGTREASICIVGPRNVTAQDIILPPSVRIIDATQHIASLTKSITFDIRLWIEKDR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY + +N G+ IDA++ P++ +Y++ S G + + L + I T+GS+ Sbjct: 156 GY---RIQSPKNYQDGIFPIDAVFMPVRNANYSIHSYGNGNDIQ-EILFLEIWTNGSLAP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-FN----PALLKKVEE------ 262 +++ ASR L D F+ EE + ++ N ++P F+ A ++++EE Sbjct: 212 REALYRASRNLIDLFIPFLRAEEQNIDGMDNQNGSNMPSFSFSNISADMERMEEEVAFKH 271 Query: 263 -----LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 EL R NCL NI + DL+ ++ D++R+ +FG+KS+ ++ VL Sbjct: 272 IFIDQSELPPRVYNCLGRVNIHTLSDLLNYSQEDLMRIGHFGKKSVEQVSEVL 324 >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 = 119 bits (298), Expect = 6e-25, Method: Compositional matrix adjust. 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|290489668|gb|ADD31218.1| RNA polymerase alpha subunit protein [Nelumbo nucifera] Length = 339 Score = 119 bits (298), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 85/311 (27%), Positives = 160/311 (51%), Gaps = 25/311 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTIVGIEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + I RGPG VTA DI + +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTRDAFICVRGPGYVTAQDIISPPSVEIVDTTQHIASLTEPIDLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + N G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGY---RMKTPNNSQDGSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF-----NPALLKK----- 259 S+T ++++ ASR L D F++ +E +++++ N +LPF L+K Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLDAQEEDIQLEDNQNKVTLPFFTFHDRLTKLRKNKKEK 267 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +++ EL R+ NCL+ NI + DL+ ++ D+++M +F + ++K +L Sbjct: 268 EIALKCIFIDQSELPPRTYNCLKRSNIHTLLDLLNNSQEDLMKMFHF---QIEDVKQILD 324 Query: 312 TMGLFLGMNLP 322 + ++LP Sbjct: 325 ILQKHFAIDLP 335 >gi|228017724|gb|ACP52536.1| RNA polymerase alpha subunit [Pinus pinaster] Length = 335 Score = 119 bits (298), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 84/293 (28%), Positives = 149/293 (50%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 + + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 FRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIR-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPAL-------------L 257 +++ ASR L D F++ EE + K+ N+ P + L L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTDTGETKEKIAFQL 271 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL ++ N LR NI + DL+ + D++R+ FG++S+ ++ VL Sbjct: 272 IFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMRIERFGKESVEQVLEVL 324 >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 = 119 bits (298), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 97/316 (30%), Positives = 155/316 (49%), Gaps = 35/316 (11%) Query: 28 TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIIL 87 T I +PL +G A TLG A+RRVL+SS+ A AV+I GV HE +I V ED+ I+L Sbjct: 22 TSFIVQPLEKGLATTLGTAIRRVLLSSISSVAPFAVKIKGVEHEFMAINKVTEDVPQILL 81 Query: 88 NIKGINLKMSGDSHKRVTIFKRG-PGVVTAGDIQTVNDI-----EVLNPDHVICNLDVDA 141 ++ I + + + + I+K AGDI + I E++NP +I Sbjct: 82 RLRDIKIAYNPEIFEDGKIYKLSLKSNKEAGDIYAKDFILPIGAEIVNPGLLIATTAAAN 141 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIG-----------LITIDALYSPIKKVSYTVESA 190 V+ +++ V G GYV + ++ D I I +D+ +SPI+KVS++ Sbjct: 142 VLEIDVFVRAGRGYVDFEENKKYIDEIKTNLTSSISNGQYIAVDSNFSPIEKVSFSSSEL 201 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF--IN-------FEEPKKEV 241 V+ +KL M I T G+I ++++A A++IL L + +N FEE E Sbjct: 202 NTSSVIVQEKLEMEIVTKGTIDAKNAIAQAAKILVAHLNIIGDVNSLNIKDIFEEGNTE- 260 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 KE +++ ++ L+LS+RS N L+ N + L + D+ + N G K Sbjct: 261 KEHSKTQNIL--------IQSLDLSIRSFNALKRANYTTVQQLEALSLDDLKNIKNLGEK 312 Query: 302 SLVEIKGVLGTMGLFL 317 S+ EI L +FL Sbjct: 313 SINEIVEKLEKYNVFL 328 >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 = 119 bits (298), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 59/109 (54%), Positives = 76/109 (69%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 AEP RGF T+GN+LRRVL+SSL GAA+T+V+I+G HE S++ GV ED+T IILNI Sbjct: 28 FTAEPFERGFGTTVGNSLRRVLLSSLTGAAVTSVKIEGAFHEFSTLPGVTEDVTIIILNI 87 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 K + LK+ D K + + K+GPG V A DIQ DI +LNP+ I LD Sbjct: 88 KNLRLKLHTDKSKAMQLKKKGPGKVRAADIQHDADITILNPELHIATLD 136 >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 = 119 bits (298), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 94/329 (28%), Positives = 166/329 (50%), Gaps = 28/329 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ++RR L+ + G IT + + + HE S++ G+ E + DI++N+ Sbjct: 32 FILSPLMKGQADTIGISMRRALLGEIEGTCITRAKSEKIPHEYSTLVGIQESVHDILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGPG VTA DI +EV++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTCDASICVRGPGYVTAQDIILPPYVEVVDNTQHIASLTEPIELCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK---LSMTID 206 + GY+ + D G IDA++ P++ ++++ S G DK L + I Sbjct: 152 ERNRGYLIKTPNNNSKD--GSYPIDAVFMPVRNANHSIHSYGNGN----DKQEILFLEIW 205 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK-- 259 T+GS+T ++++ ASR L D F++ EE + + ++ LP F+ L L+K Sbjct: 206 TNGSLTPKEALHEASRNLIDLFIPFLHTEEENLHLANNQHMVPLPPFTFHDKLDKLRKNK 265 Query: 260 ---------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R NCL+ NI + DL+ ++ D++++ +F K ++K +L Sbjct: 266 KKRALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDLMKIEHFRIK---DVKQIL 322 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYEDK 339 G + +NL P E LA+ + K Sbjct: 323 GILEKNFSINLGKKPKMGFESLAQLIDSK 351 >gi|57115498|gb|AAW33058.1| RNA polymerase alpha subunit [Plantago rugelii] Length = 308 Score = 119 bits (298), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 85/298 (28%), Positives = 154/298 (51%), Gaps = 24/298 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + PL +G A T+G A+RR L+ ++G IT V+ + V HE S+I G+ E + +I++N+ Sbjct: 17 FVLSPLMKGQADTIGIAMRRALLGEIQGTCITRVKSENVPHEYSTIAGIQESVPEILMNL 76 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGPG VTA DI +E+ + I L + L + Sbjct: 77 KEIVLRSNLYGTCGASICARGPGYVTAQDIILPPCVEIGDNTQHIARLTEPISFCIGLEI 136 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES-AREGQVLDYDKLSMTIDTD 208 + GY+ H ++ IDA++ P++ V++++ S E Q + L + I T+ Sbjct: 137 ERSRGYLIKSPHIFQDRS---YPIDAVFMPVRNVNHSIHSYGNEKQEI----LFLEIWTN 189 Query: 209 GSITGEDSVALASRILQDQLGMFINFEE---PKKEVKEDINVKSLPFNPAL--LKK---- 259 GS+T ++++ ASR L D F++ EE P + ++ ++ F+ L +K Sbjct: 190 GSLTPKEALHEASRNLIDLFIPFLHKEEENLPLENNQDTVSFSPFSFHEKLDQFRKNKKK 249 Query: 260 -------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ ELS R NCL+ NI + D + +++ D+++M +F + L + G+L Sbjct: 250 KALQSIFIDQFELSPRVYNCLKKSNIYTLFDFLTKSQEDLMKMEHFRLEDLKQTLGIL 307 >gi|290489680|gb|ADD31224.1| RNA polymerase alpha subunit protein [Bulnesia arborea] Length = 352 Score = 119 bits (297), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 86/301 (28%), Positives = 159/301 (52%), Gaps = 28/301 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + PL +G A T+G A+RRVL+ + G +IT+ + + + HE SSI GV E + +I++N+ Sbjct: 32 FLLSPLKKGQADTIGIAMRRVLLGEIEGTSITSAKSENIPHEYSSIVGVEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ +I +GPG VTA DI + +E+++ I NL +D +R+++ Sbjct: 92 KEIVLRSHLYGICDASICVKGPGCVTAQDIILPSYVEIVDNTQHIANLTEPIDFCIRLQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ + G+ IDA++ P++ ++++ S G + L + I T Sbjct: 152 ERNRGYRIKTPNQFQE-----GIYPIDAVFMPVRNANHSIHSYGNGSETQ-EILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-------FNPALLKK- 259 +GS+T ++++ ASR L D F++ EE ++ + N +LP FN +KK Sbjct: 206 NGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLENNQNKYTLPLFSFHDQFNQ--IKKN 263 Query: 260 ----------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 +++LEL+ + NCL+ NI + DL+ + D++R+ +F + + I + Sbjct: 264 QKEIEFKSIFIDQLELTPKIYNCLKRSNIHTLFDLLNNRKEDLMRIEHFRIEDINHIFHI 323 Query: 310 L 310 L Sbjct: 324 L 324 >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 = 119 bits (297), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 85/299 (28%), Positives = 156/299 (52%), Gaps = 24/299 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT V+ + V HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRVKSEKVPHEYSTITGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I +GPG VTA DI +E+++ I +L + L + Sbjct: 92 KEIVLRSNLYGTSDASICVKGPGYVTAQDIILPPYVEIVDNTQHIASLTEPIDFCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY+ H ++ G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGYLIKTPHNFQD---GSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFIEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP--------ALLKK-- 259 S+T ++++ ASR L D F++ EE +++ N ++P +P L+K Sbjct: 208 SLTPKEALHDASRNLIDLFIPFLHMEEDNLYLQD--NQHTVPLSPFTFHDKLAKLIKNKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ ELS R NCL+ NI + DL+ ++ D++++ +F + + +I G+L Sbjct: 266 KIALKSIFIDQSELSSRIYNCLKMSNIYTLLDLLNNSQEDLMKIEHFRSEDIKQILGIL 324 >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 = 119 bits (297), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 85/293 (29%), Positives = 150/293 (51%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIR-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPAL-------------L 257 +++ ASR L D F++ EE + K+ N+ P + L L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHLLTDTGETKEKIAFQL 271 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL + N LR NI + DL+ + D++R+ +FG++S+ ++ VL Sbjct: 272 IFIDQLELPPKIYNSLRRANIHTLLDLLNYSREDLMRIKHFGKESVEQVLEVL 324 >gi|228016715|gb|ACP51543.1| RNA polymerase alpha subunit [Pinus aristata] Length = 335 Score = 119 bits (297), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 83/293 (28%), Positives = 150/293 (51%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H + N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIQ-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALLKK----------- 259 +++ ASR L D F++ EE + K+ N+ P + L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNKKKGSNMLPFPLSHVLTDTGETKEKIAFQH 271 Query: 260 --VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL ++ N LR NI + DL+ + D++R+ + G++S+ ++ VL Sbjct: 272 IFIDQLELPPQTYNSLRRANIHTLLDLLNYSREDLMRIEHLGKESVEQVLEVL 324 >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 = 119 bits (297), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 86/297 (28%), Positives = 158/297 (53%), Gaps = 21/297 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + PL +G A T+G A+RR L+ L G IT + D V HE S++ G+ E + +I++N+ Sbjct: 32 FVLSPLMKGQADTIGIAMRRALLGELEGTCITRAKSDKVPHEYSTVVGIEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + + +I RGP VTA DI + +E+++ I L + +EL + Sbjct: 92 KKMVFRSDLYGTLDASICVRGPRHVTAQDIISPPSVEIVDTTQHIAVLTEPVDLCIELKI 151 Query: 150 SKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 +G GY RT+N+ G IDA+ P++ ++++ S G + L + I T+ Sbjct: 152 ERGRGYCT----RTQNNYQDGSYPIDAVSMPVRNANHSIHSYGNGNE-KQEILFLEIWTN 206 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEP--KKEVKEDINVKSLPF-----------NPA 255 GS+T ++++ ASR L D F++ EE + +++++ S+PF Sbjct: 207 GSLTPKEALYEASRNLIDLFIPFLHAEEQDINRNMEDNLKRASVPFFAFDDGLDNIKREI 266 Query: 256 LLKK--VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +LK+ +++LEL R+ NCL+ NI + DL+ +++ D++R+ +F + + +I +L Sbjct: 267 ILKRIFIDQLELPPRTYNCLKRSNIHTLLDLLSKSQEDLMRIEHFRVEDVKQIFDIL 323 >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 = 119 bits (297), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 83/293 (28%), Positives = 150/293 (51%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIKESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H + N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHSYGNGNEIQ-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALLKK----------- 259 +++ ASR L D F++ EE + K+ N+ P + L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNKKKGSNMLPFPLSHVLTDTGETKEKIAFQH 271 Query: 260 --VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL ++ N LR NI + DL+ + D++R+ + G++S+ ++ VL Sbjct: 272 IFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMRIEHLGKESVEQVLEVL 324 >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 = 119 bits (297), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 83/293 (28%), Positives = 150/293 (51%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H + N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIQ-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALLKK----------- 259 +++ ASR L D F++ EE + K+ N+ P + L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNKKKGSNMLPFPLSHVLTDTGETKEKIAFQH 271 Query: 260 --VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL ++ N LR NI + DL+ + D++R+ + G++S+ ++ VL Sbjct: 272 IFIDQLELPPQTYNSLRRANIHTLLDLLNYSREDLMRIEHLGKESVEQVLEVL 324 >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 = 119 bits (297), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 84/297 (28%), Positives = 157/297 (52%), Gaps = 20/297 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + I +GPG VTA DI +E+++ I +L +R+ L + Sbjct: 92 KEIVLRSNLYGTRDAFICVKGPGYVTAQDIVLPPSVEIVDNTQHIASLTEPIDLRIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGYGIKTPNNFQD---GSYPIDAVFMPVQNANHSIHSYGTGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP-----ALLKK----- 259 S+T ++++ ASR L + F++ EE K ++ + + +LPF P A L+K Sbjct: 208 SLTPKEALHEASRNLINLFIPFLHAEEEKFYLENNQHKVTLPFFPFHDRLAKLRKKKTEI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R NCL+ NI + DL+ ++ D++++ +F + + +I +L Sbjct: 268 AFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLMKIEHFRTEDVKQILSIL 324 >gi|290489698|gb|ADD31233.1| RNA polymerase alpha subunit protein [Quercus nigra] Length = 331 Score = 119 bits (297), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 86/297 (28%), Positives = 152/297 (51%), Gaps = 20/297 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAVRRALLGEIEGTCITRAKSEKIPHEYSTIIGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I +GP VTA DI +++++ I NL + +EL + Sbjct: 92 KEIVLRSNLYGISGASICVKGPRYVTAQDIILPPSVQIVDNTQHIANLTEPINLYIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + T N G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERDRGY---RIKTTNNSQDGSYPIDAVFMPVRNANHSIHSYVNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF-----NPALLKK----- 259 S+T ++++ ASR L + F++ EE K ++ + +LPF A L K Sbjct: 208 SLTPKEALHEASRNLIELFIPFLHAEEEKLHLENNQQKVTLPFFTCHDRLAKLNKNSTEI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R NCL+G NI + DL+ ++ D ++M +F R+ + I +L Sbjct: 268 ALKSIFIDQSELPPRIYNCLKGSNIHTLLDLLNNSQTDFMKMKHFRREDIKHILDIL 324 >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 = 119 bits (297), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 86/297 (28%), Positives = 152/297 (51%), Gaps = 20/297 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAVRRALLGEIEGTCITRAKSEKIPHEYSTIIGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I +GP VTA DI +++++ I NL + +EL + Sbjct: 92 KEIVLRSNLYGISGASICVKGPRYVTAQDIILPPSVQIVDNTQHIANLTEPINLYIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + T N G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERDRGY---RIKTTNNSQDGSYPIDAVFMPVRNANHSIHSYVNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF-----NPALLKK----- 259 S+T ++++ ASR L + F++ EE K ++ + +LPF A L K Sbjct: 208 SLTPKEALHEASRNLIELFIPFLHAEEEKLHLENNQQKVTLPFFTCHDRLAKLNKNSTEI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R NCL+G NI + DL+ ++ D ++M +F R+ + I +L Sbjct: 268 TLKSIFIDQSELPPRIYNCLKGSNIHTLLDLLNNSQTDFMKMKHFRREDIKHILDIL 324 >gi|290489682|gb|ADD31225.1| RNA polymerase alpha subunit protein [Cornus florida] Length = 337 Score = 119 bits (297), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 84/299 (28%), Positives = 159/299 (53%), Gaps = 24/299 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIQHEYSTIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + +I +GPG VTA DI + +E+++ I +L +D + +++ Sbjct: 92 KEIVLRSTLYGTCDASICVKGPGYVTAQDIISPPYVEIVDNTQYIASLTEPIDLCIGLQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ P + + N P IDA++ P++ ++++ S G + L + I T Sbjct: 152 ERNRGYRIKPPNNFQDGNYP-----IDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLK------ 258 +GS+T ++++ ASR L D F++ EE ++++ + +LP F+ L K Sbjct: 206 NGSLTPKEALHEASRNLIDLFIPFLHTEEENLHLEDNQHKVTLPTFTFHDKLAKLRKNKK 265 Query: 259 -------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ ELS R NCL+ NI + DL+ ++ D+++M +F + + EI +L Sbjct: 266 KIAFKYIFIDQSELSPRIYNCLKRSNIYTLLDLLNNSQEDLMKMKDFRIEDVKEILDIL 324 >gi|296936704|gb|ADH94376.1| RNA polymerase alpha subunit [Syzygium cumini] Length = 337 Score = 119 bits (297), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 84/301 (27%), Positives = 158/301 (52%), Gaps = 25/301 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKIPHEYSTIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GPG VTA DI +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTRNASICVKGPGCVTAQDIILPTSVEIVDNTQYIASLTEPINLCIGLQI 151 Query: 150 SKGHGYVPAKHHRT-ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + GY H +T +N G IDA++ P++ ++++ S G + L + I T+ Sbjct: 152 ERNRGY----HIKTPKNFQDGSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTN 206 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLK------- 258 GS+T ++++ ASR L D F++ EE ++ + +LP F+ L+K Sbjct: 207 GSLTPKEALHEASRNLIDLFIPFLHAEEENLHLENNQYKVTLPLFTFHDRLVKLRKTKKE 266 Query: 259 ------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +++ EL R+ NCL+ NI + DL+ +++ D+++M F + ++K +L + Sbjct: 267 IALKSIFIDQFELPPRTYNCLKRYNIHTLFDLLNKSQEDLMKMEYF---RIEDVKQILNS 323 Query: 313 M 313 + Sbjct: 324 L 324 >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 = 119 bits (297), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 90/309 (29%), Positives = 160/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + V HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLLKGQADTIGIAMRRALLGEIEGTCITRAKSEKVPHEYSTIAGIEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I RGP VTA DI + +EV++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTRDASICVRGPRCVTAQDIISPPSVEVVDTTQHIASLTEPIDLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + T+N G IDA+ P++ ++++ S G + L + I T+G Sbjct: 152 QRDRGY---RMKTTKNSQDGSYPIDAVSMPVRNANHSIHSYGNGNQ-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N ++P F L LKK Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHAEEEDINFEENQNRFTVPPFTFPDRLANLKKNKKEI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++ EL R+ NCL+ NI + DL+ ++ D++++ F + ++K +L T+ Sbjct: 268 ALKCIFIDQSELPPRTYNCLKRSNIHTLLDLLSNSQEDLMKIEYF---RIEDVKQILDTL 324 Query: 314 GLFLGMNLP 322 ++LP Sbjct: 325 QKHFAIDLP 333 >gi|228017468|gb|ACP52284.1| RNA polymerase alpha subunit [Pinus merkusii] Length = 335 Score = 119 bits (297), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 84/293 (28%), Positives = 149/293 (50%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 + + +I+ GP VTA DI ++ ++ I L + L + K Sbjct: 96 FRSDSYGIREASIYIVGPRNVTAQDIILPPSVKTIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIR-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPAL-------------L 257 +++ ASR L D F++ EE + K+ N+ P + L L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTDTGETKEKIAFQL 271 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL ++ N LR NI + DL+ + D++R+ +FG++S+ ++ VL Sbjct: 272 IFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMRIEHFGKESVEQVLEVL 324 >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 = 119 bits (297), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 85/311 (27%), Positives = 163/311 (52%), Gaps = 27/311 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITCAKSEKIPHEYSNIVGIEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + + +I RGP VTA DI + +E+++ I +L +D + +++ Sbjct: 92 KEIVLRSNLYGTRDASICVRGPRHVTAQDIISPPSVEIIDTTQHIASLTEPIDLCIGLQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ K N G IDA++ P++ ++++ S G + L + I T Sbjct: 152 ERNRGYNMKTPK-----NSQDGRYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLKK----- 259 +GS+T ++++ ASR L D F++ E +K++ N +LP F+ L K+ Sbjct: 206 NGSLTPKEALHEASRNLIDLFIPFLHANEENFILKDNQNKVALPLFTFHDRLAKQRKNKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +++ EL R+ NCL+ NI + DL+ ++ D++++ +F + ++K +LG Sbjct: 266 EISFQCIFIDQSELPPRTYNCLKRSNIHTLLDLLNNSQEDLMKIEHF---RIEDVKQILG 322 Query: 312 TMGLFLGMNLP 322 + ++LP Sbjct: 323 ILQKHFAIDLP 333 >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 = 119 bits (297), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 87/301 (28%), Positives = 154/301 (51%), Gaps = 28/301 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT V+ + V HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRVKSEKVAHEYSTIAGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL--DVDAVVRMEL 147 K I + + +I RGPG VTA DI +E+++ I L ++ +R+E Sbjct: 92 KEIVFRSNLYGTCDASICVRGPGYVTAQDIVLPPYVEIVDNTQHIARLMEPINLCIRLE- 150 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + + GY+ +N G IDA++ PI+ +Y++ S G + L + I T Sbjct: 151 -IERNRGYLIKT---PQNFQDGSYPIDAVFMPIRNANYSIHSYGNGNE-KQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL-------LKK- 259 +GS+T ++++ ASR L D F++ EE ++ N ++P P L+K Sbjct: 206 NGSLTPKEALHQASRNLIDLFIPFLHMEEQNSHLEN--NQHTVPLAPFFFHDKLDKLRKN 263 Query: 260 ----------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 +++ EL R NCL+ NI + DL+ ++ +++++ +F + + EI G+ Sbjct: 264 KKEIALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQENLMKIEHFHIEDVKEILGI 323 Query: 310 L 310 L Sbjct: 324 L 324 >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 = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 90/309 (29%), Positives = 160/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + V HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLLKGQADTIGIAMRRALLGEIEGTCITRAKSEKVPHEYSTIAGIEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I RGP VTA DI + +EV++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTRDASICVRGPRCVTAQDIISPPSVEVVDTTQHIASLTEPIDLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + T+N G IDA+ P++ ++++ S G + L + I T+G Sbjct: 152 QRDRGY---RMKTTKNSQDGSYPIDAVSMPVRNANHSIHSYGNGNQ-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N ++P F L LKK Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHAEEEDINFEENQNRFTVPPFTFPDRLANLKKNKKEI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++ EL R+ NCL+ NI + DL+ ++ D++++ F + ++K +L T+ Sbjct: 268 ALKCIFIDQSELPPRTYNCLKRSNIHTLLDLLSNSQEDLMKIEYF---RIEDVKQILDTL 324 Query: 314 GLFLGMNLP 322 ++LP Sbjct: 325 RKHFAIDLP 333 >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 = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 89/313 (28%), Positives = 149/313 (47%), Gaps = 38/313 (12%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P G A T+G A+RR L+ + G IT + V HE S+I G+ E + D+++N+ I Sbjct: 36 PFRSGQASTVGIAMRRALLGEVEGTCITCAEFKRVTHEYSTILGIQESVHDVLINLGEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ ++ I GP VTA DI +++++ I + + +EL + K Sbjct: 96 LRSDSYETQKAFISILGPKKVTAQDIILPPSVKIIDTTQYIATVTKAIHLDIELKIEKDF 155 Query: 154 GYVPAKHHRTENDPI----GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 GY R E DPI G +DA++ PI+ V+Y+V S G + L + I T+G Sbjct: 156 GY------RIE-DPIKSADGNFPVDAVFMPIRNVNYSVHSFENGNETQ-EILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFIN--------------------FEEPKKEVKEDINVKS 249 S+T ++++ ASR L + F++ F P D K Sbjct: 208 SVTPKEALYEASRSLINLFIPFLHAEKKEFIYGLKNTYESNMSYFSSPSLSADIDEMTKG 267 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + F +++LEL R+ NCL+ N + DL+ ++ D++++ NFG+KS ++ V Sbjct: 268 VTFKHIF---IDQLELPARAYNCLKRVNAHTISDLLNYSQDDLMKIKNFGKKS---VEQV 321 Query: 310 LGTMGLFLGMNLP 322 L + +NLP Sbjct: 322 LEALQKRFSINLP 334 >gi|156597913|gb|ABU85224.1| RNA polymerase alpha subunit [Anethum graveolens] Length = 338 Score = 118 bits (296), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 89/310 (28%), Positives = 160/310 (51%), Gaps = 22/310 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + HE S++ G+ E + DI++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSKKIPHEYSTLVGIQESVHDILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGPG VTA DI +EV++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTCDASICVRGPGYVTAQDIILPPYVEVVDNTQHIASLTEPIELHIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK-LSMTIDTD 208 + GY+ + D G IDA++ PI+ ++++ S G D + L + I T+ Sbjct: 152 ERSRGYLIKTPNNNFQD--GSYPIDAVFMPIRNANHSIHSYGNGNGNDKQEILFLEIWTN 209 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK---- 259 GS+T ++++ ASR L D F++ EE + ++ ++ LP F+ L L+K Sbjct: 210 GSLTPKEALHEASRNLIDLFIPFLHTEEENLHLADNQHMVPLPPFTFHDNLDKLRKNKKK 269 Query: 260 -------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +++ EL R NCL+ NI + DL+ ++ D++++ +F + ++K +LG Sbjct: 270 IALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDLMKIEHF---RINDVKQILGI 326 Query: 313 MGLFLGMNLP 322 + ++LP Sbjct: 327 LEKHFSIDLP 336 >gi|51859691|gb|AAU11125.1| RNA polymerase alpha subunit [Psathyrostachys caduca] Length = 339 Score = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 88/278 (31%), Positives = 144/278 (51%), Gaps = 20/278 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL ++L + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDXAQPIANLTEPIDFCIDLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK----- 259 S+T ++++ ASR L D F++ EE +E+ N + P F L LKK Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLKKNKKGI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 +++LEL+ R+ NCL+ NI + DL+ +TE D Sbjct: 268 PLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEED 305 >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 = 118 bits (295), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 89/313 (28%), Positives = 158/313 (50%), Gaps = 29/313 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A +G A+RR L+ + G IT V+ + V HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADMIGIAMRRALLGEIEGTCITRVKSEKVPHEFSTIVGIEESVHEIVMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGP VTA DI +E+++ I NL + ++L + Sbjct: 92 KEIVLRSNLYGTLDASICIRGPRYVTAQDIILPPSVEIVDATQHIANLTERVDLCIKLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY H ND G IDA++ P++ +++V S G + L + I T+G Sbjct: 152 ERDRGYSMKTPH---NDEDGSYPIDAIFMPVRNANHSVHSYGNGNE-KQEILFIEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---------FNPALLKK- 259 S+T ++++ ASR L D F++ EE +E+ + N +P F ++K Sbjct: 208 SLTPKEALYEASRNLIDLFIPFLHAEE--REIHLEDNANGVPLALFTFHDEFAITNIRKN 265 Query: 260 ----------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 +++ EL ++ NCL+ NI + DL+ ++ D+L++ +F + ++K + Sbjct: 266 KKKMALKSIFIDQSELPSKTYNCLKKSNIHTLLDLLNNSQEDLLKIEHF---CMEDVKRI 322 Query: 310 LGTMGLFLGMNLP 322 L + G +LP Sbjct: 323 LDILQKHFGFDLP 335 >gi|150186930|emb|CAK30130.1| RNA polymerase alpha subunit [Streptococcus salivarius] Length = 141 Score = 118 bits (295), Expect = 2e-24, Method: Compositional matrix adjust. 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|228016331|gb|ACP51165.1| RNA polymerase alpha subunit [Pinus taeda] Length = 335 Score = 118 bits (295), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 85/293 (29%), Positives = 149/293 (50%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKXIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIXEASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIR-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPAL-------------L 257 +++ ASR L D F++ EE + K+ N+ P + L L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHLLTDTGETKEKIAFQL 271 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL + N LR NI + DL+ + D++R+ +FG++S+ ++ VL Sbjct: 272 IFIDQLELPPKIYNSLRRANIHTLLDLLNYSREDLMRIEHFGKESVEQVLEVL 324 >gi|300431305|gb|ADK12617.1| RNA polymerase alpha subunit [Achnatherum inebrians] Length = 330 Score = 118 bits (295), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 83/285 (29%), Positives = 142/285 (49%), Gaps = 29/285 (10%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + + HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSLPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I+ +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y ++ L + I T+G Sbjct: 152 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYR----------KHEILFLEIWTNG 198 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 S+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 199 SLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKKLTNLKKNKKGI 258 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 259 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 303 >gi|165910447|gb|ABY73978.1| RNA polymerase alpha subunit [Cuscuta japonica] Length = 332 Score = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 88/309 (28%), Positives = 159/309 (51%), Gaps = 28/309 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L++ + G IT V+ HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIALRRALLAEIEGTRITRVKFANASHEYSTIAGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I +GPG VTA DI +E+++ I L + + L + Sbjct: 92 KEIVLRSNLYGTCDASISFKGPGYVTAEDIILPPHVEIVDSTQHIAWLTEPIDLCIGLKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES-AREGQVLDYDKLSMTIDTD 208 + GY H E+ G IDA++ P++ ++++ S E Q + L + I T+ Sbjct: 152 ERNRGYFIKTHANFED---GSYPIDAVFMPVQNANHSIHSYGNEKQ----EILFLEIWTN 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL-------KK-- 259 GS+T ++++ ASR L D F++ E+ + ED + ++P +P + KK Sbjct: 205 GSLTPKEALHEASRNLIDLFIPFLHMEKENLPL-EDAD-HTIPLSPFTVYYKVAKNKKKL 262 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LE + NCL+ NI + DL+ ++ D++++ +F L ++K +L + Sbjct: 263 SLESLFIDQLEFPPKIYNCLKKSNIFTLLDLLNNSQEDLIKIEHF---RLEDVKQILAIL 319 Query: 314 GLFLGMNLP 322 G ++LP Sbjct: 320 GKHFALDLP 328 >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 = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 85/287 (29%), Positives = 151/287 (52%), Gaps = 24/287 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLIKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILVNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + + +I +GP +TA DI +EV++ I NL +D +++++ Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRCITAQDIILPPSVEVVDTAQPIANLTEPIDFCIQLQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G+ K+++ + P IDA+ P++ V+Y++ S G ++ L + I T Sbjct: 152 KRDRGYQTELRKNYQDGSYP-----IDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLKK----- 259 +GS+T ++++ ASR L D F++ EE +E+ N + P F L + Sbjct: 206 NGSLTPKEALYEASRNLIDLFLPFLHAEEEGTGFEENKNRFTPPLFTFQKRLTNRKKNKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL R+ N L+ NI + DL+ +TE D++R+ +F Sbjct: 266 GIPLNFIFIDQLELPSRTYNYLKRANIHTLLDLLSKTEEDLMRIDSF 312 >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 = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 84/299 (28%), Positives = 154/299 (51%), Gaps = 24/299 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT V+ + V HE S+I G+ E + +II+N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRVKFEKVPHEYSTITGIQESVHEIIMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + ++ +GPG VTA DI +E+++ I +L + L + Sbjct: 92 KEIVLRSNLYGTSEASVCVKGPGYVTAQDIILPPYVEIVDNTQHIASLTEPIDFCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY+ +N G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGYLIKT---PQNFQDGSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP--------ALLKK-- 259 S+T ++++ ASR L D F++ EE +++ N ++P +P L+K Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHMEEDNLYLQD--NQHTVPLSPFTFHDKLAKLIKNNK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R NCL+ NI + DL+ ++ D++++ +F + + +I G+L Sbjct: 266 KIALKSIFIDQSELPSRIYNCLKMSNIYTLLDLLNNSQEDLMKIEHFRSEDIKQILGIL 324 >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 = 117 bits (294), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 85/295 (28%), Positives = 155/295 (52%), Gaps = 19/295 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + PL +G A T+G A+RR L+ L G IT + D V HE S+I G+ E + +I++N+ Sbjct: 32 FVLSPLMKGQADTIGIAMRRALLGELEGTCITRAKSDKVPHEYSTIVGIEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I + +I RGP VTA DI + +E+++ I L + +EL + Sbjct: 92 KKIVFRSDLYGTLDASICVRGPRHVTAQDIISPPSVEIVDTTQHIAILTEPVDLCIELKI 151 Query: 150 SKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 +G GY RT N+ G IDA+ P++ ++++ S G + L + I T+ Sbjct: 152 ERGRGYC----MRTPNNYQDGSYPIDAVSMPVRNANHSIHSYGNGNE-KQEILFLEIWTN 206 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF-----------NPALL 257 GS+T ++++ ASR L D F++ EE +++++ ++PF +L Sbjct: 207 GSLTPKEALYEASRNLIDLFIPFLHAEEQDINIEDNLKRATVPFFTFHDGLDNMKREIIL 266 Query: 258 KK--VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 K+ +++ EL R+ NCL+ NI + +L+ +++ D++R+ +F + + +I +L Sbjct: 267 KRIFIDQSELPPRTYNCLKKSNIHTLLNLLSKSQEDLMRIEHFRVEDVKQIFDIL 321 >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 = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 83/293 (28%), Positives = 150/293 (51%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H + N G+ IDA++ P++ V+Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSSNNYQDGIFPIDAVFMPVRDVNYSIHSYGSGNEIQ-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALLKK----------- 259 +++ ASR L D F++ EE + K+ N+ P + L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTDTGETKEKIAFQH 271 Query: 260 --VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL ++ N LR NI + DL+ + D++R+ + ++S+ ++ VL Sbjct: 272 IFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMRIEHLEKESVEQVLEVL 324 >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 = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 86/297 (28%), Positives = 155/297 (52%), Gaps = 22/297 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + D + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSDKISHEYSTIMGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGPG VTA DI +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTYEASICVRGPGYVTAQDIILPPYVEIVDNTQHIASLTEPIELVIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 K GY+ K T D G ID ++ P++ ++++ S G + + L + I T+G Sbjct: 152 EKNRGYL-IKAPNTFQD--GSYPIDPVFMPVRNANHSIHSYENG---NKEILFLEIWTNG 205 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLK-------- 258 S+T ++++ ASR L D L F++ +E ++++ ++ LP F L K Sbjct: 206 SLTPKEALHEASRNLIDLLIPFLHTKEENLNLEDNQHIVPLPPFTFYDKLAKLTKNKKKM 265 Query: 259 -----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R NCL+ NI + DL+ ++ D++++ +F + + +I G+L Sbjct: 266 ALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDLMKIEHFRIEDVKQILGIL 322 >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 = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 88/309 (28%), Positives = 159/309 (51%), Gaps = 28/309 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L++ + G IT V+ HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIALRRALLAEIEGTRITRVKFANASHEYSTIAGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I +GPG VTA DI +E+++ I L + + L + Sbjct: 92 KEIVLRSNLYGTCDASISFKGPGYVTAEDIILPPHVEIVDSTQHIAWLTEPIDLCIGLKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES-AREGQVLDYDKLSMTIDTD 208 + GY H E+ G IDA++ P++ ++++ S E Q + L + I T+ Sbjct: 152 ERNRGYFIKTHANFED---GSYPIDAVFMPVQNANHSIHSYGNEKQEI----LFLEIWTN 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL-------KK-- 259 GS+T ++++ ASR L D F++ E+ + ED + ++P +P + KK Sbjct: 205 GSLTPKEALHEASRNLIDLFIPFLHMEKENLPL-EDAD-HTIPLSPFTVYYKVAKNKKKL 262 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LE + NCL+ NI + DL+ ++ D++++ +F L ++K +L + Sbjct: 263 SLESLFIDQLEFPPKIYNCLKKSNIFTLLDLLNNSQEDLIKIEHF---RLEDVKQILAIL 319 Query: 314 GLFLGMNLP 322 G ++LP Sbjct: 320 GKHFALDLP 328 >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 = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 84/299 (28%), Positives = 155/299 (51%), Gaps = 24/299 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT V+ + V HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRVKSEKVPHEYSTIMGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I +GPG VTA DI +E+++ I +L + L + Sbjct: 92 KEIVLRSNLYGTSDASICVKGPGYVTAQDIILPPYVEIVDNTQHIASLTETIDFCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY+ H ++ G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 KRNRGYLIKTPHNFQD---GSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP--------ALLKK-- 259 S+T ++++ ASR L D F++ EE +++ N ++P +P L+K Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHIEEDNLYLQD--NQHTVPLSPFTFHDKLAKLIKNKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R NCL+ NI + DL+ ++ D++++ +F + + +I G+L Sbjct: 266 KIALKSIFIDQSELPSRIYNCLKMSNIYTLLDLLNNSQEDLMKIEHFRSEDVKQILGIL 324 >gi|150036750|emb|CAM98028.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gelidum KCTC 3527] Length = 153 Score = 117 bits (293), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 63/153 (41%), Positives = 96/153 (62%), Gaps = 2/153 (1%) Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 ++ GV ED+T IILN+K + L + D + + + +GP VTA D+Q D+EVLNPD Sbjct: 1 TVDGVVEDVTQIILNLKKVVLAIDSDEERSLEVDIQGPADVTAADLQAGADVEVLNPDLH 60 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAR 191 I + + M +T KG GY A ++ D PIG++ +D++Y+PI++V+Y VE+ R Sbjct: 61 IATVAAGKSLHMTITAFKGRGYSSADENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTR 120 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 G DYDKL+ I T+GSI D+++L S+IL Sbjct: 121 VGSRDDYDKLTFDIWTNGSIKPSDALSLGSKIL 153 >gi|290489678|gb|ADD31223.1| RNA polymerase alpha subunit protein [Berberidopsis corallina] Length = 337 Score = 117 bits (293), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 85/309 (27%), Positives = 159/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGPG VTA DI + +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTCDASICVRGPGYVTAQDIISPPSVEIVDNTQHIASLTEPIDLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + N G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGY---RIKTLNNFQDGSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLK-------- 258 S+T ++++ ASR L D F++ EE ++++ + + P F+ L K Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHAEEENLHLEDNQHKATFPLFTFHDRLAKLRKNKKEI 267 Query: 259 -----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++LEL R NCL+ NI + DL+ ++ D++++ +F + ++K +LG + Sbjct: 268 ALKYIFIDQLELPPRIYNCLKRSNIHTLSDLLNNSQEDLMKIEHF---RIEDVKQILGIL 324 Query: 314 GLFLGMNLP 322 ++LP Sbjct: 325 EKHFTIDLP 333 >gi|68124013|emb|CAJ01914.1| DNA-directed RNA polymerase alpha chain [Chrysanthemum x morifolium] Length = 335 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 86/297 (28%), Positives = 154/297 (51%), Gaps = 22/297 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKISHEYSTIMGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGPG VTA DI +E+++ I L + + L + Sbjct: 92 KEIVLRSNLYGTCEASICVRGPGYVTAQDIILPPYVEIVDNTQHIATLTEPIELVIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 K GY+ K T D G ID ++ P++ ++++ S G + + L + I T+G Sbjct: 152 EKNRGYL-IKAPNTFQD--GSYPIDPVFMPVRNANHSIHSYENG---NKEILFLEIWTNG 205 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLK-------- 258 S+T ++++ ASR L D L F++ +E ++++ ++ LP F L K Sbjct: 206 SLTPKEALHEASRNLIDLLIPFLHTKEENLNLEDNQHMIPLPPFTFYDKLAKLTKNKKKM 265 Query: 259 -----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R NCL+ NI + DL+ ++ D+++M +F + + +I G+L Sbjct: 266 ALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQDDLMKMEHFHIEDVKQILGIL 322 >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 = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 87/308 (28%), Positives = 162/308 (52%), Gaps = 22/308 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FVLSPLMKGQADTIGIAMRRALLGEIEGTCITHAKSEKIPHEYSTIVGIEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I +GP +TA DI + +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTCDASICVKGPINITAKDIISPPSVEIVDTTQHIASLTEPFDLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY ++ +N G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGYRMKTPNKAQN---GSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP-----ALLKKVEEL- 263 S+T ++++ ASR L D F++ EE ++++ N +LPF A LKK E+ Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHAEEQDIILEDNQNRVTLPFFTFHDGLAKLKKKNEIA 267 Query: 264 ---------ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 EL R+ NCL+ NI + DL+ +++ D+L++ +F + ++K VLG + Sbjct: 268 LKFIFIDQSELPSRTYNCLKKSNINTLLDLLNKSQEDLLKIEHF---RIEDVKRVLGILQ 324 Query: 315 LFLGMNLP 322 ++LP Sbjct: 325 KRFVIDLP 332 >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 = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 83/301 (27%), Positives = 157/301 (52%), Gaps = 20/301 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTIVGIEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GPG VTA DI + +E+++ I +L + +EL + Sbjct: 92 KEIVLRSNLYGTRDASICVKGPGYVTAQDIISPPSVEIVDITQHIASLTEPIDLCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + N IDA++ P++ ++++ S G + L + I TDG Sbjct: 152 ERNRGY---RMKTPNNAQERSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTDG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP------ALLKKVEEL 263 S+T ++++ ASR L D F++ EE +++++ + +LPF + K +E+ Sbjct: 208 SLTPKEALYEASRNLIDLFIPFLHAEEQDTKLEDNQSRVTLPFFTFHDGLDKVRKNKKEI 267 Query: 264 ELSV----------RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 EL R+ NCL+ NI + DL+ +++ D+++M +F + + I G++ + Sbjct: 268 ELKCIFIDQSELPSRTYNCLKRFNIHTLLDLLNKSQEDLMKMEHFRIEDVRRILGIIKNI 327 Query: 314 G 314 Sbjct: 328 S 328 >gi|300431272|gb|ADK12601.1| RNA polymerase alpha subunit [Piptochaetium lasianthum] Length = 339 Score = 117 bits (292), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 83/285 (29%), Positives = 142/285 (49%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDRAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y G ++ L + + T+G Sbjct: 152 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYXXXXXGNGNE-KHEILFLELWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 S+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKKLTNLKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D++++ +F Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMKIDSF 312 >gi|150186973|emb|CAK30139.1| RNA polymerase alpha subunit [Streptococcus porcinus] Length = 161 Score = 117 bits (292), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 57/149 (38%), Positives = 97/149 (65%) 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 ITGEDSVALASRILQDQLGMFINFEEPKK 239 I ED++ L++R+L + L +F + E K Sbjct: 121 IIPEDALGLSARVLIEHLNLFTDLTEVAK 149 >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 = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 83/299 (27%), Positives = 157/299 (52%), Gaps = 24/299 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLIKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL--DVDAVVRMEL 147 K I L+ + + I RGPG VTA DI + +E+++ I L +D + +++ Sbjct: 92 KEIVLRSNLYGTRGAFICARGPGYVTAQDIISPPSVEIVDNTQHIARLMEPIDLCIGLQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ R N G IDA++ P++ ++++ S G + L + I T Sbjct: 152 ERNRGYSI-----KRPNNFQDGSYPIDAVFMPVRNANHSIHSYGNGNERQ-EILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLK------ 258 +GS+T ++++ ASR L D F++ EE ++ + + +LP F+ L K Sbjct: 206 NGSLTPKEALHEASRNLIDLFIPFLHAEEETLHLEYNQHKSTLPPLTFHDRLAKLRKNKK 265 Query: 259 -------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R NCL+ NI + DL+ +++ D++++ +F + + ++ G+L Sbjct: 266 EIELKYIFIDQLELPPRIYNCLKRSNIHTLLDLLNKSQKDLMKIEDFRIEDVKQLLGIL 324 >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 = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 87/297 (29%), Positives = 154/297 (51%), Gaps = 22/297 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKISHEYSTIMGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGPG VTA DI +E+L+ I +L + + L + Sbjct: 92 KEIVLRSNLYGTCEASICVRGPGYVTAQDIILPPYVEILDNTQHIASLTEPIELVIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 K GY+ K T D G ID ++ P++ ++++ S G + + L + I T+G Sbjct: 152 EKNRGYL-IKAPNTFQD--GSYPIDPVFMPVRNANHSIHSYENG---NKEILFLEIWTNG 205 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLK-------- 258 S+T ++++ ASR L D L F++ +E ++ + ++ LP F L K Sbjct: 206 SLTPKEALYEASRNLIDLLIPFLHTKEENLNLEGNQHMVPLPPFTFYDKLAKLTKNKKKM 265 Query: 259 -----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R NCL+ NI + DL+ ++ D+++M +F + + +I G+L Sbjct: 266 ALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDLMKMEHFRIEDVKQILGIL 322 >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 = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 84/299 (28%), Positives = 155/299 (51%), Gaps = 24/299 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT V+ + V HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRVKSEKVPHEYSTITGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I +GPG VTA DI +E+++ I +L + L + Sbjct: 92 KEIVLRSNLYGTSEASICVKGPGYVTAQDIILPPYVEIVDNTQHIASLTEPIDFCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY+ H ++ G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGYLIKTPHNFQD---GSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFIEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP--------ALLKK-- 259 S+T ++++ ASR L D F++ EE +++ N ++P +P L+K Sbjct: 208 SLTPKEALHDASRNLIDLFIPFLHMEEDNLYLQD--NQHTVPLSPFTFHDKLAKLIKNKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ ELS R NCL+ NI + DL+ ++ D++++ +F + + +I +L Sbjct: 266 KIALKSIFIDQSELSSRIYNCLKMSNIYTLLDLLNNSQEDLMKIEHFRSEDIKQILDIL 324 >gi|88657014|gb|ABD47264.1| RNA polymerase alpha subunit [Lactuca sativa] Length = 337 Score = 116 bits (291), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 87/297 (29%), Positives = 154/297 (51%), Gaps = 22/297 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 34 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKISHEYSTIMGIQESVHEILMNL 93 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGPG VTA DI +E+L+ I +L + + L + Sbjct: 94 KEIVLRSNLYGTCEASICVRGPGYVTAQDIILPPYVEILDNTQHIASLTEPIELVIGLQI 153 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 K GY+ K T D G ID ++ P++ ++++ S G + + L + I T+G Sbjct: 154 EKNRGYL-IKAPNTFQD--GSYPIDPVFMPVRNANHSIHSYENG---NKEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLK-------- 258 S+T ++++ ASR L D L F++ +E ++ + ++ LP F L K Sbjct: 208 SLTPKEALYEASRNLIDLLIPFLHTKEENLNLEGNQHMVPLPPFTFYDKLAKLTKNKKKM 267 Query: 259 -----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R NCL+ NI + DL+ ++ D+++M +F + + +I G+L Sbjct: 268 ALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDLMKMEHFRIEDVKQILGIL 324 >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 = 116 bits (291), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 84/311 (27%), Positives = 165/311 (53%), Gaps = 23/311 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEFSTIAGIQESIHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + +I GPG VTA DI +E+++ I +L +D + +++ Sbjct: 92 KEIVLRSNLYGTCNASICVEGPGYVTAQDIILPPFVEIIDNTQHIASLTEAIDLCIGLQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ P + + ++ G +IDA++ P++ +++V S G + L + I T Sbjct: 152 ERNRGYRINPTNNFQVQD---GSYSIDAVFMPVRNANHSVHSYGNGNE-KQEILFLEIWT 207 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLK------ 258 +GS+T ++++ ASR L D F++ EE ++++ + +LP F+ L K Sbjct: 208 NGSLTPKEALHEASRNLIDFFIPFLHAEEENLHLEKNQHKVTLPLFTFHDRLTKLRKNKK 267 Query: 259 -------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +++ EL+ + NCL+ NI + DL+++++ D++++ +F + I G+L Sbjct: 268 EIALKYIFIDQSELTPKIYNCLKRSNIHTLSDLLKKSQEDLMKIEHFRIDDVKHILGILE 327 Query: 312 TMGLFLGMNLP 322 F ++LP Sbjct: 328 IEKHF-AIDLP 337 >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 = 116 bits (291), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 82/293 (27%), Positives = 149/293 (50%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIREASIYIVGPKNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H + N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIQ-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALLKK----------- 259 +++ ASR L D F++ EE + K+ N+ P + L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTDTGETKEKIAFQH 271 Query: 260 --VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL ++ N LR NI + DL+ + D++R+ + ++S+ ++ VL Sbjct: 272 IFIDQLELPSKTYNSLRRANIHTLLDLLNYSREDLMRIEHLEKESVEQVLEVL 324 >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 = 116 bits (290), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 88/321 (27%), Positives = 161/321 (50%), Gaps = 22/321 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S++ G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTLVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK + +I RGPG VTA DI + +E+++ I +L + + L + Sbjct: 92 KEIILKSNLYGTCDASICIRGPGYVTAQDIISPPYVEIVDNTQHIASLAEPIDLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY+ + D G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGYLIKTPNNNFQD--GSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 208 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLK-------- 258 S+T ++++ ASR L D F++ EE + ++ + LP F+ L K Sbjct: 209 SLTPKEALHQASRNLIDLFIPFLHTEEENLHLADNQHTVPLPPFTFHEKLTKLRKNKKKI 268 Query: 259 -----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++ EL R NCL NI + DL+ ++ D++++ +F + ++K +LG + Sbjct: 269 ALKSIFIDQSELPPRIYNCLIRSNIYTLLDLLNNSQEDLMKIEHF---RIEDVKAILGIL 325 Query: 314 GLFLGMNLPDWPPESIEELAK 334 ++LP E LA+ Sbjct: 326 EKHFAIDLPKKLKIGFESLAQ 346 >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 = 116 bits (290), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 80/287 (27%), Positives = 152/287 (52%), Gaps = 22/287 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR+L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRILLGEIEGTCITRAKSEKIPHEYSTIVGIQESIHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GPG VTA DI +E+++ I NL + MEL + Sbjct: 92 KEIVLRSNLYGTRDASICFKGPGSVTAQDIILPPSVEIVDNTQHIANLTEPINLCMELKL 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +++ TIDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGYRIKTLNNIQDES---YTIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLKK------- 259 S+T ++++ ASR L D F++ EE K ++ + +LP F+ +K Sbjct: 208 SLTPKEALFEASRNLIDLFIPFLHAEEDKLNLENNQQKVTLPLFTFHDRFVKDKLRKNKK 267 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL R NCL+ NI + +L+ +++ +++++ +F Sbjct: 268 EIALKSIFIDQLELPPRIYNCLKKSNIHTLLELLNKSQEELMKIEHF 314 >gi|119662339|emb|CAJ33158.1| RNA polymerase alpha subunit [Lactobacillus paralimentarius] Length = 134 Score = 116 bits (290), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 51/130 (39%), Positives = 89/130 (68%) Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GP VTA DI+ +D+E+L+P+ IC + M++TV G GY PA+ ++T+ PIG Sbjct: 3 GPATVTANDIKADDDLEILDPEQFICTVAEGGHFHMQMTVINGRGYTPAEQNKTDETPIG 62 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 ++ +D++++P++KV+Y VE+ R G+ D+DKL++ I T+GSI ++++L+++IL + L Sbjct: 63 VLPVDSIFTPVEKVNYQVENTRVGKRNDFDKLTIDIWTNGSIGPREAISLSAKILTEHLT 122 Query: 230 MFINFEEPKK 239 F+N E K Sbjct: 123 SFVNLTEEAK 132 >gi|290489686|gb|ADD31227.1| RNA polymerase alpha subunit protein [Ficus sp. Moore 315] Length = 323 Score = 116 bits (290), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 86/297 (28%), Positives = 156/297 (52%), Gaps = 23/297 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL RG A T+G A+RR L+ + G IT V+ + + HE S+I G+ E + +I++N+ Sbjct: 32 FILAPLMRGQADTIGIAMRRALLGEIEGTCITRVKFEKLPHEYSTIIGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP VTA DI +E+++ I NL + +EL + Sbjct: 92 KEIVLRSNLYGTRDASICVKGPRYVTAQDIILPPSVEIVDNTQHIANLTEPITLCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA++ P++ ++++ S G + + L + I T+G Sbjct: 152 KRDRGYRIKTPNNFQN---GSYPIDAVFMPVRNANHSIHSYVNGNE-NQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-FN-------PALLKK-- 259 S+T ++++ ASR L D +FI F ++ ++ + + +LP FN P KK Sbjct: 208 SLTPKEALHEASRNLID---LFIPFFHAEEHLENNQHKGTLPLFNFHGRLAKPRKTKKEK 264 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL+ R NCL+ NI DL+ ++ +++++ +F + + I VL Sbjct: 265 ALKYIYIDQSELTPRVYNCLKRSNINTFLDLLNNSQEELMKIKDFTIEDVKHILDVL 321 >gi|150186905|emb|CAK30124.1| RNA polymerase alpha subunit [Streptococcus gallinaceus] Length = 138 Score = 116 bits (290), Expect = 6e-24, Method: Compositional matrix adjust. 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|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 = 116 bits (290), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 84/299 (28%), Positives = 154/299 (51%), Gaps = 24/299 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT V+ + V HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRVKSEKVPHEYSTITGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I +GPG VTA DI +E+++ I +L + L + Sbjct: 92 KEIILRSNLYGTSDASICVKGPGSVTAQDIILPPYVEIVDNTQHIASLTEPIDFCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY+ H ++ G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGYLIKTPHNFQD---GSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP--------ALLKK-- 259 S+T ++++ ASR L D F++ EE +++ N ++P +P L+K Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHMEEDNLYLQD--NQHTVPLSPFTFHDKLAKLIKNKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R NCL+ NI + DL+ ++ D++++ +F + + I G+L Sbjct: 266 KIALKSIFIDQSELPSRIYNCLKMSNIYTLLDLLNNSQEDLMKIEHFRSEDVKRILGIL 324 >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 = 116 bits (290), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 85/309 (27%), Positives = 162/309 (52%), Gaps = 25/309 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A +G A+RR L+ L G IT + + + HE S++ G+ E + +I++N+ Sbjct: 32 FILSPLLKGQADIIGIAMRRALLGELEGTCITRAKSEKLPHEYSTLVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + I +GPG VTA DI + +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTCDAAICVKGPGYVTAQDIISPPYVEIIDNTQHIASLTEPIELCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY+ K + D G IDA++ P++ V++++ S G ++ L + I T+G Sbjct: 152 ERNRGYL-IKTAKNFQD--GSYPIDAVFMPVRNVNHSIYSYGTGND-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK---------- 259 S+T ++++ A+R L D F++ EE ++++ N LPF P++L + Sbjct: 208 SLTPKEALHEAARNLIDLFIPFLHTEEENLDLED--NQHMLPFRPSILPEKFVKIKNKKI 265 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++ EL R NCL+ NI + DL+ ++ D++++ +F + ++K +L + Sbjct: 266 SLKSIFIDQSELPPRVYNCLKRSNIYTLLDLLNNSQEDLMKIEHF---RVEDLKRILDIL 322 Query: 314 GLFLGMNLP 322 G++LP Sbjct: 323 EKNFGIDLP 331 >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 = 116 bits (290), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 85/297 (28%), Positives = 155/297 (52%), Gaps = 22/297 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE ++I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKISHEYATIMGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGPG VTA DI +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTCEASICVRGPGYVTAQDIILPPYVEIVDNTQHIASLTEPIELVIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 K GY+ K T D G ID ++ P++ ++++ S G + + L + I T+G Sbjct: 152 EKNRGYL-IKAPNTFQD--GSYPIDPVFMPVRNANHSIHSYENG---NKEILFLEIWTNG 205 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLK-------- 258 S+T ++++ ASR L D L F++ +E ++++ ++ LP F L K Sbjct: 206 SLTPKEALHEASRNLIDLLIPFLHTKEENLSLEDNQHIVPLPPFTFYDKLAKLTKNKKKM 265 Query: 259 -----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R NCL+ NI + DL+ ++ D+++M +F + + +I G+L Sbjct: 266 ALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDLMKMEHFRIEDVKQILGIL 322 >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 = 116 bits (290), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 91/311 (29%), Positives = 159/311 (51%), Gaps = 27/311 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + V HE +I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKVPHEYFTIVGIKESVHEILINL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + + I RGP VTA DI + +E+++ I L +D + +++ Sbjct: 92 KEIVLRSTLYGVRDAAICVRGPRYVTAQDIISPPSVEIVDTTQHIATLTEPIDLCIGLQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G+ P T N G IDA+ P++ ++++ S G + L + I T Sbjct: 152 KRDRGYRMKP-----TNNSKDGSYPIDAVSMPVRNANHSIHSYGNGNE-KQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP--------FNPALLKK 259 +GS+T ++++ ASR L D F++ EE KE+ N +LP N KK Sbjct: 206 NGSLTPKEALYEASRNLIDLFIPFLHAEEEGINFKENENRFTLPPFTLQDRLINLKKTKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +++LEL R+ NCL+ NI + DL+ ++ D++R+ ++ R + ++K +L Sbjct: 266 CIPLKCIFIDQLELPPRTYNCLKRSNIHTLLDLLSNSQEDLMRI-DYLR--IEDVKQILD 322 Query: 312 TMGLFLGMNLP 322 T+ L +LP Sbjct: 323 TLQKHLASDLP 333 >gi|88656926|gb|ABD47177.1| RNA polymerase alpha subunit [Helianthus annuus] Length = 337 Score = 115 bits (289), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 85/297 (28%), Positives = 155/297 (52%), Gaps = 22/297 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE ++I G+ E + +I++N+ Sbjct: 34 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKISHEYATIMGIQESVHEILMNL 93 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGPG VTA DI +E+++ I +L + + L + Sbjct: 94 KEIVLRSNLYGTCEASICVRGPGYVTAQDIILPPYVEIVDNTQHIASLTEPIELVIGLQI 153 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 K GY+ K T D G ID ++ P++ ++++ S G + + L + I T+G Sbjct: 154 EKNRGYL-IKAPNTFQD--GSYPIDPVFMPVRNANHSIHSYENG---NKEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLK-------- 258 S+T ++++ ASR L D L F++ +E ++++ ++ LP F L K Sbjct: 208 SLTPKEALHEASRNLIDLLIPFLHTKEENLSLEDNQHIVPLPPFTFYDKLAKLTKNKKKM 267 Query: 259 -----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R NCL+ NI + DL+ ++ D+++M +F + + +I G+L Sbjct: 268 ALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDLMKMEHFRIEDVKQILGIL 324 >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 = 115 bits (289), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 88/313 (28%), Positives = 158/313 (50%), Gaps = 33/313 (10%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + PL +G A T+G A+RR L+ + G IT + + V HE S+I G+ E + +I++N+ Sbjct: 32 FVLSPLMKGQADTIGTAMRRSLLGEIEGTCITCAKSERVPHEYSTIVGIEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I ++ + I RGP VTA DI + +++++ I ++ + L + Sbjct: 92 KEIIVRSDLYGTRDAFICVRGPKYVTAQDIISPPSVKIVDTTQHIASITEPINFCIGLEI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE---SAREGQVLDYDKLSMTID 206 + GY RT N IDA+ P++ +Y+++ + E Q + L + I Sbjct: 152 ERNRGY----RTRTTNQDASY-PIDAVSMPVRNANYSIQCYGNENEKQEI----LFLEIW 202 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA----------- 255 T+GS+T ++++ ASR L D F++ EE + +D N+ + PF P Sbjct: 203 TNGSLTPKEALYEASRNLIDLFIPFLHAEERDLHLDDDQNIFTAPFFPFHEGLAYIGIGE 262 Query: 256 -----LLKK--VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 LK+ +++LELS R+ NCL+ NI + DL+ +++ D+ ++ +F + ++K Sbjct: 263 SKKRIALKRIFIDQLELSPRTYNCLKRSNIHTLLDLLSKSQEDLRKIQHF---RVEDVKR 319 Query: 309 VLGTMGLFLGMNL 321 VL + MNL Sbjct: 320 VLDILKKRFAMNL 332 >gi|228016207|gb|ACP51043.1| RNA polymerase alpha subunit [Pinus squamata] Length = 335 Score = 115 bits (289), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 82/293 (27%), Positives = 149/293 (50%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H + N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIQ-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALLKK----------- 259 +++ ASR L D F++ EE + K+ N+ P + L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTDTRETKEKIAFQH 271 Query: 260 --VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL ++ N LR NI + DL+ + D++R+ + ++S+ ++ VL Sbjct: 272 IFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMRIEHLEKESVEQVLEVL 324 >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 = 115 bits (289), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 85/302 (28%), Positives = 157/302 (51%), Gaps = 30/302 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ L G IT + + + HE S+I G+ E + +I++N+ Sbjct: 34 FILSPLMKGQADTIGIAMRRALLGELEGTCITRAKSEKIPHEYSTIVGIQESVHEILMNL 93 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + + I +GPG VTA DI +E+++ + +L +D + +++ Sbjct: 94 KEIVLRGNLYGTRNAFICAKGPGYVTAQDIILPPSVEIVDNTQHVASLTEPIDLCIGLQI 153 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA---REGQVLDYDKLSMT 204 ++G+G K+ + P IDA++ P++ ++++ E Q + L + Sbjct: 154 ERNRGYGIKTPKNFHDGSYP-----IDAVFMPVRNANHSIHCYGNDNEKQEI----LFLE 204 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP------ALLK 258 I T+GS+T ++++ ASR L D F++ EE ++ + + +LPF P L K Sbjct: 205 IWTNGSLTPKEALHEASRNLIDLFIPFLHTEEENLHLENNQHDVTLPFFPFHDRLVKLTK 264 Query: 259 KVEEL----------ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 K +E+ EL R NCL+ NI + DL+ + D++++ +F + + +I G Sbjct: 265 KKKEIALKYIFIDQSELPPRIYNCLKKSNIHTLLDLLNNSREDLMKIEHFRIEDVKQILG 324 Query: 309 VL 310 +L Sbjct: 325 IL 326 >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 = 115 bits (289), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 88/292 (30%), Positives = 147/292 (50%), Gaps = 19/292 (6%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 +PL RGFA TLG ALRRVL+S++ A V+I+GV HE I GV ED+ +I+N++ + Sbjct: 27 QPLERGFATTLGVALRRVLLSNITSLAPFCVRIEGVTHEFQGITGVIEDVPSLIMNLRKV 86 Query: 93 NLK-----MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV--DAVVRM 145 + D +V + G + + ++ V+++ V DH I DV + +R+ Sbjct: 87 RFSYDPELVKDDEIIKVELKADQIGEINSRYLEVVDNLNVEVIDHNIHIADVALENSLRL 146 Query: 146 ELTVSKGHGYVPAKHHR-----------TENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 EL + G G+V ++ ++ T+ I +D+ +SP++KV+Y V Sbjct: 147 ELYLRPGRGFVSSEENKALVSKLETQLETKIKKGKFIAVDSNFSPVEKVNYVVSELNSSS 206 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 V +KL + TDG++ +D++ A+ IL + N +E K + E K L Sbjct: 207 VKIEEKLEFNVITDGTVKPKDAIKQAAEILISHFKVIGNVDEIKDSIFETSEDKVLDVQE 266 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + + +L LSVRS N LR ++ + T ++ + N G+KSL EI Sbjct: 267 QDI-DINQLGLSVRSLNALRRIGKTKASEVAKMTYDELEQTKNLGKKSLDEI 317 >gi|290489656|gb|ADD31212.1| RNA polymerase alpha subunit protein [Aucuba japonica] Length = 349 Score = 115 bits (289), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 83/299 (27%), Positives = 155/299 (51%), Gaps = 24/299 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL + A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKSQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTIVGIQESIHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGPG +TA DI +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTCDTSICVRGPGYITAQDIILPPYVEIVDKTQHIASLTEPIDLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY+ + ++ G IDA++ P++ V+Y++ S G + L + I T+G Sbjct: 152 ERNRGYLIKTPNNFQD---GSYPIDAVFMPVRNVNYSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP-------ALLKK--- 259 S+T ++++ ASR L D F++ EE +++ N ++P +P A L+K Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHMEEENLHLED--NQHTVPLSPFTFHDKLAKLRKNKN 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R NCL+ NI + DL+ ++ D++++ F + + +I G+L Sbjct: 266 KIALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDLMKIEQFRIQDVKQILGIL 324 >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 = 115 bits (289), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 87/311 (27%), Positives = 156/311 (50%), Gaps = 25/311 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + PL +G A T+G A+R+ L+ + G IT + + V HE S+I G+ E + +I++N+ Sbjct: 32 FVLSPLMKGQADTIGIAMRKALLGEIEGTCITRAKSEKVPHEYSTIVGIEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK + + +I RGP VTA DI + +E+++ I +L + +EL + Sbjct: 92 KEIVLKSNLYGTRDASICVRGPKYVTAQDIISPPSVEIVDTTQHIASLTEPINLCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + N G IDA+ P++ ++++ S G + L + I T+G Sbjct: 152 ERDRGY---RMKAPNNYQDGSYPIDAVSMPVRNANHSIHSYGSGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL----------KK 259 S+T ++++ ASR L D F++ EE + + N +P L KK Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHAEEQDIHLNLEDNQNRFTVSPFTLHDRLGNIRKNKK 267 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +++ EL R+ NCL+ NI + DL+ ++ D++R+ +F + +IK +L Sbjct: 268 EIALKCIFIDQSELPTRTYNCLKRSNIHTLLDLLNNSQEDLMRIEHF---RIEDIKQILD 324 Query: 312 TMGLFLGMNLP 322 + G++LP Sbjct: 325 ILQKHFGIDLP 335 >gi|153012181|ref|YP_001381697.1| RNA polymerase alpha subunit [Medicago truncatula] Length = 333 Score = 115 bits (289), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 87/299 (29%), Positives = 157/299 (52%), Gaps = 22/299 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR+L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLRKGQADTIGIAMRRILLGEIEGTCITRAKSEKIPHEYSTIVGIQESIHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK + + +I +GPG VTA DI +E+++ I NL + +EL + Sbjct: 92 KEIVLKSNLYGTRDASICFKGPGYVTAQDIILPPSVEIVDNTQHIANLTEPINLCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + N G TIDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERKRGY---RIKTLNNIQDGSYTIDAVFMPVRNANHSIHSYVNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLKK------- 259 S+T ++++ ASR L D F++ EE + + + +LP F+ LLK Sbjct: 208 SLTPKEALYEASRNLIDLFIPFLHAEEENLNFENNQHKVTLPLFTFHDRLLKDKLRKNKK 267 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LELS R NCL+ NI + +L+ +++ D++++ +F + + I +L Sbjct: 268 EIALKSIFIDQLELSPRIYNCLKKSNIHTLLELLNKSQEDLMKIEHFRVEDVKNILNIL 326 >gi|119662387|emb|CAJ33182.1| RNA polymerase alpha subunit [Lactobacillus acidifarinae] Length = 132 Score = 115 bits (288), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 61/131 (46%), Positives = 87/131 (66%), Gaps = 4/131 (3%) Query: 85 IILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+K I LK++G D + + I +GP VTAGDI D++VLNPD I + A Sbjct: 2 IILNVKKIALKLNGADDQEETMEINVKGPAQVTAGDIVAGADVDVLNPDLYIATVADGAT 61 Query: 143 VRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 M +T KG GYV A ++T N PIG++ +D++Y+PI++V+Y VE+AR GQ DYDK Sbjct: 62 FHMRMTADKGRGYVSADENKTRNTEMPIGVLAVDSIYTPIERVNYQVENARVGQRADYDK 121 Query: 201 LSMTIDTDGSI 211 L++ + T+GSI Sbjct: 122 LTLDVWTNGSI 132 >gi|154424739|emb|CAL18472.1| RNA polymerase alpha subunit [Streptococcus oligofermentans] Length = 136 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. 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|228017530|gb|ACP52345.1| RNA polymerase alpha subunit [Pinus monticola] Length = 335 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 81/293 (27%), Positives = 149/293 (50%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITFDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H + N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIQ-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALLKK----------- 259 +++ ASR L D F++ EE + K+ N+ P + L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTDTGETKEKIAFKH 271 Query: 260 --VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL ++ N LR NI + DL+ + D++++ + ++S+ ++ VL Sbjct: 272 IFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMKIEHLEKESVEQVLEVL 324 >gi|290489660|gb|ADD31214.1| RNA polymerase alpha subunit protein [Ehretia acuminata] Length = 339 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 83/301 (27%), Positives = 155/301 (51%), Gaps = 26/301 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG--VLHEISSIKGVHEDLTDIIL 87 I PL +G A T+G A+RR L+ + G +IT V+ + V HE S+I G+ E + +I++ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTSITRVKSESEKVPHEYSTISGIQESVHEILM 91 Query: 88 NIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 N+K I L+ + +I RGPG VTA DI +E+++ I +L + + L Sbjct: 92 NLKEIVLRSNLYGTCDASICVRGPGYVTAQDIILPPYVEIVDNTQHIASLTEPIDLCIGL 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + + GY+ H ++ G IDA++ P++ ++++ S G + L + I T Sbjct: 152 QIERNRGYLIKTPHNFQD---GSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWT 207 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK-------- 259 +GS+T ++++ ASR L D F++ EE +++ N ++P +P + Sbjct: 208 NGSLTPKEALHEASRNLIDLFIPFLHMEEENVHLED--NQHTVPLSPFIFHDKLAKLRKK 265 Query: 260 ----------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 +++ EL R NCL+ NI + DL+ ++ D++++ +F + + +I G+ Sbjct: 266 KKKIALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDLMKIEHFRIEDVKQILGI 325 Query: 310 L 310 L Sbjct: 326 L 326 >gi|69215824|gb|AAZ03868.1| RNA polymerase alpha chain [Ranunculus macranthus] Length = 339 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 86/312 (27%), Positives = 167/312 (53%), Gaps = 27/312 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTIVGIEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + + +I +GPG VTA DI + +E+++ I +L VD + +++ Sbjct: 92 KEIVLRSNLYGTRDASICVKGPGYVTAQDIISPPSVEIVDTTQHIASLTEPVDFCIGLQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ + N G IDA++ P++ ++++ S G + + L + I T Sbjct: 152 ESNRGY-----RMKTPNNAQKGSYPIDAVFMPVRNANHSIHSYGNGNE-NQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI-NVKSLPFNPA-----LLKK-- 259 +GS+T ++++ ASR L D F++ EE + +K++ N +LPF LKK Sbjct: 206 NGSLTPKEALYEASRNLIDLFIPFLHAEEQDQNLKDNQKNGVTLPFFTFHDGFDKLKKNK 265 Query: 260 ---------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R+ NCL+ NI + DL+ +++ D++++ +F + + +I ++ Sbjct: 266 KEIELKCIFIDQSELPSRTYNCLKRANIHTLLDLLNKSQEDLMKIEHFRIEDVKQILDII 325 Query: 311 GTMGLFLGMNLP 322 F+ ++LP Sbjct: 326 QKH--FVVIDLP 335 >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 = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 87/309 (28%), Positives = 158/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT V+ + V HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRVKSENVPHEYSTIAGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGPG VTA DI +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTCDASICVRGPGYVTAQDIILPPYVEIVDNTQHIASLTEPIDLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY+ H ++ G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 KRNRGYLIKMPHNFQD---GSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEE---PKKEVKEDINVKSLPFNPAL--LKK----- 259 S+T ++++ A R L D F++ EE P ++ + + + L F+ L L+K Sbjct: 208 SLTPKEALHEACRNLIDLFIPFLHKEEENLPLEDNQHTVPLSPLTFHDKLDKLRKNKKKI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++ E S R NCL+ NI + DL+ + D++++ + L +IK +L + Sbjct: 268 ALKSIFIDQSEFSPRVYNCLKRSNIYTLLDLLNNSPEDLMKIEHL---RLEDIKQILVIL 324 Query: 314 GLFLGMNLP 322 ++LP Sbjct: 325 EKHFAIDLP 333 >gi|290489672|gb|ADD31220.1| RNA polymerase alpha subunit protein [Phoradendron serotinum] Length = 326 Score = 115 bits (287), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 82/297 (27%), Positives = 161/297 (54%), Gaps = 25/297 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + D + HE S+I+G+ E + DI++N+ Sbjct: 32 FILSPLIKGQADTIGIAMRRALLGEIEGTCITRAKSDQIPHEYSTIRGIQESVHDILINL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL--DVDAVVRMEL 147 K I L+ + +I+ +GP +TA DI +E+++ +I +L +D + +++ Sbjct: 92 KEIVLRSNLYGTCNASIYIKGPRYITAQDIILPPYVEIIDHTQIIASLTEQIDFGIGLQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ + K N G +I+A++ P++ ++++ + E + L + I T Sbjct: 152 EKNRGYRIITPK-----NLQEGNFSIEAIFMPVRNANHSIHNYNE----KLEILFLEIWT 202 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL-PFNPAL--LKK----- 259 +GS+T ++++ A+R L D F++ ++ K V+++ + SL F+ L L+K Sbjct: 203 NGSLTPKEALHEAARNLIDLFIPFLHVKKEKLHVEDNQHKLSLFTFHDRLQKLRKTKEKI 262 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ ELS R NCL+ NI + DL+ + D++++ +F + L I G+L Sbjct: 263 ALKSIFIDQSELSPRIYNCLKSSNIQNILDLLNKNREDLMKIEHFRIEDLKHIWGIL 319 >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 = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 82/287 (28%), Positives = 151/287 (52%), Gaps = 22/287 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR+L+ + G IT V+ + + HE S+I G+ E + +I +N+ Sbjct: 32 FILSPLMKGQADTIGIAIRRILLGEIEGTCITCVKSEKIPHEYSTIIGIEESVHEIFMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK + + +I +GPG +TA DI +E+++ I N+ + +EL + Sbjct: 92 KEIVLKSNMYGIQDASISFKGPGYITAQDIILPPSVEIVDNRQHIANVTEPVHLCIELKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA + P++ V+Y++ S G + L + I T+G Sbjct: 152 ERNRGY---RIKTLKNFQDGSYDIDARFMPVRNVNYSIHSYVNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLKK------- 259 S+T ++++ AS+ L + F++ EE ++++ + +LP F+ L+K Sbjct: 208 SLTPKEALYEASQNLIELFIPFLHAEEDNFHLEKNQHKVTLPLFTFHDILVKDKLRKNQK 267 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL R NCL+ NI + +L+ ++ D+L+ +F Sbjct: 268 EIALKSIFIDQLELPPRIYNCLKRSNIHTLLELLSNSQEDLLKFEHF 314 >gi|119672817|emb|CAK95488.1| RNA polymerase alpha subunit [Lactobacillus johnsonii] Length = 115 Score = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 55/103 (53%), Positives = 76/103 (73%) Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GP +VTA D++ +DIEVLNPD IC++ + M + + G GYVPA ++T++ PIG Sbjct: 11 GPAIVTAADLKVDSDIEVLNPDQYICSIADGGHLHMNVAIKTGRGYVPASENKTDDMPIG 70 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 +I +D+L+SPIKKV+Y VESAR G+ DYDKL++ I TDGSIT Sbjct: 71 VIPVDSLFSPIKKVNYQVESARVGKRDDYDKLTLEIWTDGSIT 113 >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 = 114 bits (286), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 86/312 (27%), Positives = 167/312 (53%), Gaps = 27/312 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTIVGIEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + + +I +GPG VTA DI + +E+++ I +L VD + +++ Sbjct: 92 KEIVLRSNLYGTRDASICVKGPGYVTAQDIISPPSVEIVDTTQHIASLTEPVDFCIGLQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ + N G IDA++ P++ ++++ S G + + L + I T Sbjct: 152 ESNRGY-----RMKTPNNAQKGSYPIDAVFMPVRNANHSIHSYGNGNE-NQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI-NVKSLPFNPA-----LLKK-- 259 +GS+T ++++ ASR L D F++ EE + +K++ N +LPF LKK Sbjct: 206 NGSLTPKEALYEASRNLIDLFIPFLHAEEQDQNLKDNQKNGVTLPFFTFHDGFDKLKKNK 265 Query: 260 ---------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R+ NCL+ NI + DL+ +++ D++++ +F + + +I ++ Sbjct: 266 KEIELKCIFIDQSELPSRTYNCLKRANIHTLLDLLNKSQEDLMKIEHFRIEDVKQILDII 325 Query: 311 GTMGLFLGMNLP 322 F+ ++LP Sbjct: 326 QKH--FVVIDLP 335 >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 = 114 bits (286), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 75/304 (24%), Positives = 152/304 (50%), Gaps = 34/304 (11%) Query: 28 TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIIL 87 T + EPL RG+ +T+G +RR L+SS+ A A++I V HE ++I+G+ ED ++ Sbjct: 22 TTFVIEPLMRGYGNTIGTVIRRTLLSSITSVAPFAIKISHVEHEFTAIEGLREDAITLVA 81 Query: 88 NIKGINLK-----MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 NI+ I D+ +++ G V A DI+T+ ++++N D I + + Sbjct: 82 NIRKIRFAYDPELFEKDNLAKISFKSTKEGEVHASDIETIPGLDIVNKDQYIATISKNGS 141 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIG-----------LITIDALYSPIKKVSYTVESAR 191 + EL + G GYV + ++ G + +D+ +SPIKKV+ E Sbjct: 142 LEFELYLRTGRGYVSFEDNKKTILEYGPKLESKIKNGQFLAMDSDFSPIKKVAILFEELN 201 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ---------DQLGMFINFEEPKKEVK 242 + ++L + ++TDG++ ++ + A++I+ D LG F++ K++ + Sbjct: 202 STSNIIEERLKIKVETDGTVEAKNVMEEAAKIIVAHFQIIGNIDALGTIDLFDDQKEKHE 261 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + P + +++L L++RS N LR + ++++ ++ ++ + N G+KS Sbjct: 262 K---------TPKVSVSIDKLNLTIRSLNALRRAGFNNVDEIMKLSDEELSNIKNLGKKS 312 Query: 303 LVEI 306 + +I Sbjct: 313 VQDI 316 >gi|228016646|gb|ACP51475.1| RNA polymerase alpha subunit [Pinus albicaulis] Length = 335 Score = 114 bits (286), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 81/293 (27%), Positives = 149/293 (50%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H + N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIQ-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALLKK----------- 259 +++ ASR L D F++ EE + K+ N+ P + L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNKKKGSNMLPFPLSHVLTDTGETKEKIAFKH 271 Query: 260 --VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL ++ N LR NI + DL+ + D++++ + ++S+ ++ VL Sbjct: 272 IFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMKIEHLEKESVEQVLEVL 324 >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 = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 81/293 (27%), Positives = 149/293 (50%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H + N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIQ-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALLKK----------- 259 +++ ASR L D F++ EE + K+ N+ P + L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTDTGETKEKIAFQH 271 Query: 260 --VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL ++ N LR NI + DL+ + D++++ + ++S+ ++ VL Sbjct: 272 IFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMKIEHLEKESVEQVLEVL 324 >gi|119662799|emb|CAJ33191.1| RNA polymerase alpha subunit [Lactobacillus jensenii] Length = 117 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. 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|228017657|gb|ACP52470.1| RNA polymerase alpha subunit [Pinus peuce] Length = 335 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 81/293 (27%), Positives = 149/293 (50%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H + N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIQ-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALLKK----------- 259 +++ ASR L D F++ EE + K+ N+ P + L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTDTGETKEKIAFQH 271 Query: 260 --VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL ++ N LR NI + DL+ + D++++ + ++S+ ++ VL Sbjct: 272 IFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMKIEHLEKESVEQVLEVL 324 >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 = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 84/293 (28%), Positives = 154/293 (52%), Gaps = 23/293 (7%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+K I Sbjct: 36 PLMRGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTIVGIQESVHEILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + + +I +GPG VTA DI +E+++ I NL + +EL + + Sbjct: 96 LRSNLYGTRDASICVKGPGYVTAQDIILPPSVEIVDNTQHIANLTEPITLCIELQIERNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY + +N G IDA++ P++ ++++ S G + + L + I T+GS+T Sbjct: 156 GYRIKTPNNFQN---GSYPIDAVFMPVRNANHSIHSYVNGNE-NQEILFLEIWTNGSLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-FN-------PALLKK------ 259 ++++ ASR L D +FI F ++ ++ + + +LP FN P KK Sbjct: 212 KEALHEASRNLID---LFIPFFHAEEHLENNQHKGTLPLFNFHGRLAKPRKTKKEIALKY 268 Query: 260 --VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R NCL+ NI +L+ ++ +++++ +F + + I VL Sbjct: 269 IYIDQSELPPRVYNCLKRSNINTFLELLNNSQEELMKIQDFRIEDVKHILDVL 321 >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 = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 85/287 (29%), Positives = 152/287 (52%), Gaps = 22/287 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RRVL+ + G IT V+ + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRVLLGEIEGTCITRVKSEKIPHEYSTIIGIEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GPG VTA DI +E+++ I N+ + +EL + Sbjct: 92 KEIVLRSNLYGTRDASICFKGPGYVTAQDIILPPSVEIVDNTQHIANVTEPVNLCIELKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA + P++ V++++ S G + L + I T+G Sbjct: 152 ERNRGY---RIKTLKNFQDGSYPIDATFMPVRNVNHSIHSYVNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL---------- 256 S+T ++++ ASR L D F++ EE ++ + + +LP F+ L Sbjct: 208 SLTPKEALYEASRNLIDLFIPFLHAEEDNFNLENNQHKVTLPLFTFHDILAKEKLRKKKK 267 Query: 257 ---LKK--VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 LK +++LEL R NCL+ NI + +L+ ++ D+L++ +F Sbjct: 268 EIALKSIFIDQLELPPRIYNCLKRSNIHTLLELLNNSQEDLLKIEHF 314 >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 = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 81/293 (27%), Positives = 149/293 (50%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I Sbjct: 36 PLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI +++++ I L + L + K Sbjct: 96 LRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY+ H + N G+ IDA++ P++ +Y++ S G + + L + I T+G +T Sbjct: 156 GYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIQ-EVLFLEIWTNGGLTP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALLKK----------- 259 +++ ASR L D F++ EE + K+ N+ P + L Sbjct: 212 REALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTDTGETKEKIAFKH 271 Query: 260 --VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL ++ N LR NI + DL+ + D++++ + ++S+ ++ VL Sbjct: 272 IFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMKIEHLEKESVEQVLEVL 324 >gi|300431286|gb|ADK12608.1| RNA polymerase alpha subunit [Nassella novarae] Length = 339 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 85/285 (29%), Positives = 145/285 (50%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I+ +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVDTAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------------- 253 S+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLHAEEEGXXFEENKNRFTPPLFTFQKKLTNLKKNKKGI 267 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +++LEL R+ NCL+ NI + DL+ +TE D++ + +F Sbjct: 268 PLNCIFIDQLELPSRTYNCLKRANIHTILDLLSKTEEDLMXIDSF 312 >gi|21039418|gb|AAM33638.1| RpoA [Pseudomonas putida] Length = 127 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 61/131 (46%), Positives = 87/131 (66%), Gaps = 9/131 (6%) Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE---EPKKEVKEDINVKSL 250 Q D DKL + ++T+G++ E+++ A+ ILQ QL F++ + EP +ED Sbjct: 3 QRTDLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDSEPVVVEQED------ 56 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G+KSL EIK VL Sbjct: 57 EIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNLGKKSLTEIKDVL 116 Query: 311 GTMGLFLGMNL 321 + GL LGM L Sbjct: 117 ASRGLSLGMRL 127 >gi|303308474|gb|ADM14340.1| RNA polymerase alpha subunit [Punica granatum] Length = 337 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 86/304 (28%), Positives = 158/304 (51%), Gaps = 22/304 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKIPHEYSTIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I +GPG VTA DI +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTCNASICVKGPGCVTAQDIILPPSVEIIDNTQHIASLMEPINLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + GY H +T N+ G IDA++ P++ ++++ S G + L + I T+ Sbjct: 152 ERNRGY----HIKTPNNFQDGSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTN 206 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLK------- 258 GS+T ++++ ASR L D L F++ EE ++ + +LP F+ L K Sbjct: 207 GSLTPKEALHEASRNLIDLLIPFLHAEEENLHLENNQYKVTLPLFTFHDRLTKLRKTKKG 266 Query: 259 ------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +++LEL R N L+ NI + DL+ +++ D++++ +F R+ + +I +L Sbjct: 267 IALKYIFIDQLELPPRIYNFLKKSNIHTLLDLLNKSQEDLMKIKHFRREDVKQILDILEI 326 Query: 313 MGLF 316 +F Sbjct: 327 EKVF 330 >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 = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 83/297 (27%), Positives = 154/297 (51%), Gaps = 20/297 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILAPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTIIGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GPG VTA DI +E+++ I NL + +EL + Sbjct: 92 KEIVLRSNLYGTRNASICIKGPGYVTAQDIILPPSVEIVDNTQHIANLTEPINLCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + N G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGY---RIKTPNNFQDGSYPIDAVFMPVRNANHSIHSYVNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLKK------- 259 S+T ++++ ASR L D F++ EE +++ + + +LP F+ L K+ Sbjct: 208 SLTPKEALHDASRNLIDLFIPFLHAEEENLQLENNQHKVTLPLFTFHGRLAKQRKNKKEI 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R NCL+ NI + DL+ ++ D++++ +F + + I +L Sbjct: 268 ALQYIFIDQSELFPRVYNCLKRSNIHTLLDLLNNSQEDLMKIKHFRIEDVKHILNIL 324 >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 = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 83/297 (27%), Positives = 150/297 (50%), Gaps = 20/297 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+ G+ E + +I++N+ Sbjct: 32 FILAPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTFVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GPG VTA DI IE+++ I NL + +EL + Sbjct: 92 KEIVLRSNLYGTRNASICVKGPGYVTAQDIILPPSIEIVDNTQHIANLTEPINLCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + N G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGY---RIKTPNNFQEGSYPIDAVFMPVRNANHSIHSYVNGNE-KQEILFIEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF--------NPALLKK-- 259 S+T ++++ ASR L D F++ EE + + + +LP NP +KK Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHAEEENLHFENNQHKVTLPLFTFHGKLANPKKIKKEN 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R NCL+ NI + DL+ ++ D++++ + + + I +L Sbjct: 268 TLKYIFIDQSELPPRVYNCLKRSNIHTLLDLLNNSQEDLMKIKHLRIEDVKHILNIL 324 >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 = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 84/295 (28%), Positives = 151/295 (51%), Gaps = 19/295 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I +PL RGF TLG ALRRVL+S++ A V+I+GV HE I+GV ED+ +I+N+ Sbjct: 25 FIIQPLERGFGTTLGVALRRVLLSNITSLAPFCVRIEGVTHEFRGIEGVVEDVPSLIMNL 84 Query: 90 KGINLK-----MSGDSHKRVTIFKRGPGVVTAGDIQTVN--DIEVLNPDHVICNLDVDAV 142 + + + D RV + G + + ++ V+ ++EV++ + I + + Sbjct: 85 RKVRFSYDPELVKDDDIIRVELKADQVGEINSRYLEVVDNLNVEVIDHNVHIAEVSQENA 144 Query: 143 VRMELTVSKGHGYVPAKHHR-----------TENDPIGLITIDALYSPIKKVSYTVESAR 191 +R+EL + G G+V ++ ++ T+ I +D+ +SP++KV+Y V Sbjct: 145 LRLELYLRPGRGFVSSEENKALVSKLEAQLETKIKKGKFIAVDSNFSPVEKVNYVVSELN 204 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 + +KL + TDG++ +D++ A+ IL N +E + ++ E + K + Sbjct: 205 SSSIKIEEKLEFNVYTDGTVKPKDAIKQAADILIAHFKEIGNVDEIRNDIFETADDK-IT 263 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 N + +L LSVRS N LR + D+ + + ++ + N G+KSL EI Sbjct: 264 DNQETDIDITQLGLSVRSLNALRRIGRTKVSDISKMSYEELEQTKNLGKKSLDEI 318 >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 = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 59/153 (38%), Positives = 102/153 (66%), Gaps = 8/153 (5%) Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 G+I +D++Y+P+++V+ +V++ R GQV D+DKL++ + T+G++ +++V+LAS++L + L Sbjct: 7 GVIAVDSIYTPVERVNMSVQNTRVGQVTDFDKLTLDVYTNGTLDTDEAVSLASKVLCEHL 66 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLK----KVEELELSVRSTNCLRGENIVYMGDL 284 +FI+ E K DI V + P + + K ++ELELSVRS NCL+ I + +L Sbjct: 67 KLFIDLSETSK----DIEVIAEPVDDEIDKVLEMNIDELELSVRSYNCLKRAGINTVEEL 122 Query: 285 IQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + +T DM+++ N GRKSL E+ L +GL L Sbjct: 123 VNKTSEDMMKVRNLGRKSLEEVLAKLKELGLGL 155 >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 = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 81/287 (28%), Positives = 150/287 (52%), Gaps = 22/287 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR+L+ + G IT V+ + + HE S+I G+ E + +I +N+ Sbjct: 32 FILSPLMKGQADTIGIAIRRILLGEIEGTCITRVKSEKIPHEYSTIIGIEESVHEIFMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK + + +I +GPG +TA DI +E+++ I N+ +EL + Sbjct: 92 KEIVLKSNMYGTQDASISFKGPGYITAQDIILPPSVEIVDNRQHIANVTEPVNFCIELKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY +++ IDA + P++ V+Y++ S G + L + I T+G Sbjct: 152 ERNRGYRIKTLKNFQDESYD---IDARFMPVRNVNYSIHSYVNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLKK------- 259 S+T ++++ AS+ L D F++ EE ++++ + +LP F+ L+K Sbjct: 208 SLTPKEALYEASQNLIDLFIPFLHAEEENFNLEKNKDKVTLPLFTFHDILVKDKLRKNKK 267 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL R NCL+ NI + +L+ ++ D+L++ +F Sbjct: 268 EIALKSIFIDQLELPPRIYNCLKRSNIHTLLELLNNSQEDLLKIEHF 314 >gi|99024202|dbj|BAE94567.1| plastid DNA-dependent RNA polymerase subunit alpha [Takakia lepidozioides] Length = 341 Score = 114 bits (285), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 87/313 (27%), Positives = 147/313 (46%), Gaps = 38/313 (12%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P G A T+G A+RR L+ + G IT + V HE S+I G+ E + D+++N+ I Sbjct: 36 PFRSGQASTVGIAMRRALLGEVEGTCITCAEFKRVTHEYSTILGIQESVHDVLINLGEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ ++ I GP VTA DI +++++ I + + +EL + K Sbjct: 96 LRSDSYETQKAFISILGPKKVTAQDIILPPSVKIIDTTQYIATVXKAIHLDIELKIEKDF 155 Query: 154 GYVPAKHHRTENDPI----GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 GY R E DPI G +DA++ PI+ V+Y+V S G + L + I T+G Sbjct: 156 GY------RIE-DPIKSADGNFPVDAVFMPIRNVNYSVHSFENGNETQ-EILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFIN--------------------FEEPKKEVKEDINVKS 249 S+T ++++ ASR L + F++ F P D K Sbjct: 208 SVTPKEALYEASRSLINLFIPFLHAEKKEFIYGLKNTYESNMSYFSSPSLSADIDEMTKG 267 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + F +++LEL R+ NC + N + DL+ ++ D++++ NFG+KS ++ V Sbjct: 268 VTFKHIF---IDQLELPARAYNCXKRVNXHTISDLLNYSQDDLMKIKNFGKKS---VEQV 321 Query: 310 LGTMGLFLGMNLP 322 L + +N P Sbjct: 322 LEALQKRFSINXP 334 >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 = 114 bits (284), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 82/301 (27%), Positives = 161/301 (53%), Gaps = 24/301 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEFSTIAGIQESIHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + +I +GPG VTA DI +E+++ I +L +D + +++ Sbjct: 92 KEIVLRSNLYGTCDASICVKGPGYVTAQDIILPPFVEIIDNTQHIASLTKAIDLCIGLQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ P + + ++ G +IDA++ P++ +++V S G + L + I T Sbjct: 152 ERNRGYRIKPTNNFQVQD---GSYSIDAVFMPVRNANHSVHSYGNGNE-KQEILFLEIWT 207 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPK--KEVKEDINVKSLP---FNPALLK---- 258 +GS+T ++++ ASR L D F++ EE E++++ + +LP F+ L K Sbjct: 208 NGSLTPKEALHEASRNLIDFFIPFLHAEEENLHLEIEKNQHKVTLPLFCFHDKLTKLRKN 267 Query: 259 ---------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 +++ EL+ + NCL+ NI + DL+ +++ D++++ +F + I G+ Sbjct: 268 KKEIVLKYIFIDQSELTPKIYNCLKRSNIHTLSDLLNKSQEDLMKIEHFRIDDVKHILGI 327 Query: 310 L 310 L Sbjct: 328 L 328 >gi|150187003|emb|CAK30148.1| RNA polymerase alpha subunit [Streptococcus parauberis] Length = 161 Score = 114 bits (284), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 54/141 (38%), Positives = 93/141 (65%) Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 + K + + GP VTAGDI T +DIE++NPDH + + ++ +TV+K GY+PA Sbjct: 4 EDEKMIELDVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLKATMTVAKKRGYIPA 63 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 + ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ Sbjct: 64 EGNKQDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALG 123 Query: 219 LASRILQDQLGMFINFEEPKK 239 L++R+L + L +F + E K Sbjct: 124 LSARVLIEHLNLFTDLTEVAK 144 >gi|156598719|gb|ABU85614.1| RNA polymerase alpha subunit [Scaevola aemula] Length = 332 Score = 114 bits (284), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 87/311 (27%), Positives = 165/311 (53%), Gaps = 26/311 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L++ + G AIT + + V HE S+I+G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIALRRALLAEIEGTAITRAKFEKVPHEYSTIRGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + +I +GPG VTA DI + +E+++ I +L ++ ++R+++ Sbjct: 92 KEIVLRSNLYGTCEASICVKGPGYVTAQDIISPPYVEIVDNTQHIASLTEPIELIIRLQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++ ++ K T D G I A+ P++ ++Y++ S+ G+ + L + I T Sbjct: 152 EKNR---FIQLKERNTFQD--GSYAIGAVLMPVRHMNYSIHSSGNGK---QEILFLEIWT 203 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED-INVKSLPFNPALLKKVEELELS 266 +GS+T ++++ A R L D F++ EE E +D I S F L K + +++ Sbjct: 204 NGSLTPKEALHEACRNLIDLFIPFLHKEEGNLENNQDRIPFPSFTFYDKLSKLKKNKKMA 263 Query: 267 VRST------------NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 ++S NCL+ NI + DL+ ++ D+++ A+ + ++K +LG + Sbjct: 264 LKSIFIDQSELPPSIYNCLKRSNIYTLFDLLNNSQEDLMKKAHL---HIEDVKRILGLLE 320 Query: 315 LFLGMNLPDWP 325 ++LP P Sbjct: 321 KNCVIDLPKNP 331 >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 = 114 bits (284), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 84/299 (28%), Positives = 155/299 (51%), Gaps = 22/299 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + PL +G A T+G A+RR L+ + G IT ++D V HE S+I G+ E + +I +N+ Sbjct: 32 FMLSPLMKGQADTIGIAMRRALLGEIEGTCITRAKLDKVPHEYSTIVGIEESIHEIFMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I RGP VTA DI + +E+++ I +L + +EL + Sbjct: 92 KEIVLRSNLYGTRNASICVRGPRYVTAQDIISPPSVEIVDTTQHIASLTEPIDLCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY ++ +N G IDA+ P++ ++++ S G + L + I T+G Sbjct: 152 QRDRGYRMKTPNKYQN---GSYPIDAVSMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF--------NPALLKK-- 259 S+T ++++ ASR L D F++ EE ++++ N ++PF N + KK Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHAEEEGIRLEDNPNRFNIPFFTFHDGLANTNIRKKKK 267 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R+ N L+ NI + DL+ ++ D L++ +F + + +I +L Sbjct: 268 GIALKCIFIDQSELPPRTYNYLKRSNINTLLDLLSNSQEDFLKIEHFRIEDVKQILDIL 326 >gi|12467|emb|CAA30670.1| RNA polymerase alpha-subunit (AA 1-341) [Zea mays] Length = 341 Score = 114 bits (284), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 93/311 (29%), Positives = 156/311 (50%), Gaps = 25/311 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGNVPHEYSTIVGIEESIQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+ + I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIDDTTQPIANLREPVDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + Y +++ G IDA++ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRAYHTELRKNSQD---GSYPIDAVFMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SIT-GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK---- 259 +T E + ASR L D F++ EE +E+ N + P F LKK Sbjct: 208 KLTPKEGGIYEASRNLIDLFLPFLHTEEEGTSFEENKNRLTPPLLTFQKRFTNLKKNKKG 267 Query: 260 -------VEELELSVRSTNCLRGENI-VYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +++LEL R+ NCL+ NI + DL+ +TE D++++ +FG + + K + Sbjct: 268 IPLNCIFIDQLELPSRTYNCLKRANIPSALLDLLVKTEEDLIKINSFG---MEDGKLIWD 324 Query: 312 TMGLFLGMNLP 322 T+ L ++LP Sbjct: 325 TLEKHLPIDLP 335 >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 = 114 bits (284), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 85/297 (28%), Positives = 153/297 (51%), Gaps = 20/297 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + PL +G A T+G A+RR L+ + G IT + + V HE S+I G+ E + +I++N+ Sbjct: 32 FVLSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKVPHEYSTIVGIEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I + + +I RGP VTA DI + +++++ I +L + +EL + Sbjct: 92 KEIVFRSHLYGTRGASICVRGPRYVTAQDIISPPSVKIVDTTQYIASLTEPIDLCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + N G IDA+ P++ ++++ S G + L + I T+G Sbjct: 152 ERDRGY---RIKTPNNYQDGSYPIDAVSMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL---------- 256 S T ++++ ASR L D F++ EE V+++ N + P F+ L Sbjct: 208 SFTPKEALYEASRNLIDLFLPFLHAEEQDINVEDNQNRATAPLFTFHDGLTNIGKRKKGI 267 Query: 257 -LKKV--EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 LK+V ++ EL R+ NCL+ NI + DL+ ++ D++R+ +F + + +I G+L Sbjct: 268 ALKRVFIDQSELPTRTYNCLKRSNIHTLLDLLSNSQEDLMRIEHFRIEDVKQILGIL 324 >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 = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 101/357 (28%), Positives = 173/357 (48%), Gaps = 73/357 (20%) Query: 22 QEEENRTLMIAE----PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 Q + NR L + PL A T+G A+RR L+S + G +I + I G +HE S++ G Sbjct: 20 QPDHNRRLHYSRFALSPLLVDQAMTIGVAIRRALLSEVEGISIISANIVGAVHEYSTLDG 79 Query: 78 VHEDLTDIILNIKGINLK-MSGDS-----HK--RVTIFKRGPGVVTAGDIQTVNDIEVLN 129 V E + +I+LN+K I +K G S HK R +IF +GPGVVTA I+ + I ++ Sbjct: 80 VRESVDEILLNLKQIVIKGAKGASITPLDHKEYRASIFAQGPGVVTAEHIKFPSSILAVD 139 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L + + +EL + +G + + RT+ + G IDA ++P++K ++++ S Sbjct: 140 PDQSIATLLNETQLCIELFIRQG---IAKQLTRTKKNHQGFF-IDANFTPVQKANFSIHS 195 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD----------------------- 226 + + L L + I T+ ++T +++ A L + Sbjct: 196 VGDPKGLQ-QLLLLEIWTNKTLTPAEALYQAHASLLNLFHQISPPLLHKELSPSKNILNQ 254 Query: 227 ----------QLGMFINFEEPK-----------KEVKEDINVKSLP---------FNPAL 256 G ++ E + KE++ + +KS N ++ Sbjct: 255 NSDSNSLGGSSFGRVVSLETRRDSTQTNNSSIPKEIQPSVRLKSYTDTNLSIDKQMNDSV 314 Query: 257 LKK---VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 K+ ++ELELS R +NCL+ NI + DL+ T+ D+L++ NFGRKS+ ++ VL Sbjct: 315 NKENLSIDELELSPRISNCLKKANINTIADLLNYTQEDLLKIKNFGRKSVEQVSLVL 371 >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 = 113 bits (283), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 83/298 (27%), Positives = 150/298 (50%), Gaps = 32/298 (10%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A+T+G+A+RRVL+ + G IT + + +E S I G+ E + +I++N+K I Sbjct: 36 PLRKGQANTIGSAIRRVLLGEVEGTCITRAKFHNISNEYSVIIGIEESIHEILMNLKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I GP VTA DI + +++ I N++ + + L + KG Sbjct: 96 LRSDAYGIREGSIHVVGPKKVTAQDIMLPPSVRIIDTTQHIANINKSITLDISLQIEKGR 155 Query: 154 GYV---PAKHHRTEN----DPIGLITIDALYSPIKKVSYTVE---SAREGQVLDYDKLSM 203 GY+ P ++ + D + IDA ++P++ V+Y++ S E Q + L + Sbjct: 156 GYIIQNPNNYNPKDEIFAIDAAFVFPIDAAFAPVQNVNYSIHSYWSENETQEI----LFL 211 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL------- 256 I T+G + ++++ ASR L D F+ F K+E + N S P+L Sbjct: 212 EIWTNGGLAPKEALYEASRNLID---FFLPFLNAKEENSDGTNSLSDDITPSLPILHIST 268 Query: 257 -LKK-------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 K+ +++L S R NCL+ NI + DL+ + D++++ + G +S+ EI Sbjct: 269 DTKRIAFDQMYIDQLNFSTRVYNCLKKANINTVSDLLNYSREDLMKIKHLGEQSVKEI 326 >gi|303308472|gb|ADM14339.1| RNA polymerase alpha subunit [Punica granatum] Length = 337 Score = 113 bits (283), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 86/304 (28%), Positives = 157/304 (51%), Gaps = 22/304 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKIPHEYSTIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ +I +GPG VTA DI +E+++ I +L + + L + Sbjct: 92 KEIVLRSYLYGTCNASICVKGPGCVTAQDIILPPSVEIIDNTQHIASLMEPINLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + GY H +T N+ G IDA++ P++ ++++ S G + L + I T+ Sbjct: 152 ERNRGY----HIKTPNNFQDGSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTN 206 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLK------- 258 GS+T ++++ ASR L D L F++ EE ++ + +LP F+ L K Sbjct: 207 GSLTPKEALHEASRNLIDLLIPFLHAEEENLHLENNQYKVTLPLFTFHDRLTKLRKTKKE 266 Query: 259 ------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +++LEL R N L+ NI + DL+ +++ D++++ +F R+ + +I +L Sbjct: 267 IALKYIFIDQLELPPRIYNFLKKSNIHTLLDLLNKSQEDLMKIKHFRREDVEQILDILEI 326 Query: 313 MGLF 316 +F Sbjct: 327 EKVF 330 >gi|119662291|emb|CAJ33132.1| RNA polymerase alpha subunit [Lactobacillus collinoides] Length = 135 Score = 113 bits (283), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 62/134 (46%), Positives = 88/134 (65%), Gaps = 3/134 (2%) Query: 80 EDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 ED+T IILN K I+LK+ G D + + I +GP VTAGDI +D+ VLNPD I + Sbjct: 2 EDVTQIILNTKKISLKLEGPDDEIESMEIDVKGPAQVTAGDITADSDVTVLNPDLYIATV 61 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVL 196 A M +T +KG GYV A ++ + D PIG++ ID++Y+PI++V+Y VE+ R GQ Sbjct: 62 AEGATFHMRMTANKGRGYVSADRNKAKEDMPIGVLPIDSIYTPIERVNYQVENTRVGQRD 121 Query: 197 DYDKLSMTIDTDGS 210 DYDKL++ + TD S Sbjct: 122 DYDKLTLDVWTDSS 135 >gi|306486177|gb|ADM92734.1| RNA polymerase alpha subunit protein [Davidia involucrata] Length = 328 Score = 113 bits (282), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 82/297 (27%), Positives = 152/297 (51%), Gaps = 20/297 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFERIPHEYSTIVGTQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I +GPG VTA DI + +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTCDASICVKGPGYVTAQDIISPPYVEIVDSTQYIASLTEPIDLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + N G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGY---RIKMPNNFQDGSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLK-------- 258 S+T ++++ ASR L D F++ EE ++++ + +LP F+ L K Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHTEEENLHLEDNQHKVTLPLFTFHEKLAKLRKNKKKI 267 Query: 259 -----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R NCL+ NI + D + ++ D++++ +F + + EI G+L Sbjct: 268 ALKYIFIDQSELPTRIYNCLKRSNIYTLLDFLNNSQEDLMKIEHFRIEDVKEILGIL 324 >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 = 113 bits (282), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 86/316 (27%), Positives = 155/316 (49%), Gaps = 40/316 (12%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR+L+ + G IT + + + HE S++ G+ E + +I++N+ Sbjct: 32 FILSPLLKGQADTIGIAMRRILLGEIDGTCITRAKSEKIPHEYSTVVGIQESIHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GPG VTA DI +EV++ I NL + +EL + Sbjct: 92 KEIVLRSNLYGTREASISFKGPGYVTAQDIILPPSVEVIDKTQHIANLTEPINLCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + N G TIDA++ P++ +Y++ S G D L + I T+G Sbjct: 152 ERKRGY---RIKTLNNIQDGSYTIDAVFMPVRNANYSIHSYVNGNE-KQDILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFIN---------------------FEEPKKEVKE----- 243 S T ++++ ASR L D F++ F + + VK+ Sbjct: 208 SFTPKEALYEASRNLIDLFIPFLHAEEENFNLENNQHKMTWPLFTFHDHDRFVKDKLTNT 267 Query: 244 --DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +I +KS+ +++LEL R NCL+ NI + + + +++ D++++ +F + Sbjct: 268 QKEITLKSI--------FIDQLELPPRIYNCLKKSNIHTVFEFLNKSQEDLMKIEHFRVE 319 Query: 302 SLVEIKGVLGTMGLFL 317 L I +L F+ Sbjct: 320 DLKNILNILKIENHFV 335 >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 = 113 bits (282), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 82/287 (28%), Positives = 150/287 (52%), Gaps = 22/287 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR+L+ + G IT V+ + + HE S+I G+ E + +I +N+ Sbjct: 32 FILSPLMKGQADTIGIAIRRILLGEIEGTCITRVKSEKIPHEYSTIIGIEESVHEIFMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK + + +I +GPG +TA DI +E+++ I N+ + +EL + Sbjct: 92 KEIVLKSNMYGTQDASISFKGPGYITAQDIILPPSVEIVDNRQHIANVTEPVNLCIELKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA + P++ V+Y++ S G + L + I T+G Sbjct: 152 ERNRGY---RIKTLKNFQDGSYDIDARFMPVRNVNYSIHSYVNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLKK------- 259 S+T ++++ AS+ L D F++ EE +++ + +LP F+ L+K Sbjct: 208 SLTPKEALYEASQNLIDLFIPFLHAEEENFNLEKKKHKVTLPLFTFHDILVKDKLRKNKK 267 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL R NCL+ NI + +L+ ++ +L++ +F Sbjct: 268 EIALKSIFIDQLELPPRIYNCLKRSNIHTLLELLNNSQEXLLKIEHF 314 >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 = 112 bits (280), Expect = 7e-23, Method: Compositional matrix adjust. Identities = 94/339 (27%), Positives = 163/339 (48%), Gaps = 30/339 (8%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M + +Q++ K NN N T +PL RG TLG ALRR+L+S++ A+ Sbjct: 4 MTKLEYQKVTKLNN--------STSNVTAFTLQPLERGMGQTLGVALRRILLSNITSLAL 55 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-----RVTIFKRGPGVVT 115 A++I+ V HE + G ED+ II+N++ + + + + K +VT+ PG VT Sbjct: 56 FAIKIEDVNHEFQVVDGCVEDVATIIMNLRKVKFQYNPEFVKDDEIIKVTLKADQPGEVT 115 Query: 116 AGDIQTVN-DIEVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHRT--ENDPIG- 169 + ++ N IE+LN I +L + + +EL + G G++ + ++ N I Sbjct: 116 SRLLEVNNSSIEILNKSLEIAHLSANGKHKLNIELYLRPGRGFISNEENKKLLNNSSITT 175 Query: 170 ----------LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 I D+ +SPI+KV+YTVE ++L+ + TDG++ + ++ Sbjct: 176 RMESKIKNGIFIATDSNFSPIEKVNYTVEELNSSSNKIEERLTFSFQTDGTVDPKSALQQ 235 Query: 220 ASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIV 279 A IL + N +E K V + + ++ N + + L LSVRS N L+ Sbjct: 236 ACEILVGHFKLIGNVDEMKVNVFAEESEQTQETNDNDV-DINSLNLSVRSLNALKRIGKT 294 Query: 280 YMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 + + + + ++ ++ N GRKSL EI+ L G L Sbjct: 295 KISQVAEMSLEELEQVKNLGRKSLDEIQQRLKEYGYELS 333 >gi|238810271|dbj|BAH70061.1| hypothetical protein [Mycoplasma fermentans PG18] Length = 339 Score = 112 bits (280), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 94/339 (27%), Positives = 163/339 (48%), Gaps = 30/339 (8%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M + +Q++ K NN N T +PL RG TLG ALRR+L+S++ A+ Sbjct: 6 MTKLEYQKVTKLNN--------STSNVTAFTLQPLERGMGQTLGVALRRILLSNITSLAL 57 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-----RVTIFKRGPGVVT 115 A++I+ V HE + G ED+ II+N++ + + + + K +VT+ PG VT Sbjct: 58 FAIKIEDVNHEFQVVDGCVEDVATIIMNLRKVKFQYNPEFVKDDEIIKVTLKADQPGEVT 117 Query: 116 AGDIQTVN-DIEVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHRT--ENDPIG- 169 + ++ N IE+LN I +L + + +EL + G G++ + ++ N I Sbjct: 118 SRLLEVNNSSIEILNKSLEIAHLSANGKHKLNIELYLRPGRGFISNEENKKLLNNSSITT 177 Query: 170 ----------LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 I D+ +SPI+KV+YTVE ++L+ + TDG++ + ++ Sbjct: 178 RMESKIKNGIFIATDSNFSPIEKVNYTVEELNSSSNKIEERLTFSFQTDGTVDPKSALQQ 237 Query: 220 ASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIV 279 A IL + N +E K V + + ++ N + + L LSVRS N L+ Sbjct: 238 ACEILVGHFKLIGNVDEMKVNVFAEESEQTQETNDNDV-DINSLNLSVRSLNALKRIGKT 296 Query: 280 YMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 + + + + ++ ++ N GRKSL EI+ L G L Sbjct: 297 KISQVAEMSLEELEQVKNLGRKSLDEIQQRLKEYGYELS 335 >gi|21039420|gb|AAM33639.1| RpoA [Escherichia coli] Length = 127 Score = 112 bits (280), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 59/129 (45%), Positives = 89/129 (68%), Gaps = 5/129 (3%) Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPF 252 Q + DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ EVKE+ F Sbjct: 3 QRTNLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKEE----KPEF 58 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 59 DPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 118 Query: 313 MGLFLGMNL 321 GL LGM L Sbjct: 119 RGLSLGMRL 127 >gi|290489696|gb|ADD31232.1| RNA polymerase alpha subunit protein [Plumbago auriculata] Length = 333 Score = 112 bits (280), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 84/300 (28%), Positives = 159/300 (53%), Gaps = 26/300 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S++ G+ E + +I++N+ Sbjct: 32 FILFPLRKGQADTIGIAMRRALLGEIEGTCITRAKSEKIAHEYSTLVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + + +I RGP +TA DI +E+++ I L +D + ++L Sbjct: 92 KEIVLRSNLYGTRDASICVRGPRCITAHDIILPPGVEIIDNTQHIATLTEPIDLCIGLQL 151 Query: 148 TVSKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 ++G+ +T+N+ G IDA++ P++ V++++ S G + L + I Sbjct: 152 ERNRGYRI------QTQNNFQDGSYPIDAVFMPVRNVNHSIHSYGNGNE-KQEILFLEIW 204 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK-- 259 T+GS+T ++++ ASR L D F++ EE + + + +LP F+ L L+K Sbjct: 205 TNGSLTPKEALYEASRNLIDLFIPFLHAEEENLHFEANQHKVTLPPFTFHDKLNELRKDK 264 Query: 260 ---------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LE R NCL+ NI + DL+ +++ D++++ +F + L +I G L Sbjct: 265 KKIALKSIFIDQLEFPPRIYNCLKNSNIHTLLDLLNKSQEDLMQIEDFRIEDLKQIWGTL 324 >gi|165910441|gb|ABY73975.1| RNA polymerase alpha subunit [Cuscuta nitida] Length = 339 Score = 112 bits (280), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 82/314 (26%), Positives = 154/314 (49%), Gaps = 36/314 (11%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+ A+RR L+S + G IT V HE S I G+ E + DI++N+ Sbjct: 32 FILSPLMKGQADTIAIAMRRALLSEIEGTCITRVTFQNASHEYSIIAGIQESVHDILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK + +++ +GP VTA DI +E+++ I +L + + L + Sbjct: 92 KEIVLKSNLYGTCDASLYIKGPRYVTAQDIILPPHVEIVDSTQHIASLTEPINLCIGLKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY+ H +N+ L DA++ P+ V++++ S + + L + I T+G Sbjct: 152 ERNRGYLIKAHPPFQNETYSL---DAVFMPVLNVNHSIYSYGNEKK---EILFLEIWTNG 205 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK----SLPFNPALLKK------ 259 S+T ++++ A++ L D F+ EE E++N++ +PF+P Sbjct: 206 SLTPKEALHEAAQNLMDLFIPFLQMEE------ENLNLEDAEHQIPFSPFTFYDKVSKLI 259 Query: 260 -----------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 +++L + NCL NI + DL+ +++ D+L++ +F + ++K Sbjct: 260 KKKKRSLKSIFIDQLAFPPKIYNCLTKSNIFTLLDLLNKSQEDLLKIEHF---HIEDVKQ 316 Query: 309 VLGTMGLFLGMNLP 322 +LG + ++LP Sbjct: 317 ILGILEKNFALDLP 330 >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 = 112 bits (280), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 85/306 (27%), Positives = 158/306 (51%), Gaps = 37/306 (12%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ L G IT + + + HE S+I G+ E + +I++N+ Sbjct: 34 FILSPLMKGQADTIGIAMRRALLGELEGTCITRAKSEKIPHEYSTIVGIQESVHEILMNL 93 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + + I +GPG VTA DI +E+++ + +L +D + +++ Sbjct: 94 KEIVLRGNLYGTRNAFICAKGPGYVTAQDIILPPSVEIVDNTQHVASLTEPIDLCIGLQI 153 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA---REGQVLDYDKLSMT 204 ++G+G K+ + P IDA++ P++ ++++ E Q + L + Sbjct: 154 ERNRGYGIKTPKNFHDGSYP-----IDAVFMPVRNANHSIHCYGNDNEKQEI----LFLE 204 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE------VKEDINVK-SLPFNPALL 257 I T+GS+T ++++ ASR L D +FI+F K+E + D+ + PF+ L+ Sbjct: 205 IWTNGSLTPKEALHEASRNLID---LFIHFLHAKEENLHLENNQHDVTLHFFFPFHYRLV 261 Query: 258 K-------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 K +++ EL R NCL+ NI + DL+ + D+++M +F + + Sbjct: 262 KLTKKKKEIALKYIFIDQSELPPRIYNCLKKSNIHTLLDLLNNSREDLMKMEHFRIEDVK 321 Query: 305 EIKGVL 310 +I G+L Sbjct: 322 QILGIL 327 >gi|108792413|emb|CAJ33201.1| RNA polymerase alpha subunit [Lactobacillus acidipiscis] Length = 133 Score = 112 bits (280), Expect = 9e-23, Method: Compositional matrix adjust. Identities = 53/126 (42%), Positives = 87/126 (69%), Gaps = 2/126 (1%) Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITI 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 FEEPKK 239 + K Sbjct: 121 LTDEAK 126 >gi|12265|emb|CAA27214.1| unnamed protein product [Spinacia oleracea] Length = 335 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 87/302 (28%), Positives = 163/302 (53%), Gaps = 28/302 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTILGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + +I RGP VTA DI +E+++ I +L +D + ++L Sbjct: 92 KEIVLRSNLYGACEASICVRGPRGVTAQDIILPPYVEIVDNTQHIASLTEPIDLCIGLQL 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ ++ A ++ + G IDAL+ P++ V++++ S G + L + I T Sbjct: 152 ERNRGY-HIKAPNNFQD----GSFPIDALFMPVRNVNHSIHSYGNGNE-KQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF-----NPALLKK--- 259 +GS+T ++++ ASR L D L F++ EE ++++ + SLP A ++K Sbjct: 206 NGSLTPKEALYEASRNLIDLLIPFLHAEE-NVNLEDNQHKVSLPLFTFHNRLAEIRKNKK 264 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +++LEL R NCL+ NI + DL+ ++ D+++M +F + ++K + G Sbjct: 265 KIALKFIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLIKMKHF---RIEDVKQIFG 321 Query: 312 TM 313 T+ Sbjct: 322 TL 323 >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 = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 91/333 (27%), Positives = 162/333 (48%), Gaps = 61/333 (18%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P+ G T+GN LRR+L++ L G + +I+GV E S++ G+ E + +I LN++ + Sbjct: 29 PVNPGQGLTIGNTLRRILLNDLPGIGVIGAEINGVQSEFSTLPGIRESVIEIFLNLRELI 88 Query: 94 LKMSGDSHKRVTIFK--------------RGPGVVTAGDIQTVNDIEVLNPDHVICN-LD 138 + ++V K P VVTA D+ + + E ++P+ I L Sbjct: 89 FTPTATCAQKVKQTKPFVYAKLNSELKIDNFPYVVTAKDLH-IPEYEFVDPNQQIATILS 147 Query: 139 VDAVVRMELT--VSKGHGY--------VPA--------KHHRTENDPIGL-ITIDALYSP 179 A +LT + +G GY VP + T+ + + IDA++ P Sbjct: 148 PTAAENFKLTLLIGQGRGYQSWKKLPGVPQLMDQRFFEQFDSTQTNSKSVTFPIDAIFMP 207 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI-----------LQDQL 228 I++V++TV+ +D + + + T+GSI D+V A+++ LQDQ Sbjct: 208 IRQVNFTVQE----HSVDGEYIYFEVWTNGSINPFDAVKSAAKVGMKLMTACLTTLQDQQ 263 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKK------VEELELSVRSTNCLRGENIVYMG 282 + +E K + E N + +N + +E+LELS+R+ NCL+ NI+ + Sbjct: 264 ---VYLDESK--LPETPNFVQVNYNKMESESNFDQIFIEQLELSLRAYNCLKRANILTLA 318 Query: 283 DLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 DL Q++ D++++ NFG+KS E++ L T G+ Sbjct: 319 DLSQQSFRDLMKLRNFGQKSADEVRAALSTYGI 351 >gi|313622252|gb|EFR92762.1| DNA-directed RNA polymerase subunit alpha [Listeria innocua FSL J1-023] Length = 129 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 53/120 (44%), Positives = 82/120 (68%) Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + I +GPGVVTA DI +D+E+LNPD I L +A + L ++G GY PA + Sbjct: 2 KTLEIDMQGPGVVTAADINYDSDVEILNPDLHIATLSDNAKFHVRLNATRGRGYTPADQN 61 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 + EN PIG++ +D+++SP+ +V+Y VE+ R GQ +YDKL+ + TDGSI+ E++V+L + Sbjct: 62 KRENMPIGVLPVDSIFSPVIRVNYQVENTRVGQSTNYDKLTFDVLTDGSISPEEAVSLGA 121 >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 = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 87/302 (28%), Positives = 163/302 (53%), Gaps = 28/302 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTILGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + +I RGP VTA DI +E+++ I +L +D + ++L Sbjct: 92 KEIVLRSNLYGTCEASICVRGPRGVTAQDIILPPYVEIVDNTQHIASLTEPIDLCIGLQL 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ ++ A ++ + G IDAL+ P++ V++++ S G + L + I T Sbjct: 152 ERNRGY-HIKAPNNFQD----GSFPIDALFMPVRNVNHSIHSYGNGNE-KQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF-----NPALLKK--- 259 +GS+T ++++ ASR L D L F++ EE ++++ + SLP A ++K Sbjct: 206 NGSLTPKEALYEASRNLIDLLIPFLHAEE-NVNLEDNQHKVSLPLFTFHNRLAEIRKNKK 264 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +++LEL R NCL+ NI + DL+ ++ D+++M +F + ++K + G Sbjct: 265 KIALKFIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLIKMKHF---RIEDVKQIFG 321 Query: 312 TM 313 T+ Sbjct: 322 TL 323 >gi|197131690|gb|ACH47363.1| RNA polymerase alpha subunit [Geranium carolinianum] Length = 329 Score = 111 bits (278), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 78/292 (26%), Positives = 152/292 (52%), Gaps = 18/292 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A +G A+RR L+ + G IT + + + HE ++I G+ E + +I++N+ Sbjct: 32 FILSPLKKGQADIIGIAMRRALLGEIEGTCITHAKFEKIPHEYTTIVGIQESIYEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL-NPDHVICNLD-VDAVVRMEL 147 K I L+ + D + +I RGP VTA DI N ++ N H++ + +D + +++ Sbjct: 92 KEIVLRSNLDGTRDASICVRGPRDVTAQDIILPNSAAIVDNTQHIVTLTEPIDFCIGLQI 151 Query: 148 TVSKGHGY---VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 ++G+ +P H P IDA++ P+K V++++ S G ++ L + Sbjct: 152 DRNRGYSRKIPMPTNFHDDRGYP-----IDAVFLPVKNVNHSIHSYENGS---HEMLFLE 203 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--VKSLPFNPALLKKV-- 260 I T+GS+T ++++ ASR L + F++ EE + + N LP + LK + Sbjct: 204 IWTNGSLTPKEALREASRKLINLFIPFLHAEEENFHFENNQNEHTDELPIDLCELKDIYI 263 Query: 261 -EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 + +EL R NCL+ I + DL+ + ++++ +F ++ + ++ +L Sbjct: 264 DQLVELPARFYNCLKRSGIHTVMDLLNKNTDGLMKITHFRQEDVEKVMNILN 315 >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 = 111 bits (277), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 73/295 (24%), Positives = 145/295 (49%), Gaps = 16/295 (5%) Query: 28 TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIIL 87 T + EPL RG+A+T+G LRR L+SS+ A A++I+ V HE +I G+ ED ++ Sbjct: 22 TTFVIEPLARGYANTMGTVLRRTLLSSITSVAPFAIKINNVEHEFQTISGLKEDAITLVR 81 Query: 88 NIKGINLKMSGDSHKRVTIFK-----RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 NI+ I + + ++ + K G + A DI V+ +E++N D I N+ Sbjct: 82 NIRNIRFVYNEEIFEKENLAKISFKTNKEGEIFASDIPEVSGLEIVNKDQYIANIAKGGS 141 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIG-----------LITIDALYSPIKKVSYTVESAR 191 + +L + KG G++ + ++ G + +D+ +SP+KK + + E Sbjct: 142 LEFDLFLRKGRGFIDFEENKNVISQYGSRLESSIKNGQFLAMDSDFSPVKKCAISFEELN 201 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 L ++L + I+TD +++ ++++ A++I+ + N + + N + Sbjct: 202 SSSKLIEERLKIKIETDCTVSAKEAIEQAAKIIVAHFQIIGNINALETIELFEENKEKKE 261 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + +L LSVRS N LR + +++ ++ ++ + N G+KS+ +I Sbjct: 262 REIKSTTPITKLGLSVRSENALRRAKYNTVEEVLGLSDEELSNIKNLGKKSIQDI 316 >gi|625804|pir||E49923 DNA-directed RNA polymerase (EC 2.7.7.6) alpha chain - Chlamydia trachomatis Length = 353 Score = 111 bits (277), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 73/295 (24%), Positives = 145/295 (49%), Gaps = 16/295 (5%) Query: 28 TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIIL 87 T + EPL RG+A+T+G LRR L+SS+ A A++I+ V HE +I G+ ED ++ Sbjct: 22 TTFVIEPLARGYANTMGTVLRRTLLSSITSVAPFAIKINNVEHEFETISGLKEDAITLVR 81 Query: 88 NIKGINLKMSGDSHKRVTIFK-----RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 NI+ I + + ++ + K G + A DI V+ +E++N D I N+ Sbjct: 82 NIRNIRFVYNEEIFEKENLAKISFKTNKEGEIFASDIPEVSGLEIVNKDQYIANIAKGGS 141 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIG-----------LITIDALYSPIKKVSYTVESAR 191 + +L + KG G++ + ++ G + +D+ +SP+KK + + E Sbjct: 142 LEFDLFLRKGRGFIDFEENKNVISQYGSRLESSIKNGQFLAMDSDFSPVKKCAISFEELN 201 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 L ++L + I+TD +++ ++++ A++I+ + N + + N + Sbjct: 202 SSSKLIEERLKIKIETDCTVSAKEAIEQAAKIIVAHFQIIGNINALETIELFEENKEKKE 261 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + +L LSVRS N LR + +++ ++ ++ + N G+KS+ +I Sbjct: 262 REIKSTTPITKLGLSVRSENALRRAKYNTVEEVLGLSDEELSNIKNLGKKSIQDI 316 >gi|290489676|gb|ADD31222.1| RNA polymerase alpha subunit protein [Ximenia americana] Length = 337 Score = 111 bits (277), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 87/310 (28%), Positives = 158/310 (50%), Gaps = 25/310 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RRVL+ + G IT + + V HE S+ G+ E + +I++N+ Sbjct: 32 FILSPLMKGRADTIGIAMRRVLLGEIEGTCITRAKSEQVPHEYSTAIGIQESIHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGP +TA DI + +E+++ I +L +EL + Sbjct: 92 KEIVLRSNLYGTCNASICVRGPRYITAQDIISPPSVEIVDNTQYIASLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + GY H + N+ G IDA++ P++ ++++ S G + L + I T+ Sbjct: 152 ERNRGY----HIKMPNNFQDGSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTN 206 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-FNP----ALLKK---- 259 GS+T + ++ AS+ L D F++ EE ++++ + LP F P A L+K Sbjct: 207 GSLTPKKALYEASQNLIDLFIPFLHAEEENLHLEDNQHKVILPLFTPHDRLAKLRKNKEK 266 Query: 260 -------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +++ EL R NCL+ NI + DL ++ D++++ +F + + K +LG Sbjct: 267 IALKSIFIDQSELPSRIYNCLKRSNIHTLLDLFNNSQKDLMKIEHF---RVEDGKQILGI 323 Query: 313 MGLFLGMNLP 322 + ++LP Sbjct: 324 LEKHFAVDLP 333 >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 = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 84/309 (27%), Positives = 159/309 (51%), Gaps = 33/309 (10%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G +RR+L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGITMRRILLGEIEGTCITRAKSEKIPHEYSTIVGIQESIHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GPG VTA DI +E+++ I NL + +EL + Sbjct: 92 KQIVLRSNLYGTRDASICFKGPGYVTARDIILPPSVEIVDNTQHIANLTEPINLCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDA--LYSPIKKVSYTVES---AREGQVLDYDKLSMT 204 + GY + +N G TID ++ P+ +Y++ S A E Q + L + Sbjct: 152 ERARGY---RKKTIDNIQDGSYTIDVDPVFMPVIHANYSIHSYLNANEKQEI----LFLE 204 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLKK-- 259 I T+GS+T ++++ A+R L D F++ EE + + + +LP F+ L+K Sbjct: 205 IWTNGSLTPKEALYEAARNLIDLFIPFLHAEEENFHFENNQHKVTLPLFAFHDRLVKDKL 264 Query: 260 -------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 +++LEL R NCL+ +I + L+ +++ D++++ +F S+ ++ Sbjct: 265 RKNKKQIELKSVFIDQLELPPRIYNCLKKSDIHTLYQLLNKSQEDLMKIEDF---SVEDV 321 Query: 307 KGVLGTMGL 315 K +L + + Sbjct: 322 KNILNILQI 330 >gi|639724|gb|AAA61684.1| RNA polymerase alpha subunit [Chlamydia muridarum] Length = 322 Score = 110 bits (276), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 72/295 (24%), Positives = 144/295 (48%), Gaps = 16/295 (5%) Query: 28 TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIIL 87 T + EPL RG+A+T+G LRR L+SS+ A A++I+ V HE +I G+ ED ++ Sbjct: 22 TTFVIEPLARGYANTMGTVLRRTLLSSITSVAPFAIKINNVEHEFQTISGLKEDAITLVR 81 Query: 88 NIKGINLK-----MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 NI+ I ++ +++ G + A DI V+ +E++N D I N+ Sbjct: 82 NIRNIRFVYNEEIFEKENLAKISFKTNKEGEIFASDIPEVSGLEIVNKDQYIANIAKGGS 141 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIG-----------LITIDALYSPIKKVSYTVESAR 191 + +L + KG G++ + ++ G + +D+ +SP+KK + + E Sbjct: 142 LEFDLFLRKGRGFIDFEENKNVISQYGSRLESSIKNGQFLAMDSDFSPVKKCAISFEELN 201 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 L ++L + I+TD +++ ++++ A++I+ + N + + N + Sbjct: 202 SSSKLIEERLKIKIETDCTVSAKEAIEQAAKIIVAHFQIIGNINALETIELFEENKEKKE 261 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + +L LSVRS N LR + +++ ++ ++ + N G+KS+ +I Sbjct: 262 REIKSTTPITKLGLSVRSENALRRAKYNTVEEVLGLSDEELSNIKNLGKKSIQDI 316 >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 = 110 bits (276), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 81/285 (28%), Positives = 145/285 (50%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+R+ L+ + G IT + + + HE S+I G+ E + +I +N+ Sbjct: 32 FILSPLMKGQADTIGIAMRKALLGEIEGTCITRAKSEKIPHEYSTIVGIQESVHEIFMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GPG VTA DI +E+++ I NL + +EL + Sbjct: 92 KEIVLRSNLYGTRDASICVKGPGYVTAQDIILPPSVEIVDNTQHIANLTEPINLCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + N G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGY---RIKTPNNFQDGSYPIDAVFMPVRNANHSIHSYVNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLK-------- 258 S+T ++++ ASR L D F++ EE +K + + +LP F+ L K Sbjct: 208 SLTPKEALYEASRNLIDFFIPFLHAEEENFHLKNNQHKVTLPLFTFHDRLAKLRKNKKEI 267 Query: 259 -----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++ EL R NCL+ NI + DL+ + D++++ +F Sbjct: 268 ALKYIFIDQSELPPRIYNCLKRSNIHTLLDLLNNSPDDLMKIKHF 312 >gi|290489690|gb|ADD31229.1| RNA polymerase alpha subunit protein [Heuchera sanguinea] Length = 337 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 83/309 (26%), Positives = 158/309 (51%), Gaps = 23/309 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L+ + + +I GPG VTA DI + +E+++ I +L + + L + Sbjct: 92 KEVVLRSNLYGTRNASICVSGPGYVTAQDIISPPSVEIVDNTQHIASLTEPIDLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 K GY + N G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 EKNRGY---RIKTPNNFQDGSYPIDAVFMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLK-------- 258 S+T ++++ ASR L D F++ EE ++++ + +LP F+ L K Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHAEEENLHLEDNQHKVTLPLFTFHDRLAKLRKNKKEI 267 Query: 259 -----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++ EL R CL+ NI + DL+ ++ D++++ +F + ++K +LG + Sbjct: 268 ALKYIFIDQSELPPRIYTCLKRSNIHTLLDLLNNSQEDLMKIEHF---RIEDVKEILGFL 324 Query: 314 GLFLGMNLP 322 ++LP Sbjct: 325 EKHFEIDLP 333 >gi|290489700|gb|ADD31234.1| RNA polymerase alpha subunit protein [Staphylea colchica] Length = 342 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 86/315 (27%), Positives = 159/315 (50%), Gaps = 30/315 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GPG VTA DI +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTRDASICIKGPGYVTAQDIILPPSVEIVDNTQHIASLTEPMDLCIGLQI 151 Query: 150 SKGHGY---VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 + GY P H + G IDA++ P++ V+Y++ S G + L + I Sbjct: 152 ERNRGYSIKTPNNFHFQD----GSYPIDAVFMPVRNVNYSIHSYGNGNE-KQEILFLEIW 206 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF-------------- 252 T+GS+T ++++ ASR L D F++ EE ++ + + +LP Sbjct: 207 TNGSLTPKEALHEASRNLIDLFIPFLHAEEDNGHLENNHHKLTLPLFTFHDRLAKLRKKK 266 Query: 253 ---NPALLKK--VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 +LK +++ ELS R NCL+ NI + DL+ ++ D+L++ + + ++K Sbjct: 267 KEQKEIVLKYIFIDQSELSPRIYNCLKRSNIHTLLDLLNNSQEDLLKIEDL---RIEDVK 323 Query: 308 GVLGTMGLFLGMNLP 322 +L + + ++LP Sbjct: 324 QILDILEIENTIDLP 338 >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 = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 82/298 (27%), Positives = 152/298 (51%), Gaps = 22/298 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKIPHEYSTIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I +GPG VTA DI +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTCNASICVKGPGCVTAQDILLPPSVEIIDNTQHIASLMEPIHLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + GY H ++ N+ G IDA++ P++ ++++ S Q + L + I T+ Sbjct: 152 ERNRGY----HIKSPNNFQDGSYPIDAVFMPVRNANHSIHSY-GNQNEKQEILFLEIWTN 206 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEV---KEDINVKSLPFNPALLK------- 258 GS+T ++++ ASR L D F++ EE + K ++ F+ L K Sbjct: 207 GSLTPKEALHEASRNLIDLFLPFLHAEEENLHLGNNKYNVTFPLFTFHKKLAKLRKPKNE 266 Query: 259 ------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R N L+G I + DL+ +++ D+++M +F + + +I +L Sbjct: 267 IALKSIFIDQLELPPRIYNSLKGSKIHTLSDLLNKSQEDLMKMKHFRIEDVKQILDIL 324 >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 = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 83/303 (27%), Positives = 152/303 (50%), Gaps = 32/303 (10%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + I +GPG VTA DI +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTRNAFICAKGPGYVTAQDIILPPSVEIVDNTQHIASLTEPIDLCIGLQI 151 Query: 150 SKGHGY---VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA---REGQVLDYDKLSM 203 + GY P H G +DA++ P++ ++++ E Q + L + Sbjct: 152 ERNRGYRIKTPNNFHD------GSYPLDAVFMPVRNANHSIHCYGNDNEKQEI----LFL 201 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA-------- 255 I T+GS+T ++++ ASR L D F++ EE ++ + + +LPF P Sbjct: 202 EIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLENNQHNVTLPFFPFHDRLAKLR 261 Query: 256 ------LLKK--VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 LK +++ EL R NCL+ NI + DL+ ++ D++++ +F + + +I Sbjct: 262 KKKKEIALKYIFIDQSELPPRIYNCLKKSNIHTLLDLLNNSQEDLMKIEHFRIEDVKQIL 321 Query: 308 GVL 310 G+L Sbjct: 322 GIL 324 >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 = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 82/298 (27%), Positives = 152/298 (51%), Gaps = 22/298 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKIPHEYSTIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I +GPG VTA DI +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTCNASICVKGPGCVTAQDILLPPSVEIIDNTQHIASLMEPIHLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + GY H ++ N+ G IDA++ P++ ++++ S Q + L + I T+ Sbjct: 152 ERNRGY----HIKSPNNFQDGSYPIDAVFMPVRNANHSIHSY-GNQNEKQEILFLEIWTN 206 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEV---KEDINVKSLPFNPALLK------- 258 GS+T ++++ ASR L D F++ EE + K ++ F+ L K Sbjct: 207 GSLTPKEALHEASRNLIDLFLPFLHAEEENLHLGKNKYNVTFPLFTFHKKLAKLRKPKNE 266 Query: 259 ------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R N L+G I + DL+ +++ D+++M +F + + +I +L Sbjct: 267 IALKSIFIDQLELPPRIYNSLKGSKIHTLSDLLNKSQEDLMKMKHFRIEDVKQILDIL 324 >gi|161511777|emb|CAP16899.1| DNA-directed RNA polymerase subunit alpha [Pediococcus stilesii] Length = 141 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 62/138 (44%), Positives = 85/138 (61%), Gaps = 2/138 (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 LDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 + LT G GY A + R + PI ++ ID++Y+PI++V+Y VE+ R GQ Sbjct: 61 VAEGTTFHAVLTADTGRGYTSADENKARKVDMPISVLPIDSIYTPIERVNYQVENTRVGQ 120 Query: 195 VLDYDKLSMTIDTDGSIT 212 DYDKL++ I TDGSIT Sbjct: 121 RDDYDKLTLDIWTDGSIT 138 >gi|197131698|gb|ACH47367.1| RNA polymerase alpha subunit [Sarcocaulon vanderietiae] Length = 333 Score = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 78/291 (26%), Positives = 151/291 (51%), Gaps = 12/291 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A +G A+RR L+ + G IT + + HE +++ G+ E + +I++N+ Sbjct: 32 FILSPLKKGQADIIGIAMRRALLVEIEGTCITHAKFAKIPHEYTTMAGIKESIYEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I RGP VTA DI +++ I L +EL + Sbjct: 92 KEIVLRSNLYGTRDASICVRGPRDVTAQDIILPPSTAIVDNTQHIVTLTEPIDFCVELKI 151 Query: 150 SKGHGY---VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +G GY +P + +D I IDA++ P++ V++++ S + G + L + I Sbjct: 152 ERGRGYSIKIPMPTNPFHHDSGYPIPIDAVFMPVRNVNHSIYSYKRGS---REILFLEIW 208 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKK---EVKEDINVKSLPFNPALLKKV--- 260 T+GS+T ++++ ASR L + F++ EE E ++ + + LP + LK++ Sbjct: 209 TNGSLTPKEALREASRKLINLFIPFLHAEEENFYLLENNQNQHTEELPIDSCGLKEIYID 268 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 + +EL R NCL+ I + DL+ ++ D++++ +F ++ + + +L Sbjct: 269 QLVELPPRFYNCLKRSGIHTVMDLLDKSRDDLMKITHFRQEDVERVMNILN 319 >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 = 110 bits (275), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 80/297 (26%), Positives = 152/297 (51%), Gaps = 20/297 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + H+ S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENIPHDYSNIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 I L+ + + I +GPG +TA DI +E+++ I L + +EL + Sbjct: 92 NEIVLRSNLYGTRNALICVQGPGYITARDIILPPSVEIIDNTQHIATLTEPIDLCIELKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + E+ IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGYSLKMSNNFEDRS---YPIDAVFMPVQNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA------LLKK---- 259 S+T ++++ ASR L + F++ EE ++ + + +LPF P L KK Sbjct: 208 SLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQVTLPFFPFHNRLVNLRKKTKEL 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R NCL+ NI + DL+ ++ D++++ +F + + +I +L Sbjct: 268 AFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLIKIEHFHVEDVKKILDIL 324 >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 = 110 bits (274), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 90/330 (27%), Positives = 155/330 (46%), Gaps = 41/330 (12%) Query: 10 IKPNNIEYIVLGQEEENRTL----MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 I I++ L + E++ L + P RG A T+G A+RR L + G +IT + Sbjct: 8 ISTQRIQWKCLESKTESKRLHYGRFVVSPFKRGQASTVGIAMRRALSQEVGGTSITRAKF 67 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR--GPGVVTAGDIQTVN 123 GV+HE S+I G+ E + D+++N+K I LK DS+ F GP VTAGD Sbjct: 68 HGVVHEYSTITGIQETIHDVLVNLKEIVLK--SDSNDIWEAFPSVMGPKEVTAGDTSLPP 125 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPI 180 ++ ++ I + +EL + + GY R EN G +IDA++ P+ Sbjct: 126 RVKAIDNSQYIATITQPISSNIELKIERDCGY------RIENSNECRDGQFSIDAVFMPV 179 Query: 181 KKVSYTVE---SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF------ 231 + V+Y++ + R Q + + + I T+GS T ++++ AS+ L D F Sbjct: 180 RNVNYSIHLFGNGRATQEISF----IEIWTNGSPTPHEALSEASKKLIDLSTPFSGVKCR 235 Query: 232 -INFEEPKKEVKEDINVKSLPFNPALLKKVE----------ELELSVRSTNCLRGENIVY 280 ++F E ++ + L K+E +LEL R+ NCL+ I Sbjct: 236 DVSFLEDHEDSSDSTRSPFLQLQFGNACKLEGKLFENMFIDQLELPARAFNCLKRAEIHT 295 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + D + + D+ ++ NFG+KS+ ++ L Sbjct: 296 IADSLNYSREDLSKIRNFGQKSVDQVSKAL 325 >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 = 110 bits (274), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 80/297 (26%), Positives = 152/297 (51%), Gaps = 20/297 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + H+ S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENIPHDYSNIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 I L+ + + I +GPG +TA DI +E+++ I L + +EL + Sbjct: 92 NEIVLRSNLYGTRNALICVQGPGYITARDIILPPSVEIIDNTQHIATLTEPIDLCIELKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + E+ IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGYSLKMSNNFEDRS---YPIDAVFMPVQNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA------LLKK---- 259 S+T ++++ ASR L + F++ EE ++ + + +LPF P L KK Sbjct: 208 SLTPKEALHEASRNLINLFIPFLHVEEETVYLENNQHQVTLPFFPFHNRLVNLRKKKKEL 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R NCL+ NI + DL+ ++ D++++ +F + + +I +L Sbjct: 268 AFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLIKIEHFHIEDVKKILDIL 324 >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 = 110 bits (274), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 83/294 (28%), Positives = 149/294 (50%), Gaps = 28/294 (9%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQID--GVLHEISSIKGVHEDLTDIILNIKG 91 P +G A T+GNALRR L+ ++GAAIT G++HE ++ G+ E + DI+LN++ Sbjct: 135 PFRQGQAITVGNALRRALLGEVQGAAITCATFKDMGIVHEYQAVDGIQETVQDILLNVRD 194 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + + + ++ I GP V AGDI + V +P I + +E+ V K Sbjct: 195 VAIGSNTHEPQKAFISVMGPRQVIAGDILCPPSLVVPDPSQNIALVTAAIPFNVEIEVEK 254 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY ++ N G ID+++ P+ + +Y+V S E + + + L + I T+GSI Sbjct: 255 DVGYRIVDPGKSTN---GRFYIDSVFMPVVQANYSVHSF-EVEDVTREILFLEIYTNGSI 310 Query: 212 TGEDSVALASR--------ILQDQLGMFINFEEPKKEVKE-----------DINVKSLPF 252 + E+++ A+R +L+ ++ N E + + D K + + Sbjct: 311 SPEEALIEAARSLIDLLLPLLESEVIEVTNTTEKENGSRNISMLSSFLSSSDQITKEVTY 370 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 +++L+L R+ NCL+ NI + DL+ T+ D++R+ NFG+KS+ E+ Sbjct: 371 KHVF---IDQLKLPARAYNCLKRANIHTVSDLLDYTQDDLMRIKNFGKKSVEEV 421 >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 = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 80/297 (26%), Positives = 152/297 (51%), Gaps = 20/297 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + H+ S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENIPHDYSNIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 I L+ + + I +GPG +TA DI +E+++ I L + +EL + Sbjct: 92 NEIVLRSNLYGTRNALICVQGPGYITARDIILPPSVEIIDNTQHIATLTETIDLCIELKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + E+ IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGYSLKMSNNFEDRS---YPIDAVFMPVENANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA------LLKK---- 259 S+T ++++ ASR L + F++ EE ++ + + +LPF P L KK Sbjct: 208 SLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQVTLPFFPFHNRLVNLRKKTKEL 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R NCL+ NI + DL+ ++ D++++ +F + + +I +L Sbjct: 268 AFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLIKIEHFHVEDVKKILDIL 324 >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 = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 87/310 (28%), Positives = 155/310 (50%), Gaps = 31/310 (10%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQID--GVLHEISSIKGVHEDLTDIILNIKG 91 P +G A T+GNALRR L+ ++GAAIT G++HE ++ G+ E + DI+LN++ Sbjct: 222 PFRQGQAITVGNALRRALLGEVQGAAITCATFKDMGIVHEYQAVDGIQETVQDILLNVRD 281 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + + + ++ I GP V AGDI + V +P I + +E+ V K Sbjct: 282 VAIGSNTHEPQKAFISVMGPRQVIAGDILCPPSLVVPDPSQNIALVTAAIPFNVEIEVEK 341 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY ++ N G ID+++ P+ + +Y+V S E + + + L + I T+GSI Sbjct: 342 DVGYRIVDPGKSTN---GRFYIDSVFMPVVQANYSVHSF-EVEDVTREILFLEIYTNGSI 397 Query: 212 TGEDSVALASR--------ILQDQLGMFINFEEPKKEVKE-----------DINVKSLPF 252 + E+++ A+R +L+ ++ N E + + D K + + Sbjct: 398 SPEEALIEAARSLIDLLLPLLESEVIEVTNTTEKENGSRNISMLSSFLSSSDQITKEVTY 457 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +++L+L R+ NCL+ NI + DL+ T+ D++R+ NFG+KS+ E VL Sbjct: 458 KHVF---IDQLKLPARAYNCLKRANIHTVSDLLDYTQDDLMRIKNFGKKSVEE---VLEA 511 Query: 313 MGLFLGMNLP 322 + ++LP Sbjct: 512 LRAQFNISLP 521 >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 = 109 bits (273), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 80/299 (26%), Positives = 152/299 (50%), Gaps = 22/299 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + H+ S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENIPHDYSNIAGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 I L+ + + I +GPG +TA DI +E+++ I L + +EL + Sbjct: 92 NEIVLRSNLYGTRNALICVQGPGYITARDIILPPAVEIIDNTQHIATLTEPIDLCIELKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + E+ IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGYSLKMSNNFEDRS---YPIDAVFMPVENANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA------LLKK---- 259 S+T ++++ ASR L + F++ EE ++ + + +LPF P L KK Sbjct: 208 SLTPKEALHQASRNLINLFIPFLHVEEETFYLENNQHQVTLPFFPFHNRLVNLRKKKKTK 267 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R NCL+ NI + DL+ ++ D++++ +F + + +I +L Sbjct: 268 ELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLIKIEHFHVEDVKKILDIL 326 >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 = 109 bits (272), Expect = 6e-22, Method: Compositional matrix adjust. Identities = 80/310 (25%), Positives = 148/310 (47%), Gaps = 22/310 (7%) Query: 15 IEYIVLGQEEENRTL----MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 I++ + + E++ L + 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 SQYVVTITQPISVNIESKIEKDCGYRIENSHGYGG---GEFPVDAVSMPVRNVNYSVHLF 189 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EPKKEVKEDINVKS 249 G+ + + L + I T+GS+T ++++ AS+ L D L F++ + E ++ + + Sbjct: 190 GSGKAM-RETLFIEIWTNGSLTPDEAICEASKKLIDLLTPFLHVKCEDVPHSGDNQDFSA 248 Query: 250 LPFNPALLKKVEE-------------LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 +P+ V E LEL R+ NCL+ I + DL+ + D R+ Sbjct: 249 STGSPSHFDDVSELEGKISKNTFIDQLELPARAFNCLKRAEIHTISDLLNYSREDSSRIK 308 Query: 297 NFGRKSLVEI 306 +FG+KS+ ++ Sbjct: 309 SFGQKSVDQV 318 >gi|254755535|ref|ZP_05207569.1| DNA-directed RNA polymerase subunit alpha [Bacillus anthracis str. Vollum] Length = 150 Score = 109 bits (272), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 56/145 (38%), Positives = 92/145 (63%) Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 ID++Y+P+ +V+Y VE R GQV +YDKL++ + TDGSI +++++L ++IL + L +F+ Sbjct: 2 IDSIYTPVSRVTYQVEKTRVGQVANYDKLTLDVWTDGSIGPKEAISLGAKILTEHLNIFV 61 Query: 233 NFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + + + + + L +EEL+LSVRS NCL+ I + +L +TE DM Sbjct: 62 GLTDEAQNAEIMVEKEEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDM 121 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFL 317 +++ N GRKSL E+K L +GL L Sbjct: 122 MKVRNLGRKSLEEVKHKLEELGLGL 146 >gi|150036846|emb|CAM98288.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 169 Score = 109 bits (272), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 62/161 (38%), Positives = 96/161 (59%), Gaps = 2/161 (1%) Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND-- 166 +GP VTA D+ DIEVLNPD I L + M +T KG GY A+ ++ D Sbjct: 9 QGPKDVTAADLMGSADIEVLNPDLHIATLAAGKALHMTVTAVKGRGYSSAEENKQLRDEM 68 Query: 167 PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 PIG++T+D++Y+PI++V+Y VE+ R G DYDKL+M + T+GSI D+++L S+IL + Sbjct: 69 PIGVLTVDSIYTPIERVNYHVENKRVGSRDDYDKLTMEVWTNGSIKPSDALSLGSKILTE 128 Query: 227 QLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 L +F + ++ K + + A +E+L+LSV Sbjct: 129 HLNLFTDISPVAQDTKVMVESEPAANTAADAAPIEDLDLSV 169 >gi|150036734|emb|CAM98258.1| DNA-directed RNA polymerase alpha chain [Leuconostoc citreum] Length = 145 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 60/145 (41%), 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 CNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESARE 192 + + M +T KG GY A ++ D 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|300431316|gb|ADK12621.1| RNA polymerase alpha subunit [Lorenzochloa erectifolia] Length = 339 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 84/288 (29%), Positives = 138/288 (47%), Gaps = 26/288 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ E + +I+LN+ Sbjct: 32 FILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGIEESVQEILLNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I NL +EL + Sbjct: 92 KEIVLRSNLYGVRDASICVKGPRYITAQDITLPPSVEIVDTAQPIANLTEPIDFCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + ++ G IDA+ P++ V+Y++ S G ++ L + I T+G Sbjct: 152 KRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFI--------------NFEEP-----KKEVKEDINVKSL 250 S+T ++++ ASR L D F+ F P KK N K + Sbjct: 208 SLTPKEALYEASRNLIDLFLPFLXXXXXXXXXXXNKNRFTPPLFTFQKKLTNLXKNKKGI 267 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 P +LEL R+ NCL+ I + DL+ +TE ++ + +F Sbjct: 268 PXXCIF---XXQLELPSRTYNCLKRAXIHTLLDLLSKTEEXLMXIDSF 312 >gi|154424749|emb|CAL18477.1| RNA polymerase alpha subunit [Streptococcus pyogenes] Length = 128 Score = 108 bits (271), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 54/127 (42%), Positives = 86/127 (67%) Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+KG+ +K + K + + GP VTAGDI T +DIE++NPDH + + +R Sbjct: 2 IILNVKGLAVKSYVEDEKIIELEVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLR 61 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ Sbjct: 62 ATMTVAKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIE 121 Query: 205 IDTDGSI 211 I T+G+I Sbjct: 122 IMTNGTI 128 >gi|69215820|gb|AAZ03866.1| RNA polymerase alpha chain [Ginkgo biloba] Length = 337 Score = 108 bits (271), Expect = 9e-22, Method: Compositional matrix adjust. Identities = 84/293 (28%), Positives = 142/293 (48%), Gaps = 20/293 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL +G A+T+G A+RR L+ + G IT + + + HE S+I G+ E + DI +N++GI Sbjct: 36 PLQKGQANTIGIAMRRALLGEVEGTCITHAKFENMTHEYSAIMGIEESVHDISINLRGIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ + +I+ GP VTA DI + +++ I +L + + K Sbjct: 96 LQSDPYGIREASIYSVGPRDVTAQDIILPPSVRIIDTTQHIASLKESITSDIRSQIGKDR 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY + N G+ + DA+ P++ +Y++ S G + + L I T+GS+ Sbjct: 156 GY---RIQSPNNSRDGIFSTDAVSMPVRNANYSIHSYGNGNEMQ-EILFSEIWTNGSLAP 211 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKED---INVKSLPFN--PALLKKVEE------ 262 +++ ASR L D F+ EE + ++ N+ PF+ +K+EE Sbjct: 212 GEALYEASRNLIDLFIPFMRAEEQNIDGIDNWNGYNMSLFPFSHISTDTEKMEEEIAFKH 271 Query: 263 -----LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 EL R NCL+ NI + DL+ + D R+ NFG +S+ +I VL Sbjct: 272 IFIDQSELPPRVYNCLKRVNIHTLSDLLNYSRDDPTRIENFGNQSVEQILEVL 324 >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 = 108 bits (271), Expect = 9e-22, Method: Compositional matrix adjust. Identities = 79/299 (26%), Positives = 156/299 (52%), Gaps = 24/299 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT V+ + + H+ S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEMEGTCITRVKSENIPHDYSNIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 I L+ + + I +GPG +TA DI +E+++ I L +D + +++ Sbjct: 92 NEIVLRSNLYGTRNALICVQGPGYITARDIILPPSVEIVDNTQHIATLTEPIDLCIGLKI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ + + + P IDA++ P++ ++++ S G + L + I T Sbjct: 152 ERNRGYSLKISNNLEDRSYP-----IDAVFMPVQNANHSIHSYGNGNE-KQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA------LLKK-- 259 +GS+T ++++ ASR L + F++ EE ++ + + +LPF P L KK Sbjct: 206 NGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQVTLPFFPFHNRFFNLRKKKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R NCL+ NI + DL+ ++ D++++ +F + + +I +L Sbjct: 266 ELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLIKIEHFHVEDVKKILDIL 324 >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 = 108 bits (271), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 84/311 (27%), Positives = 155/311 (49%), Gaps = 31/311 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G +RR+L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGITMRRILLGEIEGTCITRAKSEKIPHEYSTIVGIQESIHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GPG VTA DI + +EV++ I NL + +EL + Sbjct: 92 KEIVLRSNLYGTREASICFKGPGYVTAQDI-ILPSVEVIDNTQHIANLTEPINLCIELQI 150 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + N G TIDA++ P++ ++++ S G + L + I T+G Sbjct: 151 ERKRGY---RIKTLNNIQDGSYTIDAVFMPVRNANHSIHSYVNGNQ-KQEILFLEIWTNG 206 Query: 210 SITGEDSVALASRILQDQLGMFIN---------------------FEEPKKEVKEDI--N 246 S+T ++++ ASR L D F++ F + + VK+ + N Sbjct: 207 SLTPKEALYEASRNLIDLFIPFLHAEEENLNFENNQHKMTLPLFTFHDHDRFVKDKLRKN 266 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 K + +++LEL R NCL+ NI + +L+ +++ D++++ +F + L I Sbjct: 267 QKEITLKSIF---IDQLELPPRIYNCLKKSNIHTVLELLNKSQEDLMKIEHFRVEDLKFI 323 Query: 307 KGVLGTMGLFL 317 +L F+ Sbjct: 324 LNILQIENHFV 334 >gi|119662829|emb|CAJ33207.1| RNA polymerase alpha subunit [Lactobacillus ingluviei] Length = 132 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 55/127 (43%), Positives = 83/127 (65%), Gaps = 1/127 (0%) Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND-P 167 +GP VTA DIQ D+ +LNPD I + A + M +T G GY A ++ D Sbjct: 3 KGPAEVTAADIQADGDVTILNPDLHIATVADGAELHMRMTADTGRGYNSADVNKARMDLA 62 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 IG++ ID++Y+PI++V+YTVE+ R GQ DYDKL++ + TDGS+T ++++LA++IL Sbjct: 63 IGVLPIDSIYTPIERVNYTVENTRVGQSNDYDKLTLDVWTDGSLTPTEAISLAAKILTSH 122 Query: 228 LGMFINF 234 L MF+N Sbjct: 123 LTMFVNL 129 >gi|61676006|gb|AAX51668.1| DNA dependent RNA polymerase alpha subunit [Waddlia chondrophila WSU 86-1044] Length = 174 Score = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 66/174 (37%), Positives = 98/174 (56%), Gaps = 17/174 (9%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM- 96 G HTLGN+LRR++++SL AI V+I+GV HE +I + ED+T+IILNIKG L+ Sbjct: 1 GMGHTLGNSLRRLMLTSLEAPAIIGVRIEGVAHEYMAIDSIVEDMTNIILNIKGAKLRKL 60 Query: 97 ----SGDSHKRVTIFK------------RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 + ++ R + K +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|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 = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 79/297 (26%), Positives = 151/297 (50%), Gaps = 20/297 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + H+ S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENIPHDYSNIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 I L+ + + I +GPG +TA DI +E+++ I L + +EL + Sbjct: 92 NEIVLRSNLYGTRNALICVQGPGYITAQDIILPPSVEIIDNTQHIATLTEPIDLCIELKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + E+ IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGYSLKMSNNFEDRS---YPIDAVFMPVQNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA------LLKK---- 259 S+T ++++ ASR L + F++ EE ++ + + +LP P L KK Sbjct: 208 SLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQVTLPLFPFHNRLVNLRKKKKEL 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R NCL+ NI + DL+ ++ D++++ +F + + +I +L Sbjct: 268 AFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLIKIEHFHMEDVKKILDIL 324 >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 = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 65/200 (32%), Positives = 112/200 (56%), Gaps = 11/200 (5%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS 97 G T+G+ALRRVL++ L G AI ++I + E SS+ GV ED+ +IILN+K I ++ Sbjct: 29 GQGTTVGSALRRVLLTDLPGLAIVGLRIANINTEFSSLPGVREDILEIILNVKDIVIEGE 88 Query: 98 GDSHKRVTIFK---RGPGVVTAGDIQTVND--IEVLNPDHVICNLDVDAVVRMELTVSKG 152 +S K + + +GPGVVTA I+ D I+++NP I ++V++ + ME V G Sbjct: 89 FNSSKPWVLGRLKLKGPGVVTAALIEFEEDANIQIINPSQYIATIEVNSSIEMEFLVQTG 148 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR------EGQVLDYDKLSMTID 206 Y + + + IDA++ P+ KV++ V S + + D + L++ I Sbjct: 149 KNYRLVESENSITYSTDFLQIDAIFMPVTKVAFEVTSTKTNALENNSSIQDNENLTLEIW 208 Query: 207 TDGSITGEDSVALASRILQD 226 T+GSI+ ++ ++ IL++ Sbjct: 209 TNGSISPIKALVFSASILEN 228 Score = 43.5 bits (101), Expect = 0.047, Method: Compositional matrix adjust. Identities = 23/54 (42%), Positives = 34/54 (62%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +EEL LSVR+ N L+ NI + DL+Q + D+ + NFG+KSL E+ L + Sbjct: 343 IEELILSVRAYNGLKRANIHSVSDLVQYSIKDLKDIKNFGKKSLDEVVASLKNL 396 >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 = 108 bits (270), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 84/297 (28%), Positives = 150/297 (50%), Gaps = 19/297 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RRVL+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRVLLGEIEGTCITRAKSEKIPHEYSTIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + I +GPG VTA DI +E+++ I +L + + L + Sbjct: 92 KDIVLRSNLYGTCDALICVKGPGYVTAQDILLPPSVEIVDNTQHIASLTEPIDLSIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY K T D IDA++ P++ +++++S G + L + I T+G Sbjct: 152 ERSRGY-NIKTPNTFQDG-NCYPIDAVFMPVRNANHSIQSYGNGNE-KQEILFLEIWTNG 208 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN------PALLKKVEEL 263 S+T ++++ ASR L D F+ E+ ++ + +LPF L KK +E+ Sbjct: 209 SLTPKEALHEASRSLIDLFIPFLQAEDENLPLENNQYKVTLPFFTFHDRLAKLTKKKKEI 268 Query: 264 ----------ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 E+S R NCL+ NI + DL+ + D++++ +F + + +I +L Sbjct: 269 ALKSIFIDQSEMSPRIYNCLKKSNIHTLFDLLNTRQEDLMKIEHFRIEDVKQIMSIL 325 >gi|165910443|gb|ABY73976.1| RNA polymerase alpha subunit [Cuscuta epilinum] Length = 330 Score = 108 bits (269), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 86/309 (27%), Positives = 150/309 (48%), Gaps = 27/309 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT V+ + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLIKGQADTIGIAMRRALLGEIEGTCITRVKSEKASHEYSTIGGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I +GP VTA DI +++++ I L + L + Sbjct: 92 KEIVLRSNLYGTCDASICIKGPRHVTAQDIILPPHVQIVDNTQHIAWLTEPIDFFIGLKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES-AREGQVLDYDKLSMTIDTD 208 + GY ++ G+ IDAL+ P++ ++++ S E Q + L + I T+ Sbjct: 152 ERNRGYFNKVDLHFDD---GIYPIDALFMPVQNANHSIHSYGNEKQ----EILFLEIWTN 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPK---KEVKEDINVKSLPFNPALLKK------ 259 GS+T ++++ A+RIL D F + EE + + I + SL F + K Sbjct: 205 GSLTPKEALHEAARILIDFFIPFFHMEEENLYLADAEHTIPLSSLIFYNKVTKLIKKKKK 264 Query: 260 -------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +++LE + NCL NI + DL E D+L++ +F L +IK +LG Sbjct: 265 LSLKLIFIDQLEFPPKIYNCLTKSNIFTLFDLFNHKEEDLLKIEHF---QLEDIKKILGI 321 Query: 313 MGLFLGMNL 321 + + + L Sbjct: 322 LAKYFALYL 330 >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 = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 80/298 (26%), Positives = 150/298 (50%), Gaps = 26/298 (8%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + P RG +T+G A+RR L+ + GA+IT + +GV+HE S+I G+ E + DI +N+K Sbjct: 33 VISPFKRGQVNTVGIAMRRALLEEVGGASITCAKFEGVIHEYSTITGIQETIHDISVNLK 92 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + + K + GP VTAGD +++++ I + V +E + Sbjct: 93 ETVPRSDSNDSKEAFLSVTGPKRVTAGDTSLPPSVKIIDDSQYIVTITQPISVNIESRIE 152 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE---SAREGQVLDYDKLSMTIDT 207 K GY + + + G +DA+ P++ V+Y+V S RE + + + + I T Sbjct: 153 KDCGYRIEEFNGYRD---GEFPVDAVPMPVRNVNYSVHPFGSGREMREISF----IEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEE---PKKEVKEDINVKSLPFNPALL------- 257 +GS T +++ AS+ L D L F++ + P E ++D + ++ + L+ Sbjct: 206 NGSPTPNEALCEASKNLIDLLIPFLHMKHEDVPHFEDEQDSSDLTI-LSSQLIGVGESEG 264 Query: 258 -----KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LE R+ NCL+ I + DL+ + D+L++ +FG+KS+ ++ L Sbjct: 265 EVLRNTFIDQLESPARAFNCLKRAEIHTITDLLNHSREDLLKIKSFGKKSVDQVSRAL 322 >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 = 107 bits (268), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 55/108 (50%), Positives = 80/108 (74%), Gaps = 4/108 (3%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T+ Sbjct: 16 DNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNP 130 IILN+K +L +S + + VT++ K+GPG VTAGDI + V NP Sbjct: 76 IILNLK--SLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNP 121 >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 = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 84/309 (27%), Positives = 156/309 (50%), Gaps = 21/309 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A +G A+RR L+ + G IT + D + HE S+I G+ E + I++N+ Sbjct: 32 FILSPLMKGQADMIGIAMRRALLGEIEGTCITRAKSDKIPHEYSTIVGIEESVHQILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +IF RGP VTA DI + +++++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTCDASIFVRGPRCVTAQDIISPPSVKMVDTTQHIASLTEPIDLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY K + D I I+A+ P++ ++++ S G + L + I T+G Sbjct: 152 ERDRGYR-MKTPNNDQDGSYPIPIEAVSMPVRNANHSIHSYGNGNE-KQEILFLEIWTNG 209 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF-----NPALLKK----- 259 S+T ++++ AS L D F++ EE +++ +N +LPF A L+K Sbjct: 210 SLTPKEALHEASHNLIDLFIPFLHGEEEDINLEDSLNRGTLPFFTFQDKLANLRKNKKAI 269 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++ EL R+ NCL+ NI + DL+ ++ D++R+ + + ++K +L + Sbjct: 270 ALECIFIDQSELPPRTYNCLKRSNIHTLLDLLSNSQEDLMRIEHL---RIEDVKRILDIL 326 Query: 314 GLFLGMNLP 322 ++LP Sbjct: 327 QKHFTIDLP 335 >gi|262400792|gb|ACY66281.1| RNA polymerase alpha subunit [Brassica napus] Length = 327 Score = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 80/297 (26%), Positives = 150/297 (50%), Gaps = 20/297 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + H+ S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENIPHDYSNIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 I LK + + I +GPG +TA DI +E+++ I L + + L + Sbjct: 92 NEIVLKSNLYGTRNALICVQGPGYITARDIVLPPSVEIVDNTQHIATLTEPINLCIGLKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + E+ IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGYSLKMSNNFEDRS---YPIDAVFMPVQNANHSIHSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA------LLKK---- 259 S+T ++++ ASR L + F++ EE ++ + + +LP P L KK Sbjct: 208 SLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQVTLPLFPFHNRLVNLRKKKKEL 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R NCL+ NI + DL+ ++ D+++M +F + + +I +L Sbjct: 268 AFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLIKMEHFHIEDVKKILDIL 324 >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 = 107 bits (267), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 81/293 (27%), Positives = 150/293 (51%), Gaps = 17/293 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A +G A+RR L+ + G IT + + HE ++I G+ E + +I++N+ Sbjct: 32 FILSPLKKGQADIIGIAMRRALLGEIEGTCITHAKFAKIPHEYTTIAGIKESIYEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I RGP VTA DI +++ I L + L + Sbjct: 92 KEIVLRSNLYGTRDASICVRGPRDVTAQDIILPPSTAIVDNTQHIFTLTEPIDFCVGLKI 151 Query: 150 SKGHGY---VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +G GY +P +D IDA++ P++ V++++ S G ++ L + I Sbjct: 152 ERGRGYSIKIPMPTDLFHHD--SAYPIDAVFMPVRNVNHSIHSYERGS---HEMLFLEIW 206 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKK---EVKEDINVKSLPFNPALLKKV--- 260 T+GS+T ++++ ASR L + L F++ EE E ++ + + LP + LK + Sbjct: 207 TNGSLTPKEALREASRKLINLLMPFLHAEEENFYLVENNQNQDTEELPIDLCGLKDIYID 266 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 + +EL R NCL+ I + DL+ + D+++M +F ++ +I+GV+ + Sbjct: 267 QLVELPPRFYNCLKRSGIHTVMDLLDKNRDDLMKMTHFRQE---DIEGVMNIL 316 >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 = 107 bits (267), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 79/288 (27%), Positives = 152/288 (52%), Gaps = 12/288 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A +G A+RR L+ L G IT + + HE ++I G+ E + +I++N+ Sbjct: 32 FILSPLKKGQADIIGIAMRRALLGELEGTCITHAKFGKIPHEYTTIVGIQESVYEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL-NPDHVICNLD-VDAVVRMEL 147 K I L+ + + +I RGP VTA DI + ++ N H++ + +D V +++ Sbjct: 92 KEIVLRSNLYGTRGASICVRGPRDVTAQDIVLPPSVAIVDNTQHIVTLTEPIDFCVGLQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ + ND G IDA++ P+K V++++ S G ++ L + I T Sbjct: 152 ERNRGYSIKIPTATNSHND--GGYPIDAVFMPVKNVNHSIHSYENG---SHEMLFLEIWT 206 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--VKSLPFNPALLKKV---EE 262 +GS+T ++++ ASR L + F+N EE ++ + N + L + LK + + Sbjct: 207 NGSLTPKEALREASRKLINLFIPFLNAEEENSHLENNQNEHTEELSRDFCGLKDIYIDQL 266 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +EL R N L+G I + DL+ + D++++ +F ++ + ++ +L Sbjct: 267 VELPPRLYNSLKGSGIHTVMDLLDKNPDDLMKITHFRQEDVEKVMNIL 314 >gi|66876504|gb|AAY58043.1| RpoA [Cuscuta europaea] Length = 329 Score = 107 bits (266), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 83/307 (27%), Positives = 148/307 (48%), Gaps = 27/307 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT V+ + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLIKGQADTIGIAMRRALLGEIEGTCITRVKSEKASHEYSTIGGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I +GP VTA DI +++++ I L + L + Sbjct: 92 KEIVLRSNLYESCDASICIKGPRHVTAQDIILPPHVQIVDNTQHIAWLTEPIDFFIGLKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES-AREGQVLDYDKLSMTIDTD 208 + GY ++ G IDAL+ P++ ++++ S E Q + L + I T+ Sbjct: 152 ERNRGYFNKVDLHFDD---GSYPIDALFMPVQNANHSIHSYGNEKQ----EILFLEIWTN 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPK---KEVKEDINVKSLPFNPALLKK------ 259 GS+T ++++ ++RIL D F EE + K I + L F + Sbjct: 205 GSLTPKEALHESARILIDFFIPFFQMEEENLYLADAKHTIXLPPLIFYNKVTTLIKKKKK 264 Query: 260 -------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +++LE + NCL+ NI + DL + + D+L++ +F L +IK +LG Sbjct: 265 LSLKLIFIDQLEFPPKIYNCLKKSNIFTLFDLFNQKQEDLLKIEHF---QLEDIKHILGI 321 Query: 313 MGLFLGM 319 +G + + Sbjct: 322 LGKYFAL 328 >gi|165910445|gb|ABY73977.1| RNA polymerase alpha subunit [Cuscuta europaea] Length = 329 Score = 107 bits (266), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 83/307 (27%), Positives = 148/307 (48%), Gaps = 27/307 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT V+ + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLIKGQADTIGIAMRRALLGEIEGTCITRVKSEKASHEYSTIGGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I +GP VTA DI +++++ I L + L + Sbjct: 92 KEIVLRSNLYESCDASICIKGPRHVTAQDIILPPHVQIVDNTQHIAWLTEPIDFFIGLKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES-AREGQVLDYDKLSMTIDTD 208 + GY ++ G IDAL+ P++ ++++ S E Q + L + I T+ Sbjct: 152 ERNRGYFNKVDLHFDD---GSYPIDALFMPVQNANHSIHSYGNEKQ----EILFLEIWTN 204 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPK---KEVKEDINVKSLPFNPALLKK------ 259 GS+T ++++ ++RIL D F EE + K I + L F + Sbjct: 205 GSLTPKEALHESARILIDFFIPFFQMEEENLYLADAKHTIPLPPLIFYNKVTTLIKKKKK 264 Query: 260 -------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +++LE + NCL+ NI + DL + + D+L++ +F L +IK +LG Sbjct: 265 LSLKLIFIDQLEFPPKIYNCLKKSNIFTLFDLFNQKQEDLLKIEHF---QLEDIKHILGI 321 Query: 313 MGLFLGM 319 +G + + Sbjct: 322 LGKYFAL 328 >gi|197131686|gb|ACH47361.1| RNA polymerase alpha subunit [Erodium chrysanthum] Length = 329 Score = 107 bits (266), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 81/292 (27%), Positives = 144/292 (49%), Gaps = 18/292 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A +G A+RR L+ + G IT Q + + HE ++ G+ E + +I++N+ Sbjct: 32 FILSPLKKGQADIIGIAMRRALLGEIEGTCITHAQFEKIPHEYTTRVGIQESVYEIVMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ S + +I RGP VTA DI + +++ I L + L + Sbjct: 92 KEIVLRSSLYGTRDASICVRGPRDVTAQDIILPPSVSIVDNTQHIVTLTEPIEFCVALQI 151 Query: 150 SKGHGY-----VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 + GY P H P IDA++ P+K V++++ S G ++ L Sbjct: 152 ERNRGYSLRIPTPNNSHDERGYP-----IDAVFMPVKNVNHSIHSYENG---SHEMLFFE 203 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--VKSLPFNPALLKKV-- 260 I T+GS+T ++++ ASR L + F++ EE K + + N L + LK++ Sbjct: 204 IWTNGSLTPKEALREASRKLINLFIPFLHAEEEKPHFENNQNEPRDELLVDLCELKEIYI 263 Query: 261 -EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 + +ELS R N L+G I + DL+ + D+L++ +F ++ + + +L Sbjct: 264 DQLVELSPRLYNILKGSGIHTVMDLLDKNPDDLLKLRHFRQEDVERVMNILN 315 >gi|218755235|ref|ZP_03534031.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis GM 1503] Length = 118 Score = 106 bits (264), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 52/97 (53%), Positives = 76/97 (78%), Gaps = 4/97 (4%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T+ Sbjct: 16 DNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIF--KRGPGVVTAGDI 119 IILN+K +L +S + + VT++ K+GPG VTAGDI Sbjct: 76 IILNLK--SLVVSSEEDEPVTMYLRKQGPGEVTAGDI 110 >gi|269991336|emb|CAX12520.1| DNA-directed RNA polymerase alpha chain [Fucus vesiculosus] Length = 368 Score = 105 bits (263), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 84/343 (24%), Positives = 163/343 (47%), Gaps = 62/343 (18%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + L + +T+GN LRR L+S+L G I V+ G+ +E + ++GV EDL +IILN+ Sbjct: 24 FVFTALEKSQGNTIGNVLRRTLLSNLYGFRIVGVRFAGINNEFALLEGVREDLFEIILNL 83 Query: 90 KGINL----KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 K I + ++ + R+ ++ GP V+TAG ++ N++++LNP++ + + ++++ + Sbjct: 84 KEIIILNSNRIDQTCYGRLKVY--GPAVITAGSLELPNNVKILNPNNHLLTISDESLIEI 141 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS-YTVESAREGQVLDYDKLSMT 204 E+ + G Y+ AK + E + I ID+ ++P+ KV+ Y + ++G+ ++ ++L + Sbjct: 142 EVKIEAGKSYILAKDQKLEG-ALDFIPIDSNFAPVLKVNWYIISLPQDGESIN-EELHLE 199 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFE------EPKKEVKEDINVKSLPF------ 252 I T+G++ ++ A ++ L E K+E+ + ++KSL + Sbjct: 200 IYTNGTLLPHQALLQARTMIGYMLSPISTIEFSCLDTYEKEEIHDTNHIKSLTYITDPIS 259 Query: 253 ---------------------------------NPALLKKVEELE--------LSVRSTN 271 L+K + +LE LS R N Sbjct: 260 RDQNKTVLRSNLIKNKSKFEKINLDKINQVSIDEQKLIKNIVDLEYESLKNLGLSNRIIN 319 Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 L NI ++ DLI + ++ + G KS+ EIK L Sbjct: 320 ALNKVNINFISDLIHYPSSSLINIVGLGPKSVEEIKNKLNQFS 362 >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 = 105 bits (263), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 84/304 (27%), Positives = 155/304 (50%), Gaps = 21/304 (6%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 +PL RG +T+GNALRR ++SS+ A++ A++I + HE S + V ED+ I+ N+K I Sbjct: 27 KPLERGLGNTIGNALRRTILSSVSSASVFAIKIANIDHEFSVLDNVVEDVVSILNNLKKI 86 Query: 93 NLK-----MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 + D ++V+ G + A DI +E++N D I ++ ++ E+ Sbjct: 87 RFRYHEELFDNDQIQKVSFSGDKAGNIYAKDIDNTGGLEIVNQDQYIASVGKVGALKFEM 146 Query: 148 TVSKGHGYVPAKHHRT---------ENDPIG-LITIDALYSPIKKVSYTVESAREGQVLD 197 + G G+ + ++ ++D +G +I +D+ +SP+ KV Y + Sbjct: 147 FIIGGKGFTDFETNKKRVSDLAGKLQSDLLGTIIAVDSDFSPVVKVHYEANELNSSNPIV 206 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 ++L + + TDG+I +D++A A++IL L + N E ++ ++ +S ++ Sbjct: 207 EERLVLNLKTDGTIFAKDALAEAAKILIAHLQLVSNTENL-DQIADNFFEES-RYHEEQP 264 Query: 258 KK----VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 KK + L+LSVRS N LR + D+ T+ ++ + N G+KS+ EI L Sbjct: 265 KKNLIDLSALDLSVRSLNALRRAQYYKVSDIQDLTQEELENIKNLGKKSVQEILDKLKEQ 324 Query: 314 GLFL 317 G+ L Sbjct: 325 GIEL 328 >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 = 105 bits (263), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 77/299 (25%), Positives = 156/299 (52%), Gaps = 24/299 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + H+ S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENIPHDYSNIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL-NPDHVICNLD-VDAVVRMEL 147 I L+ + + I +GPG +TA DI +E++ N H+ ++ +D + +++ Sbjct: 92 NEIVLRSNLYGTRNALICVQGPGYITAQDIILPPSVEIIDNTQHIATLMEPIDLCIGLKI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ + + + P IDA++ P++ ++++ S G + L + I T Sbjct: 152 ERNRGYSLKMSNNFEDRSYP-----IDAVFMPVQNANHSIHSYGNGNE-KQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA------LLKK-- 259 +GS+T ++++ ASR L + F++ EE ++ + + +LP P L KK Sbjct: 206 NGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQVTLPLFPFHNRLVNLRKKKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R NCL+ NI + DL+ ++ D++++ +F + + +I +L Sbjct: 266 ELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLIKIEHFHIEDVKKILDIL 324 >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 = 105 bits (263), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 79/297 (26%), Positives = 154/297 (51%), Gaps = 13/297 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A +G A+RR L+ + G IT + D + HE +++ G+ E + +I++N+ Sbjct: 32 FILSPLKKGQADIIGIAMRRALLGEIEGTCITHAKFDKIPHEYTTLVGIQESIYEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL-NPDHVICNLD-VDAVVRMEL 147 K I L+ + +I RGP VTA DI ++ N H++ + +D V +++ Sbjct: 92 KEIVLRSHLYGTRDASICVRGPRDVTAQDIILPTSATIVDNTQHIVTITEPIDFCVGLQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ ++ +D G ID+++ P+K V++++ S G + L + I T Sbjct: 152 ERNRGY-FIQIPMLTNLHDDRGY-PIDSVFMPVKNVNHSIHSYENGI---HAMLFLEIWT 206 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--VKSLPFNPALLKKV---EE 262 +GS+T ++++ ASR L + F++ EE + + N LP + LK + + Sbjct: 207 NGSLTPKEALREASRKLSNLFIPFLHAEEQNFHFENNQNEHTDELPIDFCALKDIYIDQL 266 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL-GTMGLFLG 318 +EL R NCL+ I + DL+ + D++++ +F ++ + ++ +L T+ FL Sbjct: 267 VELPARFYNCLKISGIHTVMDLLNKNTEDLMKITHFRQQDIEKVMHILNNTISQFLS 323 >gi|290489692|gb|ADD31230.1| RNA polymerase alpha subunit protein [Liquidambar styraciflua] Length = 338 Score = 105 bits (263), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 82/315 (26%), Positives = 162/315 (51%), Gaps = 34/315 (10%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K + L+ + + +I RGPG VTA DI + +E+++ I +L +D + +++ Sbjct: 92 KEVVLRSNLYGTRDASICVRGPGYVTAQDIISPPSVEIVDNTQHIASLTEPIDLCIGLKM 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES---AREGQVLDYDKLSMT 204 ++G+ + + + P IDA++ P++ ++++ S E Q + L + Sbjct: 152 ERNRGYRIKTPNNFQDRSYP-----IDAVFMPVRNANHSIHSYGNENEKQEI----LFLE 202 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPALLKK-- 259 I T+GS+T ++++ ASR L D F++ EE ++++ + LP F+ L K Sbjct: 203 IWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLEDNQHKTILPLFTFHDRLAKLKE 262 Query: 260 ------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 +++ EL R CL+ NI + DL+ + D++++ +F + ++K Sbjct: 263 KTKKKKALKSIFIDQSELPPRIYTCLKRSNIHTLLDLLNNNQEDLMKIEHF---RIEDVK 319 Query: 308 GVLGTMGLFLGMNLP 322 +LG + ++LP Sbjct: 320 KILGILEKHFAIDLP 334 >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 = 105 bits (263), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 77/299 (25%), Positives = 154/299 (51%), Gaps = 24/299 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + H+ S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENIPHDYSNIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 I L+ + + I +GPG +TA DI +E+++ I L +D + +++ Sbjct: 92 NEIVLRSNLYGTRNALICVQGPGYITARDIILPPSVEIIDNTQHIATLTEPIDLCIGLKI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ + + + P IDA++ P++ ++++ S G + L + I T Sbjct: 152 ERNRGYSLKMSNNFEDRSYP-----IDAVFMPVQNANHSIHSYGNGNE-KQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA------LLKK-- 259 +GS+T ++++ ASR L + F++ EE ++ + + +LP P L KK Sbjct: 206 NGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQVTLPLFPFHNRLVNLRKKKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R NCL+ NI + DL+ ++ D++++ +F + + +I +L Sbjct: 266 ELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLIKIEHFHIEDVKKILDIL 324 >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 = 105 bits (263), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 86/312 (27%), Positives = 160/312 (51%), Gaps = 29/312 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT V+ + V +E +I G+ E + +I++N+ Sbjct: 32 FILAPLMKGQADTIGIAMRRALLGEIEGTCITRVKSEKVPNEYYTIVGIEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGP VTA DI +E+++ I +L + +EL + Sbjct: 92 KEIVLRSHLYGTRDASICVRGPRYVTAQDIIPPPSVEIVDTTQHIASLTEPIDLCIELQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA---REGQVLDYDKLSMTID 206 + GY + N G IDA+ P++ ++++ S E Q + L + I Sbjct: 152 ERDRGY---RMKTPNNYQDGSYPIDAVSMPVRNANHSIHSYGNRNEKQEI----LFLEIW 204 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPAL--LKK-- 259 T+GS+T ++++ ASR L D F++ EE ++++ N ++P F+ L ++K Sbjct: 205 TNGSLTPKEALHEASRNLIDLFIPFLHAEEQDIVLEDNPNRFTVPLFTFHDRLANIRKNK 264 Query: 260 ---------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R+ NCL+ NI + DL+ ++ D++R+ +F + ++K +L Sbjct: 265 KGIALKCIFIDQSELPPRTYNCLKRSNIHTLLDLLSNSQEDLMRIEHF---RIEDVKQIL 321 Query: 311 GTMGLFLGMNLP 322 + ++LP Sbjct: 322 DILQKHFTIDLP 333 >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 = 105 bits (262), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 80/315 (25%), Positives = 150/315 (47%), Gaps = 46/315 (14%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G A T+G A+RR L+ + IT+ + G HE S++KG+ E + DI+LN+K I Sbjct: 33 PLFPGQAITIGTAIRRALLGEVHSTCITSAYVVGASHEYSTLKGIRESIHDILLNLKDIV 92 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 K + + GPG+VTA I+ ++V++ I L++ + + +T+ Sbjct: 93 FKSDTLERQEGILLFNGPGIVTAQHIKLPPVVQVVDNTQYIARLEMPTSIEIHITLENTK 152 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 T G +DA P++ ++Y++ S EG + + L + + T+GS+T Sbjct: 153 TCTSLNTMPTTK---GRFILDAALKPVRNMNYSIHSLGEGD-MRQEMLVLEVWTNGSLTP 208 Query: 214 EDSVALASRILQDQLGMFINFE---EPKKEV----------KEDINVKSL---------- 250 ++ ++ AS+ L D L + E + K+ + E++N+ + Sbjct: 209 QEVISQASQNLNDLLKPLLKVERYFQAKQNIHKKRMFTPTQSENLNMDQIEMIGGNKLID 268 Query: 251 -PFNPA--------------LLK----KVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 P PA L+ +++L++SVR++NCL+ I + L+ T+ D Sbjct: 269 QPLLPADSHLNSSLSLNIDNLVHLEGISIDDLQISVRASNCLKKVGIYTIRQLLSYTQQD 328 Query: 292 MLRMANFGRKSLVEI 306 + ++ N G+KS+ +I Sbjct: 329 LFQIKNLGKKSVEQI 343 >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 = 105 bits (262), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 77/299 (25%), Positives = 154/299 (51%), Gaps = 24/299 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + H+ S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENIPHDYSNIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 I L+ + + I +GPG +TA DI +E+++ I L +D + +++ Sbjct: 92 NEIVLRSNLYGTRNALICVQGPGYITARDIILPPSVEIIDNTQHIATLTEPIDLCIGLKI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ + + + P IDA++ P++ ++++ S G + L + I T Sbjct: 152 ERNRGYSLKMSNNFEDRSYP-----IDAVFMPVQNANHSIHSYGNGNE-KQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA------LLKK-- 259 +GS+T ++++ ASR L + F++ EE ++ + + +LP P L KK Sbjct: 206 NGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQVTLPLFPFHNRLVNLRKKKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R NCL+ NI + DL+ ++ D++++ +F + + +I +L Sbjct: 266 EQGFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLIKIEHFHIEDVKKILDIL 324 >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 = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 76/291 (26%), Positives = 144/291 (49%), Gaps = 29/291 (9%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+ +RR L+ + G IT V+ V HE S+I G+ E + +I++N Sbjct: 32 FILSPLRKGQADTIAIGIRRALLGEIEGTCITRVKSKNVPHEYSTIAGIQESVHEILMNF 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGPG VTA DI +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTCDASICVRGPGYVTAQDIILPPYVEIVDNTQHIASLTEPIDLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY+ H +++ G IDA++ P++ ++++ S G ++ L + I T+G Sbjct: 152 ERNRGYLMKMPHNSQD---GSYPIDAVFMPVRNANHSIHSYGSGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK---------- 259 S+T ++++ A R L D F++ EE +++ N ++P +P Sbjct: 208 SLTPKEALHEACRNLIDLFIPFLHKEEETSPLED--NHHTVPLSPLTFHDKADKLRKRKK 265 Query: 260 ------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++ EL + NCL+G N+ + DL+ +++ D+++M + Sbjct: 266 EIKKKIALKSIFIDQSELP-KVYNCLKGSNLYTLLDLLNKSQEDLMKMEHL 315 >gi|228017206|gb|ACP52026.1| RNA polymerase alpha subunit [Pinus leiophylla var. chihuahuana] Length = 335 Score = 105 bits (261), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 78/285 (27%), Positives = 141/285 (49%), Gaps = 20/285 (7%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 T+G A+RR L+ + G IT V+++ + HE S+I G+ E + DI++N+K I L+ Sbjct: 44 TIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEESVHDILMNLKEIVLRSDSYGI 103 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 + +I+ GP VTA DI +++++ I L + L + K GY+ H Sbjct: 104 REASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSITSDIRLQIEKNRGYII---H 160 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 N G+ IDA++ P++ +Y++ S G + + L + I T+G +T +++ AS Sbjct: 161 SPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEIR-EVLFLEIWTNGGLTPREALYEAS 219 Query: 222 RILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPAL-------------LKKVEELEL 265 R L D F++ EE + K+ N+ P + L L +++L Sbjct: 220 RNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHLLTDTGETKEKIAFQLIFIDQLXX 279 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 LR NI + DL+ + D++R+ +FG++S+ ++ VL Sbjct: 280 XXXXXXXLRRANIHTLLDLLNYSREDLMRIEHFGKESVEQVLEVL 324 >gi|207092984|ref|ZP_03240771.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori HPKX_438_AG0C1] Length = 235 Score = 104 bits (260), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 73/231 (31%), Positives = 123/231 (53%), Gaps = 4/231 (1%) Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 +GP + A D+ + + IE++NP+ + ++ DA + L + KG GYVP+++ R E P Sbjct: 5 KGPMELRARDLNSEH-IEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPE 62 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 G + +D ++PIKKV Y +E+ +Y+K+ I+TDG I + A +++ QL Sbjct: 63 GYMPLDGSFTPIKKVVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQL 122 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 G+F E P ++ + L K+E + LS R NCL I Y+G+L+ + Sbjct: 123 GVF--GERPIANMEYSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMS 180 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 E ++ + N G+KS EI L +G +G L ES+++ +K EDK Sbjct: 181 EEELKGVKNMGKKSYDEIAEKLNDLGYPVGTELSLEQRESLKKRLEKLEDK 231 >gi|213612396|ref|ZP_03370222.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] Length = 117 Score = 104 bits (260), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 55/118 (46%), Positives = 78/118 (66%), Gaps = 3/118 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADI 115 >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 = 104 bits (259), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 76/299 (25%), Positives = 154/299 (51%), Gaps = 24/299 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + H+ S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENIPHDYSNIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL--DVDAVVRMEL 147 I L+ + + I +GPG +TA DI +E+++ I + +D + +++ Sbjct: 92 NEIVLRSNLYGTRNALICVQGPGYITARDIILPPSVEIVDNTQHIATVTESIDLCIGLKI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ + + + P IDA++ P++ ++++ S G + L + I T Sbjct: 152 ERNRGYSLKMSNNFEDRSYP-----IDAVFMPVQNANHSIHSYGNGNG-KQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA------LLKK-- 259 +GS+T ++++ ASR L + F++ EE ++ + + +LP P L KK Sbjct: 206 NGSLTPKEALHEASRNLINLFIPFLHVEEETFHLENNQHQVTLPLFPFHNRLVNLRKKKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R NCL+ NI + DL+ ++ D++++ +F + + +I +L Sbjct: 266 ELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLIKIEHFHIEDVKKILDIL 324 >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 = 103 bits (258), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 80/288 (27%), Positives = 147/288 (51%), Gaps = 24/288 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G T+G A+R+ L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQGDTIGIAMRKALLGEIEGTCITRAKSEKIPHEYSTIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GPG VTA DI +E+++ I NL + +EL + Sbjct: 92 KEIVLRSNLYGTRDASICVKGPGCVTAQDIILPPSVEIVDNTQHIANLMEPINLCIELKI 151 Query: 150 SKGHGYVPAKHHRTEND-PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + GY H +T N+ +DA++ P++ V++++ S G + L + I T+ Sbjct: 152 ERNRGY----HIQTPNNFQDASYPMDAIFMPVRNVNHSIHSYVNGNE-KQEILFLEIWTN 206 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPK-----KEVKEDINVKSLPFNPALLKK---- 259 GS+T ++++ ASR L D F++ EE K K K+ + + F+ L K Sbjct: 207 GSLTPKEALHEASRNLIDLFIPFLHAEEEKENFHLKNNKKKVTLPLFTFHEKLAKLRKKK 266 Query: 260 ---------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++ EL R NCL+ NI + DL+ + +++++ +F Sbjct: 267 KEIALKYIFIDQSELPPRIYNCLKRCNIHTLFDLLNNSPDELMKIKHF 314 >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 = 103 bits (258), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 83/294 (28%), Positives = 146/294 (49%), Gaps = 8/294 (2%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 R+++ E F +LGN ++RV+ + I ++I + E + G+ E+ I+ Sbjct: 22 RSIIRIETFNNSFCDSLGNFIKRVIFLTTNSYKIIYLKIYKIKSEFYDLPGIIENTQTIL 81 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR-- 144 N+ I +K++ D+ + I K+GP ++TA DI + +I + NP+ +I N+ + V Sbjct: 82 KNLDNIIIKINNDNVANLIIKKKGPCIITAKDIFSDKNITIFNPNKIIANVSNNIVFYCI 141 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 M+ S Y + + + +I ++ SPI ++Y + + L KL Sbjct: 142 MKCVNSLFKNYTD-EFFQFKIFKENIIFLNNFKSPIISLNYYINKKIFNKKLK--KLFFD 198 Query: 205 IDTDGSITGEDSVALASRILQ---DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 I+T+GSI D ++ D + FI F++ KK E N +L N L + Sbjct: 199 IETNGSIKPVDCFKNCIFYIKKYFDLIFSFIGFKKYKKINVEKKNNLNLKINSVYLNSIN 258 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 L+LS+RS NCL+ NI +GDLI+ ++ +++ + N G+KS EI L GL Sbjct: 259 NLKLSIRSLNCLKNNNIFLIGDLIKISKNNLINIPNLGKKSYNEILNSLKNFGL 312 >gi|254701950|ref|ZP_05163778.1| DNA-directed RNA polymerase subunit alpha [Brucella suis bv. 5 str. 513] Length = 70 Score = 103 bits (258), Expect = 3e-20, Method: Composition-based stats. Identities = 50/71 (70%), Positives = 57/71 (80%), Gaps = 2/71 (2%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +++I G ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVDFITHGSR--THATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 58 Query: 61 TAVQIDGVLHE 71 TAVQIDGVLHE Sbjct: 59 TAVQIDGVLHE 69 >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 = 103 bits (257), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 56/126 (44%), Positives = 80/126 (63%), Gaps = 4/126 (3%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL G TL NALRR L+S L G AIT V+I+GV HE S++ GV E + DI+LN+K I Sbjct: 42 PLEVGQGITLANALRRALLSELNGLAITTVEIEGVSHEYSTLMGVRESVLDILLNLKQIV 101 Query: 94 LKMSGDSHKRVT---IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 LK S S KR I+ +GPGV+ AGDI + I+ ++P+ I L D +++M++ + Sbjct: 102 LK-SKKSVKRAQTAYIYCQGPGVIRAGDIILPSSIQCVDPEQYIATLSSDGILKMKVIIR 160 Query: 151 KGHGYV 156 +G Y+ Sbjct: 161 QGKNYL 166 >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 = 103 bits (257), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 78/299 (26%), Positives = 152/299 (50%), Gaps = 22/299 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR+L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRILLGEMEGTCITRAKSEKISHEYSTIVGIQEPVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK + + +I +GPG VTA +I + +++ I N+ + + L + Sbjct: 92 KEIVLKSNLYGIRDASICFKGPGYVTAQNIILPPSVVIVDNTQHIANVTEPIQLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + + +N G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERDRGY---RINTLKNFQDGSYNIDAIFMPVRNANHSIHSYVNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA-------------- 255 S+T ++++ ASR L D F++ EE K + + + +LP Sbjct: 208 SLTPKEALYEASRNLIDLFIPFLHAEEEKLNFENNEHKVTLPLFTCHDLLAKTKLKKKKK 267 Query: 256 --LLKK--VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 K +++LEL + NCL+ NI + +L+ +++ D++++ +F + + I +L Sbjct: 268 EIAFKSIFIDQLELPPKIYNCLKKSNIHTLLELLTKSKEDLMKIEHFRVEDVKHILDIL 326 >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 = 103 bits (256), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 57/122 (46%), Positives = 84/122 (68%), Gaps = 4/122 (3%) Query: 51 LMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFK 108 ++SSL G+A++ ++IDGVLHE SS+ GV ED+T+I+LNIK + +K + D K I Sbjct: 1 MLSSLPGSAVSQIKIDGVLHEFSSVPGVKEDVTEIVLNIKQLEIKNNSTTDEPKVAHIDV 60 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMELTVSKGHGYVPAKHHRTEND 166 G VVTA DIQ +DIE+LNPD VI L+ D+ + MEL ++KG GYV ++ ++ ++ Sbjct: 61 TGDCVVTAADIQVDSDIEILNPDLVIATLNGGADSKLSMELIITKGRGYVSSEKNKNDSL 120 Query: 167 PI 168 PI Sbjct: 121 PI 122 >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 = 103 bits (256), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 77/299 (25%), Positives = 152/299 (50%), Gaps = 24/299 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + H+ S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENIPHDYSNIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL--DVDAVVRMEL 147 I L+ + + I +GPG +TA DI +E+++ I L +D + +++ Sbjct: 92 NEIVLRSNLYGARNAIICVQGPGYITARDIILPPSVEIIDNTQHIATLTESIDLCIGLKI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ + P IDA++ P++ ++++ S G + L + I T Sbjct: 152 ERNRGYSLKILNTFEDRSYP-----IDAVFMPVQNANHSIHSYGNGNG-KQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA------LLKK-- 259 +GS+T ++++ ASR L + F++ EE ++ + + +LP P L KK Sbjct: 206 NGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHHVTLPLFPFHNRLVNLRKKKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R NCL+ NI + DL+ ++ D++++ +F + + +I +L Sbjct: 266 ELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLIKIEHFHIEDVKKILDIL 324 >gi|119662855|emb|CAJ33220.1| RNA polymerase alpha subunit [Lactobacillus vaginalis] Length = 120 Score = 102 bits (255), Expect = 6e-20, Method: Compositional matrix adjust. 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 = 102 bits (255), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 62/189 (32%), Positives = 99/189 (52%), Gaps = 6/189 (3%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 AHTL ALRR LM+ + G A+ + +DG H ++ +GV ED+ + N I + Sbjct: 25 AHTLAVALRRTLMARVEGWAVVGLCVDGAAHALARAEGVIEDVLGVAANAARIVFEGECG 84 Query: 100 SHKRV-TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 S + V + + 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+ + I+T+G + G + Sbjct: 145 AQARARWSRVLAGYTVVDAHFSPVKRVSYKVSSAEDDR--SCDRAQLVIETNG-VDGAHA 201 Query: 217 VALASRILQ 225 V A R L Sbjct: 202 VVDACRELS 210 >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 = 102 bits (255), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 76/297 (25%), Positives = 150/297 (50%), Gaps = 20/297 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + H+ S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEMEGTCITRAKSENIPHDYSNIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 + I L+ + I +GPG +TA DI +E+++ I L + + L + Sbjct: 92 QEIVLRSNLYGTCNALICVQGPGYITARDIILPPSVEIMDNTQHIATLTEPIDLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + E+ G IDAL+ P++ ++++ S G + + L + I T+G Sbjct: 152 ERNRGYSLKMPNPFED---GSYPIDALFMPVQNANHSIHSYGTGNE-NQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK---------- 259 ++T ++++ ASR L + F++ EE ++ + + +LP P + Sbjct: 208 NLTPKEALHEASRNLINLFIPFLHVEEETFYLENNEDKVTLPLFPFHNRLVKLRKKKKEL 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R NCL+ NI + DL+ ++ D++++ +F + + +I +L Sbjct: 268 VFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLIKIEHFHIEDVKKILDIL 324 >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 = 102 bits (255), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 75/299 (25%), Positives = 151/299 (50%), Gaps = 24/299 (8%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + H+ S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEMEGTCITRAKSENIPHDYSNIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 + I L+ + I +GPG +TA DI +E+++ I L +D + +++ Sbjct: 92 QEIVLRSNLYGTCNALICVQGPGSITARDIILPPSVEIIDNTQHIATLTEPIDLCIGLQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++G+ H + P IDAL+ P++ ++++ S G + L + I T Sbjct: 152 ERNRGYSLKMPNHFEDGSYP-----IDALFMPVQNANHSIHSYGTGNE-KQEILFLEIWT 205 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK-------- 259 +G++T ++++ ASR L + F++ EE ++ + + +LP P + Sbjct: 206 NGNLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHKVTLPLFPFHNRLVKLRKKKK 265 Query: 260 --------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL R NCL+ NI + DL+ ++ D++++ +F + + +I +L Sbjct: 266 ELVFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLIKIEHFHIEDVKKILEIL 324 >gi|228311784|pdb|2JZB|A Chain A, Solution Structure Of The Complex Between E.Coli Nusa-Ar2 And Rnap-Actd Length = 99 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 46/78 (58%), Positives = 60/78 (76%) Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL Sbjct: 19 FDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLA 78 Query: 312 TMGLFLGMNLPDWPPESI 329 + GL LGM L +WPP SI Sbjct: 79 SRGLSLGMRLENWPPASI 96 >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 = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. 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: 4 FDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLA 63 Query: 312 TMGLFLGMNLPDWPPESIEE 331 + GL LGM L +WPP SI + Sbjct: 64 SRGLSLGMRLENWPPASIAD 83 >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 = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 46/78 (58%), Positives = 60/78 (76%) Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL Sbjct: 4 FDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLA 63 Query: 312 TMGLFLGMNLPDWPPESI 329 + GL LGM L +WPP SI Sbjct: 64 SRGLSLGMRLENWPPASI 81 >gi|255645616|gb|ACU23302.1| unknown [Glycine max] Length = 269 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 68/223 (30%), Positives = 122/223 (54%), Gaps = 4/223 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RRVL+ + G IT V+++ + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRVLLGEIEGTCITRVKLEKIPHEYSTIIGIEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GPG VTA DI +E+++ I N+ + +EL + Sbjct: 92 KEIVLRSNLYGTRDASICFKGPGYVTAQDIILPPSVEIVDNTQHIANVTEPVNLCIELKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + +N G IDA + P++ V++++ S G + L + I T+G Sbjct: 152 ERNRGY---RIKTLKNFQDGSYPIDATFMPVRNVNHSIHSYVNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 S+T ++++ ASR L D F++ EE ++ + + +LP Sbjct: 208 SLTPKEALYEASRNLIDLFIPFLHAEEDNFNLENNQHKVTLPL 250 >gi|157830665|pdb|1COO|A Chain A, The Cooh-Terminal Domain Of Rna Polymerase Alpha Subunit Length = 98 Score = 102 bits (253), Expect = 1e-19, Method: Compositional matrix adjust. 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|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 = 101 bits (252), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 88/327 (26%), Positives = 149/327 (45%), Gaps = 50/327 (15%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ PL G TLGN RR+L++ L G AITA +++ E ++ G+ E + +I LN+ Sbjct: 29 LVLGPLAPGQGVTLGNTFRRLLLNDLPGVAITAAKLNETRTEFMTLPGIRESVVEIFLNL 88 Query: 90 KGINLKMSGD----SHKRVTIFKR----------GPGVVTAGDIQTVNDIEVLNPDHVIC 135 + I + +TI R P V+ AGD+Q I ++P I Sbjct: 89 RDIVFFNTFPDVLAPQGTITISPRPQTDESKSFHTPRVICAGDMQLPEGITCVDPTQPIA 148 Query: 136 NL-DVDAVVRMELTVSKGHGY----VPAKHHRTENDPIGLI--------------TIDAL 176 L + D + + + GY P + + T P I ID Sbjct: 149 TLMNGDTAFNLTFILEQSTGYRVWKKPTQSYGTGFYPSPQIESVQIEQVKSGVFQPIDGN 208 Query: 177 YSPIKKVSYTV-ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 + P+K V++ V E G+ + ++ I T+GSI ++ A IL + + Sbjct: 209 FMPVKNVNFAVHEVQPHGEYIHFE-----ITTNGSIHPHNAFKHAGAILTEITRA--TLQ 261 Query: 236 EPKKEVKEDINVKSLPFNPALLKK-------VEELELSVRSTNCLRGENIVYMGDLIQRT 288 +P+ V I+ S P + A+ +K +E+LELS+R+ NCL+ I+ + DL + + Sbjct: 262 DPRPVV--GIDEASTPVDTAVAQKAYFENIAIEQLELSLRAYNCLKRAQILTLADLSRES 319 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGL 315 + +L + NFG+KS E+ L T G+ Sbjct: 320 YSSLLALRNFGQKSAEEVAKALETYGI 346 >gi|197131692|gb|ACH47364.1| RNA polymerase alpha subunit [Geranium macrorrhizum] Length = 329 Score = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 81/298 (27%), Positives = 153/298 (51%), Gaps = 15/298 (5%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A +G A+RR L+ + G IT + D + HE +++ G+ E + +I++N+ Sbjct: 32 FILSPLKKGQADMIGIAMRRALLGEIEGTCITHAKFDKIPHEYTTLVGIQESIYEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDI--QTVNDIEVLNPDHVICNLD-VDAVVRME 146 K I L+ + +I RGP VT+ DI T I V N H++ + +D V ++ Sbjct: 92 KEIVLRSHLYGTRDASICVRGPRDVTSQDIILPTFATI-VDNTQHIVTLTEPIDFCVGLQ 150 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 + ++G+ ++ +D G IDA++ P+K V++++ S G + L + I Sbjct: 151 IERNRGY-FIQIPMLSNLHDDRGY-PIDAVFMPVKNVNHSIHSYENGI---HAMLFLEIW 205 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--VKSLPFNPALLKKV---E 261 T+GS+T ++++ ASR L + F++ EE + + N L + LK + + Sbjct: 206 TNGSLTPKEALRGASRKLINLFIPFLHAEEQNCHFENNQNEHTDELSIDFCALKDIYIDQ 265 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL-GTMGLFLG 318 +EL R CL+G I + DL+ + D++++ F ++ + ++ +L T+ FL Sbjct: 266 LVELPARFYKCLKGSGIDTVMDLLNKNTDDLIKITQFCQQDVEKVMNILNNTISQFLS 323 >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 = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 76/285 (26%), Positives = 143/285 (50%), Gaps = 20/285 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+ R L+ + G IT + + + H+ S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMARALLGEIEGTCITRAKSENIPHDYSNIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 I LK + + I +GPG +TA DI +E+++ I L + + L + Sbjct: 92 NEIVLKSNLYGTRNPFICVQGPGYITARDIILPPSVEIVDNTQHIATLTEPINLCIGLKI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + E+ IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 ERNRGYSLKMSNNFEDRS---YPIDAVFMPVQNANHSIHSYGNGNE-KQEILFIEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPK---KEVKEDINVKSLPFNPALL----KK--- 259 S+T ++++ ASR L + F++ EE + + + + PF+ L+ KK Sbjct: 208 SLTPKEALYEASRNLINLFIPFLHVEEETFYLENNQHQVTLPVFPFHNKLVNLRQKKKEL 267 Query: 260 ------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL R NCL+ NI + DL+ ++ D+++M +F Sbjct: 268 AFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLIKMEHF 312 >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 = 101 bits (251), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 82/314 (26%), Positives = 151/314 (48%), Gaps = 43/314 (13%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIKGVHEDLTD 84 P G T+ N LRR L++++ G IT+V+ + +HE S+I G+ E + + Sbjct: 54 PFSHGQGLTIANGLRRTLLNNIIGFGITSVKFEPKWVDISKEVFIHEYSTIPGIWESIFE 113 Query: 85 IILNIKGINLKMSGDSH-----KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH-VICNLD 138 II N+K I ++ + + I + PGV+ A I+ +++LN + ++ + Sbjct: 114 IIENLKKIKIRRENSPFEPFEKQVIRITQDKPGVLRADSIKLPPFLKILNQNQPIVSMMS 173 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + ++ + +T+ G +H N I + + PIK V+Y +++ Sbjct: 174 SNLILDIIITIEAQTG-----NHLCNNQ---FIHVSEVCLPIKWVNYVIKTDPLLGSKSP 225 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L I TDG+IT +++++ A+ I D F ++++ VKS+ + Sbjct: 226 ESLFFEISTDGTITPQEALSKAADICIDLYSCF-------STAQKELEVKSIVKEKVTEE 278 Query: 259 ----------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 +E L LSVR+ NCL+ NI + DL+ ++++D+L M NFG+KS E+ Sbjct: 279 VKEEIITNKVTIENLGLSVRAYNCLKRANIYTVTDLLTKSKSDLLAMKNFGKKSADEVYE 338 Query: 309 VLGTMGLFLGMNLP 322 L LG++LP Sbjct: 339 ALQNR---LGIDLP 349 >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 = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 86/298 (28%), Positives = 144/298 (48%), Gaps = 39/298 (13%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI--TAVQIDGVLHEISSIKGV 78 GQ E R L + RGF + + G + T + V HE S+I G+ Sbjct: 41 GQAEHRRVLALG----RGFN-----------LEKIEGNNVLATRAKFGSVPHEYSTIAGI 85 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 86 EESVQEILLNLKEIVLRSNLYGVRDASISVKGPRYITAQDIILPPSVEIVDTSQPIANLT 145 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY + +N G IDA+ P++ V+Y++ S G + Sbjct: 146 EPIDFCIELQIKRDRGY---QTELRKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 201 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP---FNPA 255 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P F Sbjct: 202 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 261 Query: 256 L----LKK-----------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 L LKK +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 262 LTNLNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF 319 >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 = 100 bits (248), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 47/85 (55%), Positives = 65/85 (76%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDGVLHE S+++GV ED+T IILN+ Sbjct: 23 FVIEPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDGVLHEFSTVEGVVEDVTTIILNL 82 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVV 114 K + LK+ + K + I +G G+V Sbjct: 83 KKLALKIYSEEEKTLEIDVQGEGIV 107 >gi|56807381|ref|ZP_00365362.1| COG0202: DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Streptococcus pyogenes M49 591] Length = 145 Score = 100 bits (248), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 55/141 (39%), Positives = 89/141 (63%) 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 NFGRKSLVEIKGVLGTMGLFL 317 N GR+SL E+K L +GL L Sbjct: 121 NLGRRSLEEVKVKLADLGLGL 141 >gi|290489674|gb|ADD31221.1| RNA polymerase alpha subunit protein [Rhododendron simsii] Length = 262 Score = 99.8 bits (247), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 72/221 (32%), Positives = 114/221 (51%), Gaps = 5/221 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV--LHEISSIKGVHEDLTDIILNIKG 91 PL RG A TLG A+RR L+ + G IT + V HE SSI+G+ E + +I++N+K Sbjct: 36 PLRRGEAETLGIAMRRALLGEIEGTCITRAKFGRVRVTHEYSSIEGIQESVNEILMNLKE 95 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 I LK + I+ +GP VTA DI +E+++ I +L + M+L + K Sbjct: 96 IILKSNLYGPCSGLIWVQGPRDVTARDIMVAPYVEIIDNTQHIASLTKRIDLYMKLEIQK 155 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY T D G DA++ P++ +Y + S + +V + L I T+GS+ Sbjct: 156 NRGYQIKSPKNTLQD--GSYPTDAVFMPVRNANYNIYSYLD-RVAREEILFFEIWTNGSL 212 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 T ++++ ASR L D F+N EE + E+ + +LP Sbjct: 213 TPKEALHEASRKLVDLFSPFLNTEEENVHLDENQHKINLPL 253 >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 = 99.8 bits (247), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 74/291 (25%), Positives = 150/291 (51%), Gaps = 18/291 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A +G A+RR L+ + G IT + + + HE +++ G+ E + +I++N+ Sbjct: 32 FILSPLKKGQADIIGIAMRRALLGEIEGTCITYAKFEKIPHEYTTLVGIQESVYEIVMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL-NPDHVICNLD-VDAVVRMEL 147 K I L+ + + +I RGP VTA DI + ++ N H++ + +D V +++ Sbjct: 92 KEIVLRSNLYGTRDASICVRGPRDVTAQDIILPPSVAIVDNTQHIVTLTEPIDFCVGLQI 151 Query: 148 TVSKGHGY---VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 ++G+ +P H P IDA++ P+K V++++ + G ++ L Sbjct: 152 ERNRGYSMKIPMPTNSHDDRGYP-----IDAVFMPVKNVNHSIHAYENG---SHEMLFFE 203 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--VKSLPFNPALLKKV-- 260 I T+GS+T ++++ ASR L + F++ EE ++ + N + L + LK + Sbjct: 204 IWTNGSLTPKEALREASRKLINLFIPFLHAEEENSHLENNQNQHTEELSIDLCGLKDIYI 263 Query: 261 -EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + +EL R N L+G I + DL+ + ++++ +F + + ++ +L Sbjct: 264 DQLVELPPRLYNSLKGSGIHTVMDLMDKNTDALMKIPHFRHEDVEKVMNIL 314 >gi|13560647|gb|AAK30140.1|AF346704_1 DNA-directed RNA polymerase [Fucus vesiculosus] Length = 226 Score = 99.4 bits (246), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 55/187 (29%), Positives = 114/187 (60%), Gaps = 9/187 (4%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + L + +T+GN LRR L+S+L G I V+ G+ +E + ++GV EDL +IILN+ Sbjct: 24 FVFTALKKSQGNTIGNVLRRTLLSNLYGFRIVGVRFAGINNEFALLEGVREDLFEIILNL 83 Query: 90 KGINL----KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 K I + ++ + R+ ++ GP V+TAG ++ N++++LNP++ + + ++++ + Sbjct: 84 KEIIILNSNRIDQTCYGRLKVY--GPAVITAGSLELPNNVKILNPNNHLLTISDESLIEI 141 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS-YTVESAREGQVLDYDKLSMT 204 E+ + G Y+ AK + E + I ID+ ++P+ KV+ Y + ++G+ ++ ++L + Sbjct: 142 EVKIEAGKSYILAKDQKLEG-ALDFIPIDSNFAPVLKVNWYIISLPQDGESIN-EELHLE 199 Query: 205 IDTDGSI 211 I T+G++ Sbjct: 200 IYTNGTL 206 >gi|58761465|gb|AAW82426.1| RNA polymerase alpha subunit [Takakia lepidozioides] Length = 382 Score = 99.0 bits (245), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 84/310 (27%), Positives = 146/310 (47%), Gaps = 32/310 (10%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P G A T+G A+RR + + G IT + V HE S+I G+ E + D+ +N I Sbjct: 36 PFRSGQASTVGIAMRRASLGEVEGTCITCAESKRVTHEYSTILGIQESVHDVSINSGEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L+ ++ I GP VTA DI + +++++ + +EL + K Sbjct: 96 LRSDSYETQKAFISILGPKKVTAQDIISPPSVKIIDTTQYTATVTKAIHSDIELKIEKDF 155 Query: 154 GYVPAKHHRTENDPI----GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 GY R E DPI G DA++ PI+ +Y+V S G + L + I T+G Sbjct: 156 GY------RIE-DPIKSADGNSPADAVFMPIRNANYSVHSFENGNETQ-EILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEP------KKEVKEDINVKSLPFNPALLKK---- 259 S+T ++++ ASR L + F++ E+ K + +++ S P A + + Sbjct: 208 SVTPKEALYEASRSLINLFIPFLHAEKKEFIYGLKNTYESNMSYFSSPSLSADIDEMTKG 267 Query: 260 -------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +++LEL R+ NC + N + D + ++ D++++ NFG+KS ++ VL Sbjct: 268 VTFKHIFIDQLELPARAYNCPKRVNAHTISDPLNYSQDDLMKIKNFGKKS---VEQVLEA 324 Query: 313 MGLFLGMNLP 322 +NLP Sbjct: 325 SQKRFSINLP 334 >gi|167010108|ref|ZP_02275039.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. holarctica FSC200] Length = 224 Score = 99.0 bits (245), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 63/224 (28%), Positives = 121/224 (54%), Gaps = 9/224 (4%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI- 65 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKIN 60 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK-RGPGVVTAGDIQTVND 124 DG + + + E + DIILN+K +++ ++ D F+ G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLSVTLAEDVETGTITFELSGSEEEIFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG G+ PA+ +N G +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQ----DNFKDGEFLLDATFSPVVFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 + ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL Sbjct: 177 FEIKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQL 220 >gi|150036730|emb|CAM98256.1| DNA-directed RNA polymerase alpha chain [Leuconostoc citreum] Length = 133 Score = 99.0 bits (245), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 54/133 (40%), 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 ELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +T KG GY A ++ D 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|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 = 98.6 bits (244), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 66/220 (30%), Positives = 117/220 (53%), Gaps = 14/220 (6%) Query: 14 NIEYI-VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 N+E+I +L +EN I +PL G ++GN RR+L++ + IT V+ G+ +E Sbjct: 4 NLEFINLLEVPDENFGKYIIKPLNLGMGVSIGNLFRRILLTQMPRTNITGVRFAGITNEF 63 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV--NDIEVLNP 130 S+IKGV ED+ +I+LN+K I K + V I GP V+T+ +Q+ ++I ++NP Sbjct: 64 STIKGVREDVLEILLNLKQIIFKGFKEEKTYVRIKITGPTVITSSCLQSALPDEITLVNP 123 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI----GLITIDALYSPIKKVSYT 186 I + D+ + EL + K + N I + +D + SPI+++ + Sbjct: 124 SQYIATITNDSTLEFELKIESEK-----KSNLANNQAIFESSDFLEVDKITSPIRQILFD 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 V E + ++L + I TDGSIT D++ + +++Q+ Sbjct: 179 VYKKSETET--QEELVLQIWTDGSITPIDALITSVKLVQN 216 >gi|119672809|emb|CAK95485.1| RNA polymerase alpha subunit [Lactobacillus mucosae] Length = 121 Score = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 49/115 (42%), Positives = 76/115 (66%), Gaps = 2/115 (1%) Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSPIK 181 D+ +LNPD I + A + + +T KG GYVPA + R IG + ID++Y+PI+ Sbjct: 5 DVTILNPDLHIATVADGAELHIMMTADKGRGYVPADQNKLRLSGLEIGTLPIDSIYTPIE 64 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 +V+YTVE+ R GQ D+DKL++ + TDGS+T +++LA++IL + L MF+N E Sbjct: 65 RVNYTVENTRVGQSNDFDKLTLDVWTDGSLTPTAAISLAAKILTEHLEMFVNLTE 119 >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 = 97.1 bits (240), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 59/195 (30%), Positives = 99/195 (50%), Gaps = 1/195 (0%) Query: 35 LPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINL 94 LP G TLGNALRRVL+ + G + +++G+ HE +GV ED I LN+K + Sbjct: 32 LPEGEGITLGNALRRVLLGQIGGTGVLGFRLEGLDHEFMVPEGVVEDGLTIGLNLKKVLF 91 Query: 95 KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHG 154 K GD K + I +GP + A DI D+EV N D I + D + ME+ ++ G G Sbjct: 92 KYYGDGVKVLYIKAKGPAEIKAADIVPDADVEVFNLDQTILTVSTDREIYMEIYLTNGVG 151 Query: 155 YVPAK-HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 Y + + + P I +D +SP+++ Y V A + ++ L + + T+ ++ Sbjct: 152 YRTVEDNKKLYQFPFRTIYLDTSFSPVRRAEYHVTPAIVDEPGTFESLELIVYTNLAVDP 211 Query: 214 EDSVALASRILQDQL 228 + + A+ L ++ Sbjct: 212 VEVIRQAANFLSEEF 226 >gi|119662813|emb|CAJ33198.1| RNA polymerase alpha subunit [Lactobacillus vaccinostercus] Length = 114 Score = 96.3 bits (238), Expect = 6e-18, Method: Compositional matrix adjust. 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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSP 179 LNP+ I + A + +++T + G GYV A ++ D PIG++ ID++Y+P Sbjct: 61 LNPELHIATVADGAELHIQMTANTGRGYVSADDNKARMDDLPIGVLPIDSIYTP 114 >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 = 95.9 bits (237), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 78/296 (26%), Positives = 145/296 (48%), Gaps = 14/296 (4%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQID-GVLHEISSIKGVHEDLTDIILNIKGI 92 PL +G A+T+ A+RR L+ + G +IT +I+ +H+ S++ G+ E + DI+LN+K I Sbjct: 36 PLLKGQANTIAIAIRRTLLGEVEGTSITYAKIEKTTVHDYSTMSGIKESVHDILLNLKEI 95 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LK + +I GP VTA DI + I++++ I +L + LT+ + Sbjct: 96 VLKSELYGIHKASICTVGPRNVTAQDIILPSSIKIIDGTQHIASLTKSVPFNVMLTIERN 155 Query: 153 HGY-VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY +P++ R + GL IDA P++ V++++ S + + + L I T+G + Sbjct: 156 QGYAIPSQSSRRHKN--GLFPIDAPCMPVRNVNFSIHSYKSENDIR-EMLIFEIWTNGGL 212 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP----FNPALLKKV--EELEL 265 T ++ A L D + ++ EE K+ + L AL + + +LEL Sbjct: 213 TPREAFYEACWKLIDLIVPLLHMEEDMNGAKDFFALPILTRMDKLGKALFQHLFMNQLEL 272 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 S ++++C + I + D + + + + +KS IK ++ G+NL Sbjct: 273 SSKNSSCFQQTFIYRLSDFLNYSRQNSKTFEDLDKKS---IKKIMEFFQKRFGINL 325 >gi|2951864|gb|AAC05400.1| RNA polymerase alpha subunit [Buchnera aphidicola] gi|448401|prf||1917188B RNA polymerase:SUBUNIT=alpha Length = 113 Score = 95.5 bits (236), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 52/115 (45%), Positives = 75/115 (65%), Gaps = 3/115 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + +KP +E + Q T + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQNSIIGFLKPRLVE---IEQITATHTKVTLEPLERGFGHTLGNALRRILLSSMPGYAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 V+IDGVLHE S+ +GV ED+ +I+LN+K + +K+ G +++ K G G VTA Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKELAVKVHGKDEVFMSLNKSGIGSVTA 112 >gi|119662287|emb|CAJ33130.1| RNA polymerase alpha subunit [Lactobacillus buchneri] Length = 125 Score = 95.5 bits (236), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 49/112 (43%), Positives = 73/112 (65%), Gaps = 2/112 (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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 ES R GQ D+DKL++ I TDGSIT ++V+LA++IL + L MF++ + K Sbjct: 61 ESTRVGQRDDFDKLTLDIWTDGSITPSEAVSLAAKILTEHLEMFVDLTDEAK 112 >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 = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 64/223 (28%), Positives = 117/223 (52%), Gaps = 4/223 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + PL +G A T+G A+RR L+ + G IT + + V HE S+I G+ E + +I++N+ Sbjct: 32 FVLSPLMKGQADTIGIAMRRALLEEMEGTCITRAKSEKVPHEYSTIVGIEESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + + +I +GP +TA DI +E+++ I L + + L + Sbjct: 92 KEIVLRSNLYGTREASICVKGPKTITAEDIILPASVEIVDTTQHIATLTEPLDLYIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY + T N G IDA++ P++ ++++ S G + L + I T+G Sbjct: 152 QRDRGY---RMRPTNNSQDGSYPIDAVFMPVRNANHSIYSYGNGNE-KQEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 S+T ++++ ASR L D F++ EE ++E+ + +LP Sbjct: 208 SLTPKEALHEASRNLIDLFIPFLHAEEKDINLEENKSRFTLPL 250 >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 = 95.1 bits (235), Expect = 1e-17, Method: Compositional matrix adjust. 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|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 = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 65/225 (28%), Positives = 118/225 (52%), Gaps = 6/225 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+ +RR L+ + G IT V+ V HE S+I G+ E + +I++N Sbjct: 32 FILSPLRKGQADTIAIGIRRALLGEIEGTCITRVKSKNVPHEYSTIAGIQESVHEILMNF 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I L+ + +I RGPG VTA DI +E+++ I +L + + L + Sbjct: 92 KEIVLRSNLYGTCDASICVRGPGYVTAQDIILPPYVEIVDNTQHIASLTEPIDLCIGLQI 151 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + GY+ H +++ G IDA++ P++ ++++ S G ++ L + I T+G Sbjct: 152 ERNRGYLMKMPHNSQD---GSYPIDAVFMPVRNANHSIHSYGSGNE-KHEILFLEIWTNG 207 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 S+T ++++ A R L D F++ EE +++ N ++P +P Sbjct: 208 SLTPKEALHEACRNLIDLFIPFLHKEEETSPLED--NHHTVPLSP 250 >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 = 94.7 bits (234), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 70/202 (34%), Positives = 111/202 (54%), Gaps = 10/202 (4%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLH-EISSIKGVHEDLTDIILNIKGINLK---MS 97 T+GN LRRVL+S+L G IT V++ V H E + + GV ED ++ILN+K I LK Sbjct: 36 TIGNMLRRVLLSNLYGLKITGVRLPDVTHNEFNLLDGVREDFLEVILNLKEIILKDENKY 95 Query: 98 GDS-HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 G S H + I +GP VVTAG I+ I+VLNP++ + + D+ V + L + G YV Sbjct: 96 GQSYHGLLKI--QGPAVVTAGSIKFSKGIKVLNPNNYLLTISDDSFVEIHLKLEHGKAYV 153 Query: 157 PAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD-KLSMTIDTDGSITGED 215 AK + E + ID+ ++P+ KV+ V++ + + + D +L + I T+GS+ Sbjct: 154 LAKDQKLEGSTY-FLPIDSNFAPVLKVNSYVKTLPQ-HIENTDVELHLEIFTNGSLLPHQ 211 Query: 216 SVALASRILQDQLGMFINFEEP 237 ++ A ++ L E P Sbjct: 212 ALLQAKNMIGYMLSTVNKMEFP 233 >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 = 94.4 bits (233), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 84/302 (27%), Positives = 149/302 (49%), Gaps = 39/302 (12%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF T+G ALRR L+SS+ A++I V E +I + ED+ I+LN+K I Sbjct: 27 EPLERGFGSTIGTALRRTLLSSITSVVPFAIKIKDVDQEFDTISDIVEDVQMIMLNVKNI 86 Query: 93 NLKMSGDSHKRVTIFKRGPGV-------VTAGDIQTVN--DIEVLNPDHVICNLDVDAVV 143 +L + + I++ GV +T+ D++ +IE++N D I + Sbjct: 87 HLVYDENIFEDNKIYR---GVIETKNEKITSSDLKFPENPEIEIVNKDLEIATNNGQKPF 143 Query: 144 RMELTVSKGHGYVPAKHHRT--------ENDPI---GLITIDALYSPIKKVSYTVESARE 192 ME+ G GY+ + ++ N I + ID+ +SP++KV V+ Sbjct: 144 VMEVYFHVGRGYISFEDNKKLIEEKVALLNSTIKRGKFLAIDSDFSPVEKVKVKVQEINS 203 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF--------INFEEPKKEVKED 244 + ++L + I T G+I ++ ++ A++IL L + ++ E KK+ K + Sbjct: 204 SSLNIEEELEIEIKTKGTIDTKNILSQAAQILIAHLQVIGDVKNLDAVDVFEQKKQEKVE 263 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 ++ S+ + L+LSVRS N L+ + + D++ TE D++ + N G+KS+ Sbjct: 264 PSIHSVD--------ITSLDLSVRSINALKRQGYTKLADILTLTEDDLVAVKNLGKKSVE 315 Query: 305 EI 306 EI Sbjct: 316 EI 317 >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 = 93.2 bits (230), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 44/78 (56%), Positives = 55/78 (70%) Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 F+P LL+ V++LEL+VRS NCL E I Y+GDL+QRTE ++L N G SL EI VL Sbjct: 6 FDPILLRPVDDLELTVRSANCLXAEAIHYIGDLVQRTEVELLXTPNLGXXSLTEIXDVLA 65 Query: 312 TMGLFLGMNLPDWPPESI 329 + GL LGM L +WPP SI Sbjct: 66 SRGLSLGMRLENWPPASI 83 >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 = 92.0 bits (227), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 64/216 (29%), Positives = 117/216 (54%), Gaps = 17/216 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ L G IT + + + HE S+I G+ E + +I++N+ Sbjct: 34 FILSPLMKGQADTIGIAMRRALLGELEGTCITRAKSEKIPHEYSTIVGIQESVHEILMNL 93 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 K I L+ + + I +GPG VTA DI +E+++ + +L +D + +++ Sbjct: 94 KEIVLRGNLYGTRNAFICAKGPGYVTAQDIILPPSVEIVDNTQHVASLTEPIDLCIGLQI 153 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA---REGQVLDYDKLSMT 204 ++G+G K+ + P IDA++ P++ ++++ E Q + L + Sbjct: 154 ERNRGYGIKTPKNFHDGSYP-----IDAVFMPVRNANHSIHCYGNDNEKQEI----LFLE 204 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 I T+GS+T ++++ ASR L D +FI+F K+E Sbjct: 205 IWTNGSLTPKEALHEASRNLID---LFIHFLHAKEE 237 >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 = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 59/213 (27%), Positives = 111/213 (52%), Gaps = 12/213 (5%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV--LHEISSIKGVH 79 + + N ++ PL + F+ + N LR+++ G +I ++I+G+ LH S I GV Sbjct: 16 KHDFNSIQVLIGPLEKNFSGSFANLLRKIIFRYTSGVSIIGLKINGIDSLHSYSLIPGVK 75 Query: 80 EDLTDIILNIKGINLKMSGDSHKRV--TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 ED+ +++ N+K + +++ +K + TI K+GP ++ + DI ++I++LN D IC L Sbjct: 76 EDVLNVLNNLKHLLIQIDDYDYKPILLTIQKKGPYIIKSKDIICPSNIKILNDDLYICTL 135 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + D+ + + L G GYV + + ++ D + PIK VSY V S Sbjct: 136 ENDSQIDLTLIGDIGCGYVLSTYFGNRK---SIVYSDTNFCPIKHVSYYVRSYTT----- 187 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 Y++L I T+G+ + A L+D++ + Sbjct: 188 YEELIFYIKTNGTCNPLFVMKNAFSFLKDKINI 220 >gi|290489664|gb|ADD31216.1| RNA polymerase alpha subunit protein [Lonicera japonica] Length = 264 Score = 91.3 bits (225), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 66/230 (28%), Positives = 124/230 (53%), Gaps = 16/230 (6%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ E + +I++N+ Sbjct: 32 FILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTIVGIQESVHEILMNL 91 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL-NPDHVICNLD-VDAVVRMEL 147 K I L+ + +I RGPG VTA DI + +E++ N H++ + +D + +++ Sbjct: 92 KEIVLRSNLYGTCDASICVRGPGNVTAQDIISPPYVEIIDNTQHIVSLTEPIDFCIGLQI 151 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES---AREGQVLDYDKLSMT 204 ++G+ H + + P IDA++ P++ ++++ S E Q + L + Sbjct: 152 ERNRGYLIKTPNHFQDGSYP-----IDAVFMPVRNANHSIHSYGNENEKQEI----LFLE 202 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 I T+GS+T ++++ ASR L D F++ EE +++ N ++P P Sbjct: 203 IWTNGSLTPKEALHEASRNLIDLFIPFLHTEEENLHLED--NQHTVPLTP 250 >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 = 90.9 bits (224), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 84/332 (25%), Positives = 145/332 (43%), Gaps = 54/332 (16%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ P+ G TLGN RR+L++ L G AITA +++ E ++ G+ E + +I LN+ Sbjct: 29 LVLGPVAPGQGVTLGNTFRRLLLNDLPGVAITAAKLNDARTEFVTLPGIRESVVEIFLNL 88 Query: 90 KGI--------------NLKMSGDSHKRVTIFKRG------PGVVTAGDIQTVNDIEVLN 129 + I + + H+ T G P V+ AGD+Q + ++ Sbjct: 89 RDIVFFNTFPDVLAPQGTITIDPSVHEGPTDAGEGFELSTSPRVICAGDMQLPEGVYCVD 148 Query: 130 PDHVICNLDVDAVVRMEL----------------TVSKGHGYVPAKH---HRTENDPIGL 170 P I L ++A L T G G+ P + + E GL Sbjct: 149 PTQPIATL-MNAHTPFHLSFILEQATGYRVWKKPTQPYGRGFYPPRQTAAPQMEQVKSGL 207 Query: 171 I-TIDALYSPIKKVSYTV-ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 ID + P++ V++ V + G+ + ++ I T+GSI + A IL + Sbjct: 208 FQPIDGNFMPVRTVNFKVHDGPPHGEYIHFE-----ITTNGSIHPHAAFKHAGAILTEIT 262 Query: 229 GMFINFEEPKK-----EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGD 283 +EP+ EV + +V + +E+LELS+R+ NCL+ I+ + D Sbjct: 263 RA--TLQEPRPLVGMDEVSQPADVPNNQMAYFETIAIEQLELSLRAYNCLKRAQILTLAD 320 Query: 284 LIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 L + + +L + NFG+KS E+ L T G+ Sbjct: 321 LSRESYQSLLALRNFGQKSAEEVAKALETYGI 352 >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 = 90.9 bits (224), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 75/249 (30%), Positives = 112/249 (44%), Gaps = 52/249 (20%) Query: 37 RGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 RG A T+ NALRR L+ L +T V IDGV+HE SSI GV E + DI+LN+K + + Sbjct: 33 RGQALTVANALRRTLLGELPYLIVTKVHIDGVVHEFSSIPGVQESVLDILLNLKRLTFTI 92 Query: 97 SGDSHKRVTIFK------------RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD---- 140 S+K+ IF RGP VTA D++ + + P+H I L + Sbjct: 93 ---SNKKFNIFSNSWLKTKVFLKIRGPAKVTAADLKLPPHLACVWPNHYIATLSSNAELA 149 Query: 141 -----AVVRMELTVSKGHGYVPAKHH---RTENDPI--------------------GLIT 172 AVV + +S V +K+ + ND + + Sbjct: 150 CVLELAVVHPKQKISIAKNEVGSKNKIFGKVTNDVFEKGKGTESKKILTDSIEKNKKIFS 209 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 +D YSPI+KV+Y + + +Y L + I TDGSI + ++ A + L +F Sbjct: 210 LDTNYSPIRKVNYVIYELDSKKNSEY--LVLEIVTDGSIEPKQALRFAFKQLTK---LFY 264 Query: 233 NFEEPKKEV 241 F + K V Sbjct: 265 EFTQISKNV 273 >gi|55274199|gb|AAV48981.1| DNA-directed RNA polymerase [Leuconostoc pseudomesenteroides] Length = 101 Score = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 49/101 (48%), Positives = 65/101 (64%), Gaps = 8/101 (7%) Query: 8 ELIKPN--NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E KPN NIE E+ + EPL RG+ TLGN+LRR+L+SSL GAA+ VQI Sbjct: 3 EFEKPNIHNIE------EDARYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTI 106 DGV+HE S++ GV ED+T IILN+K + L + D + + I Sbjct: 57 DGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDERSLEI 97 >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 = 89.4 bits (220), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 49/127 (38%), Positives = 71/127 (55%), Gaps = 6/127 (4%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P G T+GNA RR L+S L G IT ++IDGV HE S++ GV E + DI+LN+K Sbjct: 27 PFDLGQGLTVGNAFRRTLLSELSGVGITLIEIDGVCHEYSTLPGVRESVLDILLNLK--Q 84 Query: 94 LKMSGDSHKRVT----IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 L ++ D+ V + GPGVVTA D++ + ++PD I L DA + + V Sbjct: 85 LVLTSDTTFTVPQVGYLNFTGPGVVTAKDLKLPVSVYCVDPDQPIATLSADATLNFKFLV 144 Query: 150 SKGHGYV 156 +G Y+ Sbjct: 145 CQGKNYI 151 >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 = 89.0 bits (219), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 52/145 (35%), Positives = 79/145 (54%), Gaps = 5/145 (3%) Query: 17 YIVLGQEEENRTL---MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 Y++ ++E N+T P G + T+ NALRR L+S + G +T+V+I+GV HE S Sbjct: 25 YLIKEEKENNQTFYGRFYIGPFEIGQSLTMANALRRSLLSEVPGLGLTSVEIEGVAHEYS 84 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR--GPGVVTAGDIQTVNDIEVLNPD 131 +I GV E + DI+LNIK I K + K + R GP + A D+ I+ +NPD Sbjct: 85 TIPGVQETVFDILLNIKNIVFKSTTYLKKAEIGYCRASGPKTLRAKDLLLPAHIQCVNPD 144 Query: 132 HVICNLDVDAVVRMELTVSKGHGYV 156 I L D + M+L + +G Y+ Sbjct: 145 QYIATLKSDGTLNMKLKIRQGTHYL 169 >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 = 88.2 bits (217), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 53/193 (27%), Positives = 103/193 (53%), Gaps = 15/193 (7%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 N +L + L G A+ + N ++++ ++ ++G + + + +EIS IKG+ ED+ DI Sbjct: 14 NYSLFYLKNLKNGIANIIANFIKKISLNQIKGFCVYKIIFKNIKNEISYIKGIKEDIIDI 73 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGP--GVVTAGDIQTVN-DIEVLNPDHVICNLDVDAV 142 +LNIK + K+ + + T F + G + A +I+T+N +I++LNP H+I N + Sbjct: 74 VLNIKNVIFKIKNN---KTTFFLKNYFLGPIYAYNIKTLNKNIKILNPSHLIANAIIKTK 130 Query: 143 VRMELTVSKGHGYV------PAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + + + V KG GY+ K++ E I +I +D Y+P+ + + ++ Sbjct: 131 LNILIKVKKGKGYINNNEKKKFKYYNKEKKKI-VIYLDTNYTPV--KKFFFKIKKKIIKK 187 Query: 197 DYDKLSMTIDTDG 209 Y+ L + I T+G Sbjct: 188 KYEDLKIYIKTNG 200 >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 = 87.8 bits (216), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 54/170 (31%), Positives = 93/170 (54%), Gaps = 6/170 (3%) Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 IE++N D I L + + TVS G TE + +G I +DA ++PIK+V+ Sbjct: 4 IEIINKDQPIATLTNEREFSLVATVSVGRNVGILSALPTELEKVGDIAVDADFNPIKRVA 63 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + + + L+ + + T+G+I +V A +Q+ +F++ P D Sbjct: 64 FEIFDNGASETLE-----VFVKTNGTIEPLAAVTKALEYFCEQISVFVSLRVPSNGKTGD 118 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + S +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ +++ Sbjct: 119 ALLDS-NIDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMK 167 >gi|218672329|ref|ZP_03521998.1| DNA-directed RNA polymerase subunit alpha [Rhizobium etli GR56] Length = 57 Score = 87.4 bits (215), Expect = 3e-15, Method: Compositional matrix adjust. 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|324533916|gb|ADY49343.1| DNA-directed RNA polymerase subunit alpha [Ascaris suum] Length = 179 Score = 87.0 bits (214), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 52/178 (29%), Positives = 100/178 (56%), 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 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE----VKEDINVKSLPFNPALLKK- 259 I+T+G+I+ E++++ ++ I+++ + + N EE + ++ + V + N + 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|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 = 87.0 bits (214), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 37/80 (46%), Positives = 63/80 (78%) Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 L + ++ELELSVR++ CL+ +++ +GD + +EA++LR+ NFGRKSL E+K +LG +GL Sbjct: 157 LYRSIDELELSVRTSLCLKNDDVRLVGDFARNSEAELLRIPNFGRKSLNELKEILGQVGL 216 Query: 316 FLGMNLPDWPPESIEELAKK 335 LG+ LP+WPP +++ L+++ Sbjct: 217 QLGLALPEWPPPNVDFLSQQ 236 Score = 84.7 bits (208), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 39/70 (55%), Positives = 55/70 (78%) Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 LL++V++LELSVRS NCL+ + I ++G+L+Q++E +MLR NFGR+SL EIK +L GL Sbjct: 240 LLERVDDLELSVRSANCLKKDGINHVGELVQKSEDEMLRTPNFGRRSLNEIKDLLAASGL 299 Query: 316 FLGMNLPDWP 325 LGM+L WP Sbjct: 300 HLGMDLSGWP 309 >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 = 86.3 bits (212), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 53/170 (31%), Positives = 93/170 (54%), Gaps = 6/170 (3%) Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 IE++N D I L + + TVS G TE + +G I +D+ ++PIK+V+ Sbjct: 4 IEIINKDQPIATLTNEREFSLTATVSVGRNVGILSALPTELEKVGDIAVDSDFNPIKRVA 63 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + + + L+ + + T+G+I +V A +Q+ +F++ P D Sbjct: 64 FEIFDNGTNETLE-----VFVKTNGTIEPLVAVTKALEYFCEQISVFVSLRVPSNGKTGD 118 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + S +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ +++ Sbjct: 119 ALLDS-NIDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMK 167 >gi|152218448|gb|ABS31658.1| RpoA [Francisella philomiragia subsp. philomiragia ATCC 25015] Length = 167 Score = 86.3 bits (212), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 53/170 (31%), Positives = 93/170 (54%), 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 D Sbjct: 64 FEIFDNGTNETLE-----VFVKTNGTIEPLVAVTKALEYFCEQISVFVSLRVPSNGKTGD 118 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + S +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ +++ Sbjct: 119 ALLDS-NIDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMK 167 >gi|166714636|gb|ABY88043.1| RpoA [Stenotrophomonas koreensis] Length = 122 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 47/122 (38%), Positives = 71/122 (58%), Gaps = 6/122 (4%) Query: 145 MELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 M L V +G GY PA R E IG + +DA +SP+++V+Y VE+AR Q D DKL Sbjct: 4 MRLKVERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLDKL 63 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + IDT+G+I E++V A+ IL DQL +F +F + + N +P LL+ ++ Sbjct: 64 VLDIDTNGTIDAEEAVRTAADILTDQLSVFGDFTHRDRGAAKPTNNG---VDPVLLRPID 120 Query: 262 EL 263 +L Sbjct: 121 DL 122 >gi|166714644|gb|ABY88047.1| RpoA [Stenotrophomonas sp. LMG 10857] Length = 122 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 46/125 (36%), Positives = 73/125 (58%), Gaps = 6/125 (4%) Query: 142 VVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M L + +G GY PA R E IG + +DA +SP+++V+Y+VE+AR Q D Sbjct: 1 AINMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYSVEAARVEQRTDL 60 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL M I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 61 DKLVMDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNG---VDPVLLR 117 Query: 259 KVEEL 263 +++L Sbjct: 118 PIDDL 122 >gi|119662819|emb|CAJ33202.1| RNA polymerase alpha subunit [Lactobacillus diolivorans] Length = 98 Score = 85.1 bits (209), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 50/95 (52%), Positives = 61/95 (64%), Gaps = 2/95 (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 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D+ VLNPD I + A M LT +KG GYV A Sbjct: 61 DVTVLNPDLHIATVAEGATFHMRLTANKGRGYVSA 95 >gi|48374282|gb|AAT41971.1| putative RNA polymerase alpha subunit [Fremyella diplosiphon Fd33] Length = 155 Score = 84.3 bits (207), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 50/155 (32%), Positives = 88/155 (56%), 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 + + DI P +P +EEL+LSVR+ NCL+ + + DL+ Sbjct: 61 FNPLKDISLEPTDTGSDI-----PDDPTAQIPIEELQLSVRAYNCLKRAQVNSVADLLDY 115 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 T+ D+L + NFG+KS E V+ + LG+ LP Sbjct: 116 TQEDLLEIKNFGQKSAEE---VVEALQRRLGITLP 147 >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 = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 46/125 (36%), Positives = 73/125 (58%), Gaps = 6/125 (4%) Query: 142 VVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M L V +G GY PA R E+ IG + +DA +SP+++V+Y VE+AR Q D Sbjct: 1 AINMRLKVERGFGYQPAAARRRPDEESRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDL 60 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 61 DKLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNG---VDPVLLR 117 Query: 259 KVEEL 263 +++L Sbjct: 118 PIDDL 122 >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 = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 50/144 (34%), Positives = 74/144 (51%), Gaps = 10/144 (6%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PLP G TLGNALRR+L+ L G A T+ + G HE ++ G+ E + +I+LNIK + Sbjct: 25 PLPAGQGITLGNALRRILLGDLVGFAATSANLAGASHEFDTLPGIRESVLEILLNIKQLV 84 Query: 94 LKMSGDSHK-------RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 K K R ++ GP VTA D+ + ++V++P I L A + E Sbjct: 85 FKQISSRPKDTNRFAMRASLNLTGPATVTAKDLVLPSWMKVVDPSQYIATLASGASLEFE 144 Query: 147 LTVSKGHGYVPAKHHRTENDPIGL 170 + +S+G GY + RT P G Sbjct: 145 IQLSQGSGY---RLRRTSLVPPGF 165 Score = 65.9 bits (159), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 50/153 (32%), Positives = 78/153 (50%), Gaps = 28/153 (18%) Query: 173 IDALYSPIKKVSYTVESA------REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 IDA++ P+ +V+Y VE RE V+D I T+GS++ ++ A+ IL Sbjct: 240 IDAVFFPVTRVNYRVEEEVINGRRREELVID-------IWTNGSLSPRKALDQAAVIL-- 290 Query: 227 QLGMFINFE-------EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIV 279 + M + + EP+K+ K + P +E L+LSVRS NCL+ NI Sbjct: 291 -IRMLASLQAPPPLLIEPEKKPTTKTIAKEIALTP-----IESLDLSVRSFNCLKRANIT 344 Query: 280 YMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +G LI T ++L++ NFG KS E+ VL + Sbjct: 345 NVGKLIAYTRQELLQLKNFGTKSASEVVDVLNS 377 >gi|229915533|gb|ACQ90877.1| alpha subunit of RNA polymerase [Pedinomonas minor] Length = 365 Score = 84.0 bits (206), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 78/340 (22%), Positives = 150/340 (44%), Gaps = 62/340 (18%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P G A T+ N+LRR L+S +G + AV+IDG +HE S ++G+ E + DI+LN++ ++ Sbjct: 28 PFQAGQALTVANSLRRTLLSDQQGVFLAAVEIDGAIHEYSRLEGLKESILDILLNLRQVS 87 Query: 94 LKMSGDSHKRVTIFK-----------RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 + ++ D+ K + F +GP V A D++ IE NP+ I L + Sbjct: 88 VLLTDDTSKTASEFANQETFVGYFDLQGPMEVKAKDLKFPKQIECGNPNQHIATLTRNCT 147 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI------------------GLITIDALYSPIKKVS 184 + + G +++ DP+ + ++ + + I++V+ Sbjct: 148 FQGRFLILTNPGLT--FKNQSIGDPLLFTKQVAKLEIGNRLLEKNWLYVNPITNAIRRVN 205 Query: 185 YTVESAREGQVLDYDK-LSMTIDTDGSITGEDSV--ALASRILQDQLGMFIN-------- 233 Y VE + G V + + + + + T+G+I + ++ A +N Sbjct: 206 YVVE--QFGDVWEQKEVVVLEVWTNGTIHPKQAIHSACTKLSTLFSSLSSVNTTAFKFPA 263 Query: 234 ----FEEPKKEVKEDINVKSLPF-------NPALLK-------KVEELELSVRSTNCLRG 275 F++ K + D N+ P +PA K + L+LS+++ L+ Sbjct: 264 SVARFKKVKTDSGADGNLTVKPMTEFSGQESPAGDKLTILFDLDIANLQLSLKTYLVLKN 323 Query: 276 ENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 I +G+L+Q ++D+ R+ N + EI+ L GL Sbjct: 324 AKIQNIGNLLQYNKSDLTRLLNLANSQIEEIETALNVFGL 363 >gi|166714634|gb|ABY88042.1| RpoA [Stenotrophomonas nitritireducens] Length = 122 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 46/125 (36%), Positives = 72/125 (57%), Gaps = 6/125 (4%) Query: 142 VVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M L V +G GY PA R E IG + +DA +SP+++V+Y VE+AR Q D Sbjct: 1 AINMRLKVERGFGYQPAASRRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDL 60 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 61 DKLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNG---VDPVLLR 117 Query: 259 KVEEL 263 +++L Sbjct: 118 PIDDL 122 >gi|166714650|gb|ABY88050.1| RpoA [Stenotrophomonas sp. LMG 10890] Length = 122 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 46/125 (36%), Positives = 72/125 (57%), Gaps = 6/125 (4%) Query: 142 VVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 V M L + +G GY PA R E IG + +DA +SP+++V+Y VE+AR Q D Sbjct: 1 AVNMRLKIDRGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDL 60 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 61 DKLVIDIETNGTIDAEEAVQTAADILSDQLSVFGDFTHRDRGAAKPANNG---VDPVLLR 117 Query: 259 KVEEL 263 +++L Sbjct: 118 PIDDL 122 >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 = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 46/125 (36%), Positives = 72/125 (57%), Gaps = 6/125 (4%) Query: 142 VVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 V M L + +G GY PA R E IG + +DA +SP+++V+Y VE+AR Q D Sbjct: 1 AVNMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDL 60 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 61 DKLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNG---VDPVLLR 117 Query: 259 KVEEL 263 +++L Sbjct: 118 PIDDL 122 >gi|166714628|gb|ABY88039.1| RpoA [Stenotrophomonas maltophilia] Length = 122 Score = 83.6 bits (205), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 44/125 (35%), Positives = 74/125 (59%), Gaps = 6/125 (4%) Query: 142 VVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M + + +G+GY PA R+ E IG + +DA +SP+++V+Y VE+AR Q D Sbjct: 1 AINMAVKIERGYGYQPAAARRSPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDL 60 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 61 DKLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFNHRDRGAAKPANNG---VDPVLLR 117 Query: 259 KVEEL 263 +++L Sbjct: 118 PIDDL 122 >gi|166714682|gb|ABY88066.1| RpoA [Stenotrophomonas sp. LMG 981] Length = 122 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 45/124 (36%), Positives = 73/124 (58%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R E IG + +DA +SP+++V+Y+VE+AR Q D D Sbjct: 2 INMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYSVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 62 KLVIEIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNG---VDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >gi|166714632|gb|ABY88041.1| RpoA [Stenotrophomonas acidaminiphila] Length = 119 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 46/122 (37%), Positives = 71/122 (58%), Gaps = 6/122 (4%) Query: 145 MELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 M L V +G GY PA R E IG + +DA +SP+++V+Y VE+AR Q D DKL Sbjct: 1 MRLKVERGFGYQPAASRRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLDKL 60 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ ++ Sbjct: 61 VIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNG---VDPVLLRPID 117 Query: 262 EL 263 +L Sbjct: 118 DL 119 >gi|166714656|gb|ABY88053.1| RpoA [Stenotrophomonas sp. LMG 11114] Length = 122 Score = 83.2 bits (204), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 45/125 (36%), Positives = 71/125 (56%), Gaps = 6/125 (4%) Query: 142 VVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M L + +G GY PA R E IG + +DA +SP+++V+Y VE+AR Q D Sbjct: 1 AINMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDL 60 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + I+T+G+I ED+V + IL DQL +F +F + + N +P LL+ Sbjct: 61 DKLVIDIETNGTIDAEDAVRTGADILSDQLSVFGDFTHRDRGAAKPANNG---VDPVLLR 117 Query: 259 KVEEL 263 +++L Sbjct: 118 PIDDL 122 >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 = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 45/125 (36%), Positives = 72/125 (57%), Gaps = 6/125 (4%) Query: 142 VVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M L + +G GY PA R E IG + +DA +SP+++V+Y VE+AR Q D Sbjct: 1 AINMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDL 60 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 61 DKLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRARGAAKPANNG---VDPVLLR 117 Query: 259 KVEEL 263 +++L Sbjct: 118 PIDDL 122 >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 = 83.2 bits (204), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 45/125 (36%), Positives = 72/125 (57%), Gaps = 6/125 (4%) Query: 142 VVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M L + +G GY PA R E IG + +DA +SP+++V+Y VE+AR Q D Sbjct: 1 AINMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDL 60 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 61 DKLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNG---VDPVLLR 117 Query: 259 KVEEL 263 +++L Sbjct: 118 PIDDL 122 >gi|166714646|gb|ABY88048.1| RpoA [Stenotrophomonas sp. LMG 10881] Length = 122 Score = 82.8 bits (203), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 46/124 (37%), Positives = 71/124 (57%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L V +G GY PA R E IG + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKVERGFGYQPAASRRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + I+T+G+I E++V A IL DQL +F +F + + N +P LL+ Sbjct: 62 KLVIDIETNGTIDAEEAVRTAGDILSDQLSVFGDFTHRDRGAAKPANNG---VDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >gi|213517416|gb|ACJ50122.1| RNA polymerase alpha subunit [Chlamydomonas reinhardtii] Length = 737 Score = 82.8 bits (203), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 43/139 (30%), Positives = 76/139 (54%), Gaps = 11/139 (7%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P + TL N LRR L+S L G AIT+++I+GVLH+ S++ G+ E + D+I N++ I Sbjct: 42 PFDESLSQTLANDLRRTLLSELTGLAITSIEIEGVLHKFSTLTGMKEPVLDLICNLQNIV 101 Query: 94 LK----MSGDSHKRVT-------IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 L+ S + + R T + GP V+ A D++ ++ ++P+ I L D Sbjct: 102 LRKETISSTNMNYRATKKTYIGFLSVNGPRVIKAADLKLPAGLQCVDPNQYIATLAEDGF 161 Query: 143 VRMELTVSKGHGYVPAKHH 161 + M+ +++G Y+ K + Sbjct: 162 LNMKFNINEGKNYIKQKPY 180 Score = 41.2 bits (95), Expect = 0.21, Method: Compositional matrix adjust. Identities = 20/55 (36%), Positives = 34/55 (61%) Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L++S+RS L+ I + DLI+ ++ D+ + N G+KS+ EI+ L +GL L Sbjct: 680 LKISLRSYTALKKAGITTLKDLIKYSKKDLFAIKNLGQKSVFEIEQNLALLGLTL 734 >gi|62361814|gb|AAX81443.1| RNA polymerase alpha subunit [Simkania negevensis] Length = 159 Score = 82.8 bits (203), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 53/157 (33%), Positives = 84/157 (53%), Gaps = 17/157 (10%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLK---------------MSGD 99 L AI +++I+G HE ++I+GV ED+T IILN+KG L+ +S D Sbjct: 1 LEAPAIISIKIEGAPHEYTAIEGVIEDMTHIILNLKGTLLRKIPLVENKDTRAPTIISQD 60 Query: 100 SHKRVTIFKRGPG--VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP 157 + G G VV I ++ E++NPDH I + R++L ++ G GYVP Sbjct: 61 LDVTQDMLDTGGGQFVVKFKHIMGESNFEMINPDHHIFTITKPMRKRIDLKIAIGRGYVP 120 Query: 158 AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 ++ H + + I ID+ +SP++ V+Y VE+ R GQ Sbjct: 121 SERHELPDKVVDEIVIDSAFSPVRLVNYFVENTRVGQ 157 >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 = 82.4 bits (202), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 43/139 (30%), Positives = 76/139 (54%), Gaps = 11/139 (7%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P + TL N LRR L+S L G AIT+++I+GVLH+ S++ G+ E + D+I N++ I Sbjct: 42 PFDESLSQTLANDLRRTLLSELTGLAITSIEIEGVLHKFSTLTGMKEPVLDLICNLQNIV 101 Query: 94 LK----MSGDSHKRVT-------IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 L+ S + + R T + GP V+ A D++ ++ ++P+ I L D Sbjct: 102 LRKETISSTNMNYRATKKTYIGFLSVNGPRVIKAADLKLPAGLQCVDPNQYIATLAEDGF 161 Query: 143 VRMELTVSKGHGYVPAKHH 161 + M+ +++G Y+ K + Sbjct: 162 LNMKFNINEGKNYIKQKPY 180 >gi|166714642|gb|ABY88046.1| RpoA [Stenotrophomonas sp. LMG 10992] Length = 122 Score = 82.4 bits (202), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 44/125 (35%), Positives = 73/125 (58%), Gaps = 6/125 (4%) Query: 142 VVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M + + +G GY PA R+ E IG + +DA +SP+++V+Y VE+AR Q D Sbjct: 1 AINMAVKIERGFGYQPAAARRSPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDL 60 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 61 DKLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFNHRDRGAAKPANNG---VDPVLLR 117 Query: 259 KVEEL 263 +++L Sbjct: 118 PIDDL 122 >gi|150187027|emb|CAK30154.1| RNA polymerase alpha subunit [Streptococcus uberis] Length = 101 Score = 82.4 bits (202), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 41/101 (40%), Positives = 65/101 (64%) Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 +I GV ED+ IILNIKG+ +K + K + + GP VTAGDI T +DIE++NPDH Sbjct: 1 TIPGVREDVMQIILNIKGLAVKSYVEDEKMIELDVEGPAEVTAGDILTDSDIELVNPDHY 60 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITID 174 + + ++ +TV+K GYVPA+ ++ ++ P+G + +D Sbjct: 61 LFTIAEGHSLKATMTVAKKRGYVPAEGNKKDDAPVGTLAVD 101 >gi|166714638|gb|ABY88044.1| RpoA [Pseudoxanthomonas dokdonensis] Length = 122 Score = 82.4 bits (202), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 46/124 (37%), Positives = 73/124 (58%), Gaps = 10/124 (8%) Query: 145 MELTVSKGHGYVPA---KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 M L + +G GY PA +H E IG + +DA +SP+++V+Y VE+AR Q D DKL Sbjct: 4 MRLKIERGFGYQPAAARRHPDDETRTIGRLVLDASFSPVRRVAYAVEAARVEQRTDLDKL 63 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP--FNPALLKK 259 + I+T+G+I E++V A+ IL DQL +F +F ++ K P +P LL+ Sbjct: 64 VLDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRQRG-----EAKPSPTGVDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >gi|166714704|gb|ABY88077.1| RpoA [Stenotrophomonas sp. ICB220] Length = 122 Score = 82.4 bits (202), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 46/123 (37%), Positives = 73/123 (59%), Gaps = 8/123 (6%) Query: 145 MELTVSKGHGYVPA---KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 M L + +G GY PA +H E IG + +DA +SP+++V+Y VE+AR Q D DKL Sbjct: 4 MRLKIERGFGYQPAAARRHPDDETRTIGRLVLDASFSPVRRVAYAVEAARVEQRTDLDKL 63 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDINVKSLPFNPALLKKV 260 + I+T+G+I E++V A+ IL DQL +F +F ++ E K +P LL+ + Sbjct: 64 VLDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRQRGEAKP----SKTGVDPVLLRPI 119 Query: 261 EEL 263 ++L Sbjct: 120 DDL 122 >gi|166714678|gb|ABY88064.1| RpoA [Stenotrophomonas sp. ICB128] Length = 122 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 44/125 (35%), Positives = 72/125 (57%), Gaps = 6/125 (4%) Query: 142 VVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++M L + +G GY P R E IG + +DA +SP+++V+Y VE+AR Q D Sbjct: 1 AIKMRLKIERGFGYQPGAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDL 60 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 61 DKLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNG---VDPVLLR 117 Query: 259 KVEEL 263 +++L Sbjct: 118 PIDDL 122 >gi|156619301|gb|ABU88330.1| RNA polymerase alpha subunit [Chlamydomonas moewusii] Length = 633 Score = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 45/127 (35%), Positives = 73/127 (57%), Gaps = 2/127 (1%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P + T+ N LRR L+S + G AI +V+I+G HE SS+ GVHE + DI+LN+K I Sbjct: 27 PFEPSQSLTIANTLRRTLLSEIYGLAIVSVEIEGASHEYSSLPGVHESVLDILLNLKEIV 86 Query: 94 LKMS-GDSHKRVTIFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 LK S + ++ + RGPGVVT ++ I+ ++PD I L + + ++ V Sbjct: 87 LKKSIKNFTPQIGYLRARGPGVVTGSHLRLPPFIQCVDPDQYIATLSHNGFLNIKFVVQY 146 Query: 152 GHGYVPA 158 G+ ++ + Sbjct: 147 GNKWLAS 153 >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 = 82.0 bits (201), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 41/139 (29%), Positives = 76/139 (54%), Gaps = 11/139 (7%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P + T+ N +RR L+S L AIT+++I+G+LH+ SS+ G+ E + D+I N++ I Sbjct: 42 PFDDSLSQTIANDIRRTLLSELTSLAITSIEIEGILHKYSSLPGMKETVLDLICNLQSIV 101 Query: 94 LKMSGDSHKRVTIFK-----------RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 LK S +T+ GP V+ A D++ + ++ ++P+ I L D + Sbjct: 102 LKKQEISFTNITLRSTKKTYRGFLNVSGPRVIKAMDLKLPSGLQCVDPNQYIATLAEDGL 161 Query: 143 VRMELTVSKGHGYVPAKHH 161 + M+L +++G ++ K H Sbjct: 162 LNMKLNINEGKNFIKQKPH 180 Score = 42.0 bits (97), Expect = 0.13, Method: Compositional matrix adjust. Identities = 20/55 (36%), Positives = 37/55 (67%) Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L++S+R+ L+ I+ + DL++ ++ D+L++ N G+KSLV I+ L +GL L Sbjct: 710 LKISLRAYTALKKAGILTINDLVKCSKNDLLKINNLGKKSLVLIETSLSYLGLTL 764 >gi|166714706|gb|ABY88078.1| RpoA [Stenotrophomonas sp. LMG 11108] Length = 122 Score = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 47/125 (37%), Positives = 71/125 (56%), Gaps = 6/125 (4%) Query: 142 VVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M L +G GY PA R E IG + +DA +SP+++V+Y+VE+AR Q D Sbjct: 1 AINMRLKSERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYSVEAARVEQRTDL 60 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL M I+T+G+I +++V A IL DQL F +F P + I + +P LL+ Sbjct: 61 DKLVMDIETNGTIDAQEAVRTAPDILNDQLSAFGDF--PHRHRGAPIPANNG-MDPVLLR 117 Query: 259 KVEEL 263 +E+L Sbjct: 118 PIEDL 122 >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 = 81.6 bits (200), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 44/119 (36%), Positives = 70/119 (58%), Gaps = 2/119 (1%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P + T+ NALRR L++ L AIT ++I+GV HE S++ GV E + D++LN KGI Sbjct: 31 PFKNSQSLTVANALRRTLLAELSNIAITHLEIEGVTHEYSTLVGVRESVLDLLLNFKGIA 90 Query: 94 LKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 LK + K + + RGPGVV A D++ I+ ++PD I L+ + + ++ +S Sbjct: 91 LKNTSPVTKPLFGYLQVRGPGVVRASDLKFPPMIQCVDPDQYIATLNENGKLILKFRIS 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 = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 69/279 (24%), Positives = 133/279 (47%), Gaps = 34/279 (12%) Query: 35 LPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINL 94 P+ T+ NALRR L++ +IT V I+ + HE S++KG+ E + DI++N+K I + Sbjct: 43 FPKNQGLTIANALRRTLLTESTECSITGVLIEDIKHEYSNLKGIKETVFDILMNLKKI-I 101 Query: 95 KMSGDSHKRVTI---FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 SG S + + ++GP V+ A +++ + + +NPD I L+ ++ + M + + + Sbjct: 102 FFSGQSFFKTQVSFLSEKGPIVLKAKNLKLPSFLFCINPDQYITTLETNSKINMTIFIDQ 161 Query: 152 G---------HGY----------VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 H Y K + T+N + +D + PI ++Y ++ +E Sbjct: 162 STPKNFSYFTHCYYSNFSNNFFPFKLKKNFTQNQQSNFLFLDTQFCPISNLNYKIK-KKE 220 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK--EDINVKSL 250 Q + L I T+GS+ + A + L L F + K E + E+ ++ + Sbjct: 221 SQK---EILFFEIWTNGSVHPNFILKKAIKNLLLNLIPFHSLRNSKIEFEDYENKKIQKI 277 Query: 251 PFNPALLKKVEELEL-----SVRSTNCLRGENIVYMGDL 284 ++K+ +L+L S+ + L+ NI+ +GDL Sbjct: 278 VSQKKFIQKLIKLDLTNFPISLETYQSLKKLNILTIGDL 316 >gi|183397277|gb|ACC62185.1| RpoA1 [Francisella sp. PQ1104] gi|183397283|gb|ACC62188.1| RpoA1 [Francisella sp. PQ1105] Length = 154 Score = 81.3 bits (199), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 48/145 (33%), Positives = 82/145 (56%), Gaps = 6/145 (4%) Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 TVS G TE + +G I +DA ++PIK+V++ + + L+ + + T Sbjct: 16 TVSVGRNVGILSALPTELEKVGDIAVDADFNPIKRVAFEIFDNGASETLE-----VFVKT 70 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G+I +V A + +Q+ +F++ P D + S +P LLK +++LEL+V Sbjct: 71 NGTIESLAAVTKALKYFCEQISVFVSLRVPSNGKTGDALLDS-NIDPILLKPIDDLELTV 129 Query: 268 RSTNCLRGENIVYMGDLIQRTEADM 292 RS+NCLR ENI Y+GDL+Q +E+ + Sbjct: 130 RSSNCLRAENIKYLGDLVQYSESQL 154 >gi|166714648|gb|ABY88049.1| RpoA [Stenotrophomonas sp. LMG 10887] Length = 122 Score = 80.9 bits (198), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 44/125 (35%), Positives = 71/125 (56%), Gaps = 6/125 (4%) Query: 142 VVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M L + +G GY P R E IG + +DA +SP+++V+Y VE+AR Q D Sbjct: 1 AINMRLKIERGFGYQPVAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDL 60 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 61 DKLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNG---VDPVLLR 117 Query: 259 KVEEL 263 +++L Sbjct: 118 PIDDL 122 >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 = 80.5 bits (197), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 79/312 (25%), Positives = 140/312 (44%), Gaps = 45/312 (14%) Query: 35 LPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINL 94 L RGF +TL ALRR+L+S++ G A V+I+GV HE ++++ V ED+ I+ N+K + L Sbjct: 31 LERGFGNTLAVALRRILLSNITGIAPFCVRIEGVEHEFTALEKVSEDIVTILSNLKKVVL 90 Query: 95 KMSGDSHKRVTIFKRGPGV-----VTAGDIQTVN--DIEVLNPDHVICNLDVDAVVRMEL 147 D K I K +T+ + N +EV N D I L V+++E+ Sbjct: 91 NYDEDYVKDNQIIKLSLNANEDNRITSNHLTVTNAPRVEVQNKDVEIATLSKPGVLKLEM 150 Query: 148 TVSKGHGYVPAKHHR-------------TENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 + G GYV + ++ + I +D+++SP+ V++ V Sbjct: 151 FLRAGRGYVDFEDNKKFIEEKEKELKELSSLSKGAFIAMDSVFSPVVNVAWKVTELNTAS 210 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRIL------------QDQLGMFINFEEPKKEVK 242 + ++L + ++T +T E ++ LA +IL D +F + ++ ++ + Sbjct: 211 LKIEEQLELELETKLGVTPESAIKLACKILVAHFQTIGDLTDLDSDEIFQSEKQSLEKEE 270 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +D+ ++ L LS+RS N L I + +L + + N G KS Sbjct: 271 DDMEIRL-------------LNLSMRSQNALAKSGIKTLNELASYPIEKLKEIKNLGEKS 317 Query: 303 LVEIKGVLGTMG 314 EI L G Sbjct: 318 REEIIRKLNEYG 329 >gi|166714630|gb|ABY88040.1| RpoA [Stenotrophomonas maltophilia] Length = 107 Score = 80.1 bits (196), Expect = 4e-13, Method: Composition-based stats. Identities = 40/95 (42%), Positives = 61/95 (64%), Gaps = 3/95 (3%) Query: 143 VRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G+GY PA R E IG + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGYGYQPAAARRCPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 KL + I+T+G+I E++V A+ IL DQL +F +F Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDF 96 >gi|166714664|gb|ABY88057.1| RpoA [Stenotrophomonas sp. LMG 10853] Length = 122 Score = 80.1 bits (196), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 44/125 (35%), Positives = 71/125 (56%), Gaps = 6/125 (4%) Query: 142 VVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M L + +G GY PA R E IG + +DA +SP+++V+Y VE+AR Q D Sbjct: 1 AINMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDL 60 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + I+T+G+I E++V A+ I DQL +F +F + + N +P LL+ Sbjct: 61 DKLVIDIETNGTIDAEEAVRTAADIPSDQLSVFGDFTHRDRGAAKPANNG---VDPVLLR 117 Query: 259 KVEEL 263 +++L Sbjct: 118 PIDDL 122 >gi|166714692|gb|ABY88071.1| RpoA [Stenotrophomonas sp. LMG 11000] Length = 122 Score = 80.1 bits (196), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 44/125 (35%), Positives = 71/125 (56%), Gaps = 6/125 (4%) Query: 142 VVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M L + +G Y PA R E IG + +DA +SP+++V+Y VE+AR Q D Sbjct: 1 AINMRLKIERGFAYQPAALRRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDL 60 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 61 DKLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNG---VDPVLLR 117 Query: 259 KVEEL 263 +++L Sbjct: 118 PIDDL 122 >gi|166714680|gb|ABY88065.1| RpoA [Stenotrophomonas sp. ICB207] Length = 122 Score = 79.7 bits (195), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 40/93 (43%), Positives = 59/93 (63%), Gaps = 3/93 (3%) Query: 145 MELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 M L + +G GY PA R E IG + +DA +SP+++V+Y VE+AR Q D DKL Sbjct: 4 MRLKIERGFGYQPAAARRRPDEETRTIGRLVLDASFSPVRRVAYAVEAARVEQRTDLDKL 63 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 + I+T+G+I E++V A+ IL DQL +F +F Sbjct: 64 VIDIETNGTIDAEEAVRTAADILSDQLSVFGDF 96 >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 = 79.3 bits (194), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 57/211 (27%), Positives = 97/211 (45%), Gaps = 47/211 (22%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P G T+ NALRR L+S L A+T++QI V+H+ +I+G+ E + D++LN+K I Sbjct: 116 PFFIGQGLTIANALRRTLLSELSSLAVTSIQIQDVVHQYQTIQGLQESVFDLLLNMKDIV 175 Query: 94 LKMSGD------SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 LK + +V +GP ++ A D+ I+ ++P+ I L D ++ M+ Sbjct: 176 LKSKTTIPVPQIGYLQV----QGPCIIKAKDLLLPPFIQCVDPEQYIATLSEDGILNMKF 231 Query: 148 TVSKG--------------------HGYVPAK----HHRTENDPIGLIT-------IDAL 176 + +G H Y H + + L+ IDA Sbjct: 232 VIRQGKHSLTHVTPGYDSFTQKYDQHSYNSTCDTNVHSNKNRNSLSLLNTYSKHLIIDAS 291 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++P+ KV+Y +E VLD+D+L D+ Sbjct: 292 FNPVIKVNYIIE------VLDFDQLFFEKDS 316 >gi|183397279|gb|ACC62186.1| RpoA1 [Francisella noatunensis] Length = 154 Score = 79.3 bits (194), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 48/145 (33%), Positives = 81/145 (55%), Gaps = 6/145 (4%) Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 TVS G TE + +G I +DA ++PIK+V++ + + L+ + + T Sbjct: 16 TVSVGRNVGILSALPTELEKVGDIAVDADFNPIKRVAFEIFDNGASETLE-----VFVKT 70 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G+I +V A +Q+ +F++ P D + S +P LLK +++LEL+V Sbjct: 71 NGTIEPLAAVTKALEYFCEQISVFVSLRVPSNGKTGDALLDS-NIDPILLKPIDDLELTV 129 Query: 268 RSTNCLRGENIVYMGDLIQRTEADM 292 RS+NCLR ENI Y+GDL+Q +E+ + Sbjct: 130 RSSNCLRAENIKYLGDLVQYSESQL 154 >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 = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 39/67 (58%), Positives = 51/67 (76%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 L EPL G+ T+GN LRRVL+SSL G AI++V+I+GV HE S+IKGV ED+T+IILN Sbjct: 23 LFKIEPLFPGWGVTIGNTLRRVLLSSLEGYAISSVKIEGVNHEFSTIKGVIEDMTEIILN 82 Query: 89 IKGINLK 95 +K + K Sbjct: 83 LKKVRFK 89 >gi|58758774|gb|AAW81778.1| RNA polymerase alpha subunit [Andreaea rupestris] Length = 195 Score = 79.0 bits (193), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 47/156 (30%), Positives = 80/156 (51%), Gaps = 3/156 (1%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P G A+T+G A+RR L+ + G IT + V HE S+I G+ E + DI++N K I Sbjct: 36 PFRCGQANTVGIAMRRALLGEIEGTCITCAKFKKVTHEYSTILGIQESVHDILINSKEIV 95 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK + ++ I GP +TA DI +++++ I L + +E + K Sbjct: 96 LKSNSYETQKAFISILGPKKITAQDIILPPSVKIIDTTQYIATLTKAIHLDIESEIEKDC 155 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 GY ++ + GL +DA++ PI+ +Y++ S Sbjct: 156 GYRIQDSKKSTD---GLFFVDAVFMPIRNANYSIHS 188 >gi|166714708|gb|ABY88079.1| RpoA [Stenotrophomonas sp. LMG 10878] Length = 116 Score = 78.6 bits (192), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 43/118 (36%), Positives = 69/118 (58%), Gaps = 6/118 (5%) Query: 149 VSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 + +G GY PA R E IG + +DA +SP+++V+Y VE+AR Q D DKL + I Sbjct: 2 IERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLDKLVIDI 61 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 +T+G+I E++V A+ IL DQL +F +F + + N +P LL+ +++L Sbjct: 62 ETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNG---VDPVLLRPIDDL 116 >gi|183397281|gb|ACC62187.1| RpoA1 [Francisella noatunensis] Length = 154 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 50/147 (34%), Positives = 82/147 (55%), Gaps = 10/147 (6%) Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV--ESAREGQVLDYDKLSMTI 205 TVS G E + +G I +DA ++PIK+V++ + SA E L + + Sbjct: 16 TVSVGRNVGILSALPIELEKVGDIAVDADFNPIKRVAFEIFDNSASE-------TLEVFV 68 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G+I +V A +Q+ +F++ + P D + S +P LLK +++LEL Sbjct: 69 KTNGTIEPLAAVTKALEYFCEQISVFVSLKVPSNGKTGDALLDS-NIDPILLKPIDDLEL 127 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADM 292 +VRS+NCLR ENI Y+GDL+Q +E+ + Sbjct: 128 TVRSSNCLRAENIKYLGDLVQYSESQL 154 >gi|169835538|ref|ZP_02868726.1| hypothetical protein cdivTM_00193 [candidate division TM7 single-cell isolate TM7a] Length = 96 Score = 78.2 bits (191), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 36/78 (46%), Positives = 54/78 (69%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL G+ +TLGN+LRRVLMSS+ GAA+ + +I+G HE +++ G+ ED+ DI LN+K + Sbjct: 19 EPLRGGYGNTLGNSLRRVLMSSIHGAAVISFKIEGATHEFTTVPGIKEDVVDISLNLKSV 78 Query: 93 NLKMSGDSHKRVTIFKRG 110 +KM D + + K G Sbjct: 79 KIKMHTDDPIELRLEKHG 96 >gi|166714666|gb|ABY88058.1| RpoA [Stenotrophomonas sp. LMG 10991] Length = 122 Score = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 44/125 (35%), Positives = 70/125 (56%), Gaps = 6/125 (4%) Query: 142 VVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M L + +G GY PA R E IG +DA +SP+++V+Y VE+A Q D Sbjct: 1 AINMRLKIERGFGYQPAAARRRPDEETRAIGRRVLDASFSPVRRVAYAVEAALVEQRTDL 60 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 61 DKLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNG---VDPVLLR 117 Query: 259 KVEEL 263 +++L Sbjct: 118 PIDDL 122 >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 = 77.8 bits (190), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 47/113 (41%), Positives = 74/113 (65%), Gaps = 4/113 (3%) Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKK--EVKEDINVKSLPFNPALLKKVEELE 264 T+G+I ED++ L++RIL + L +F N E K EV ++ + +S + L + +EEL+ Sbjct: 2 TNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSTEVMKEADTES--DDRILDRTIEELD 59 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E+K L +GL L Sbjct: 60 LSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEEVKLKLIDLGLGL 112 >gi|166714660|gb|ABY88055.1| RpoA [Stenotrophomonas sp. LMG 957] Length = 97 Score = 77.4 bits (189), Expect = 3e-12, Method: Composition-based stats. Identities = 40/95 (42%), Positives = 59/95 (62%), Gaps = 3/95 (3%) Query: 143 VRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R E IG + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGFGYQPAAWRRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 KL + I+T+G+I E++V A IL DQL +F +F Sbjct: 62 KLVIDIETNGTIDAEEAVRTADDILSDQLSVFGDF 96 >gi|183397285|gb|ACC62189.1| RpoA1 [Francisella philomiragia] Length = 154 Score = 76.6 bits (187), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 47/145 (32%), Positives = 81/145 (55%), Gaps = 6/145 (4%) Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 TVS G TE + +G I +D+ ++PIK+V++ + + L+ + + T Sbjct: 16 TVSVGRNVGILSALPTELEKVGDIAVDSDFNPIKRVAFEIFDNGTNETLE-----VFVKT 70 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G+I +V A +Q+ +F++ P D + S +P LLK +++LEL+V Sbjct: 71 NGTIEPLVAVTKALEYFCEQISVFVSLRVPSNGKTGDALLDS-NIDPILLKPIDDLELTV 129 Query: 268 RSTNCLRGENIVYMGDLIQRTEADM 292 RS+NCLR ENI Y+GDL+Q +E+ + Sbjct: 130 RSSNCLRAENIKYLGDLVQYSESQL 154 >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 = 76.6 bits (187), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 48/135 (35%), Positives = 71/135 (52%), Gaps = 10/135 (7%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P G T+ ALRR L+S L+G AI+AV+I G H+ SSI GV E DI+LN+K I Sbjct: 27 PFKVGQGTTVATALRRTLLSELQGIAISAVEIKGATHQYSSIAGVRESTLDIVLNLKQIV 86 Query: 94 LKMSGDSHKRVT----IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 L +GD + + +GP A D++ N I ++ D I ++ + + M+ + Sbjct: 87 L--TGDVRNGLPAVGYLAVQGPKAARARDLKLPNGIRCVDGDQYIASVSANGSLTMKFVI 144 Query: 150 SKGHGYV----PAKH 160 S G YV P+ H Sbjct: 145 SAGKNYVSPHSPSAH 159 >gi|166714652|gb|ABY88051.1| RpoA [Stenotrophomonas sp. LMG 11004] Length = 98 Score = 75.9 bits (185), Expect = 8e-12, Method: Composition-based stats. Identities = 39/95 (41%), Positives = 59/95 (62%), Gaps = 3/95 (3%) Query: 143 VRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA E IG + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGFGYQPAAARCRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 KL + I+T+G+I E++V A+ IL DQL +F +F Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDF 96 >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 = 75.9 bits (185), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 55/183 (30%), Positives = 97/183 (53%), Gaps = 33/183 (18%) Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL--- 224 IG IDA++ PI +V+Y +ES + ++ D++ + + T+GSI ++ A++ L Sbjct: 394 IGYFPIDAIFMPINRVNYLIESTEDIKLKIKDRVILEVWTNGSIHPRHAIHKAAKALIQL 453 Query: 225 -----QDQLGMFI-----NFEEPKKEVKEDIN-------VKSLP---FNPALLKK----- 259 Q + +F+ +FEE + ++K+ I+ +K+ P NP L K+ Sbjct: 454 FLPLQQIRTNLFLISDNSHFEEGQDKIKKRIDNFKKEALLKANPQIQANPQLKKRNFDHR 513 Query: 260 -----VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 + LEL+ R +CL+ NI + DLI ++ D+L + NFGR+SL+E++ L M Sbjct: 514 LLELDIANLELTARPYSCLKLANINTIEDLISYSQEDLLSIKNFGRRSLIEVQKALQLMK 573 Query: 315 LFL 317 L L Sbjct: 574 LTL 576 Score = 72.4 bits (176), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 43/125 (34%), Positives = 64/125 (51%), Gaps = 2/125 (1%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P G A T+ NALRR L+S L G +IT V++ G +E I GV E + DI+LN+K I Sbjct: 63 PFAPGQALTVANALRRSLLSQLPGTSITLVEVRGASNEYEIITGVRESILDILLNLKQIV 122 Query: 94 LKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 L + F GPGV+ A D++ + I ++P+ I L + M+ + Sbjct: 123 LTSDFEIFSPQIGFLSVEGPGVIRANDLKLPSFIYAVDPNQYIATLSNSGRLNMKFLICC 182 Query: 152 GHGYV 156 G Y+ Sbjct: 183 GKNYI 187 >gi|119662805|emb|CAJ33194.1| RNA polymerase alpha subunit [Lactobacillus manihotivorans] Length = 89 Score = 75.5 bits (184), Expect = 1e-11, Method: Composition-based stats. Identities = 36/87 (41%), Positives = 55/87 (63%) Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K V I GP VTA DI + +D+EVLNP+ IC + + +TV G GYV A + Sbjct: 3 KTVEIDVAGPATVTAADIVSDSDVEVLNPEQYICTVAEGGRFHVRMTVKTGRGYVAADQN 62 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVE 188 + ++ PIG++ ID++++PI +V+Y VE Sbjct: 63 KVDDMPIGVLPIDSIFTPISRVNYQVE 89 >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 = 75.5 bits (184), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 59/213 (27%), Positives = 103/213 (48%), Gaps = 16/213 (7%) Query: 37 RGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 +G A T NALRR L+S + G +T + ++G HE + + GV E + DIILN+K + Sbjct: 33 QGQALTFANALRRTLLSEIPGIIMTDILVEGASHEFAILPGVEETVLDIILNLKKLVFAP 92 Query: 97 SGDSHKRVTIFKR-------GPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMEL 147 S + F+ GP ++ D++ ++ + P I + + +R L Sbjct: 93 STSKLINLENFQATGFLKSCGPRKLSGADVKLPLTLKCVEPKAHIATITNGAEFALRFNL 152 Query: 148 TVSKGHGYVPAK-HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 + V K ++ EN L+ +D + PI+KV+Y +++ Q L+Y + + + Sbjct: 153 ELRNPQQSVTNKIYYPVENKTRKLV-LDNVPMPIQKVNYVIKALNGKQGLEY--IVLEVW 209 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 TDGS+ ++SV A L++ F F E K Sbjct: 210 TDGSVLPQESVQFA---LKNLTNFFFQFAEMSK 239 >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 = 74.3 bits (181), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 67/223 (30%), Positives = 103/223 (46%), Gaps = 16/223 (7%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV--QIDGVLHEISSIKGVHEDLTDIIL 87 I P G A+TLG A+RR L+ L GA IT + + HE ++I GV E + DI++ Sbjct: 30 FIISPPKIGQANTLGIAMRRALLGELEGACITPAGSPPERINHEYTAIAGVRESVHDILM 89 Query: 88 NIKGINLK---MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 N+K I LK S + I GP VTA DI + ++P I + Sbjct: 90 NLKEIVLKTNPFSAAQEAHIPIV--GPRKVTAQDIVLPPSVGTMDPTQHIATITRKIHSS 147 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES-AREGQVLDYDKLSM 203 + L V +G G+ K + E G + DA++ PI+ +Y++ G + + L + Sbjct: 148 IGLRVERGCGF--RKRNMIEYQ-KGSLPPDAVFMPIRHANYSIHRLGSHGGGIMKEMLLL 204 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 TDGS T +++ ASR L + F P + E I+ Sbjct: 205 EARTDGSPTPREAIYEASRNLANLFSPF-----PHNNIHEHID 242 >gi|289804411|ref|ZP_06535040.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 74 Score = 73.6 bits (179), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 38/77 (49%), Positives = 51/77 (66%), Gaps = 3/77 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGV 78 V+IDGVLHE S+ +GV Sbjct: 58 EVEIDGVLHEYSTKEGV 74 >gi|246880788|gb|ACS95100.1| alpha subunit of RNA polymerase [Dunaliella salina] Length = 547 Score = 73.6 bits (179), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 48/147 (32%), Positives = 75/147 (51%), Gaps = 25/147 (17%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM- 96 G + T+ NALRR L+S G AI +V+ID V HE S++ GV + + DI+LN K I LK Sbjct: 24 GQSITVANALRRSLLSDCTGLAIISVKIDAVQHEYSTLPGVRDSVLDILLNFKEIVLKKV 83 Query: 97 -------SGDSHKRV---------TIFK--------RGPGVVTAGDIQTVNDIEVLNPDH 132 +G +K + T FK +GPG++ A D++ I+ ++P+ Sbjct: 84 KNPFGGPNGYKNKGLSSVYDKVGSTFFKPVVGYLKVKGPGIIRAKDLRLPPFIQCVDPNQ 143 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAK 159 I L D V+ ++ + +G Y K Sbjct: 144 YIATLAEDGVLNVKFVIMEGKSYYVQK 170 >gi|119662857|emb|CAJ33221.1| RNA polymerase alpha subunit [Lactobacillus coryniformis subsp. coryniformis KCTC 3167] Length = 98 Score = 73.2 bits (178), Expect = 5e-11, Method: Compositional matrix adjust. 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|81301|pir||S05342 DNA-directed RNA polymerase (EC 2.7.7.6) alpha chain - green alga KS3/2 chloroplast (fragment) Length = 129 Score = 72.8 bits (177), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 40/99 (40%), Positives = 60/99 (60%), Gaps = 2/99 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P + T+ NALRR L++ L AIT ++I+GV HE S++ GV E + D++LN KGI Sbjct: 31 PFKNSQSLTVANALRRTLLAELSNIAITHLEIEGVTHEYSTLVGVRESVLDLLLNFKGIA 90 Query: 94 LKMSGDSHKRVTIF--KRGPGVVTAGDIQTVNDIEVLNP 130 LK + K + + RGPGVV A D++ I+ ++P Sbjct: 91 LKNTSPVTKPLFGYLQVRGPGVVRASDLKFPPMIQCVDP 129 >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 = 72.4 bits (176), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 77/306 (25%), Positives = 135/306 (44%), Gaps = 24/306 (7%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQI--DGVLHEISS--IKGVHEDLTDIILNI 89 PL RG T+G+ALRR L+ + G +T V+ V H SS I G+ E + DII+N+ Sbjct: 36 PLLRGQGGTIGSALRRTLLRDVEGTNVTHVKFFNKRVKHLFSSSTILGIEESVHDIIMNL 95 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 + I + + I+ GP VTA DI I++++ I ++ + + L + Sbjct: 96 REIVFRCELHGIHKAYIYTVGPKNVTAQDIILPPFIQIVDGTQHIASITKPIHLHVTLKI 155 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR-EGQVLDYDKLSMTIDTD 208 K G H I + Y P++ V+Y V + E + YD L + T+ Sbjct: 156 EKNWGETTESIHPITKYFTRYIPTEIFYMPVRSVTYNVYFYKDEYDIHIYDILIFELWTN 215 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKE---VKEDINVKSLPFNPALLKK------ 259 G +T ++++ A L D + ++ E VKE I LP + + Sbjct: 216 GELTPKEALYEACWRLIDLIIPLLDVPLLHVEGSGVKESI---PLPIVSNMNRTQEDLFV 272 Query: 260 ----VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 +++L L + + LR +I + D + ++ D L+ + +K +E L + Sbjct: 273 QHLFIDQLGLPSKISKSLRESHIYRVSDFMNYSQQD-LKNLEYSKKESIE--QTLEILHK 329 Query: 316 FLGMNL 321 + G+NL Sbjct: 330 YFGINL 335 >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 = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 43/90 (47%), Positives = 61/90 (67%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E ++ + EPL RG+ TLGN+LRR L+SSL GAA+T+++IDGVLHE +I GV ED+ Sbjct: 14 ENKDYGRFVIEPLERGYGTTLGNSLRRXLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDV 73 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPG 112 IILN+KG+ +K + K + + GP Sbjct: 74 MQIILNVKGLAVKSYVEDEKIIELDVEGPA 103 >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 = 72.0 bits (175), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 58/218 (26%), Positives = 105/218 (48%), Gaps = 5/218 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQID-GVLHEISSIKGVHEDLTDIILNIKGI 92 PL +G A+TL A+R+ L+ ++G IT + +LHE SSI G+ E + DI++N+K I Sbjct: 36 PLFKGQANTLAIAIRKTLLQEVKGTYITYARFQKNILHEYSSIIGIKESVHDILMNLKQI 95 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 L+ +I GP VTA DI + I++++ I +L + L + K Sbjct: 96 VLRSELYGIHEASICTVGPKNVTAQDIILPSSIQIIDDTQHIASLTKRIPFNVTLKIEKK 155 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 Y + ++ ID + P++ V++++ S + + + L I T+G +T Sbjct: 156 KRYTIENMKQPKD---IFFPIDGVSLPVQNVNFSIHSYKSSDNIQ-EMLIFEIWTNGGLT 211 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 +++ A L D + + E+ K ++ N SL Sbjct: 212 PRETIYEACWSLLDLIIPLLCVEQNIKNSQKKPNPLSL 249 >gi|207109275|ref|ZP_03243437.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori HPKX_438_CA4C1] Length = 176 Score = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 51/165 (30%), Positives = 84/165 (50%), Gaps = 3/165 (1%) Query: 157 PAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 P+++ R E P G + +D ++PIKKV Y +E+ +Y+K+ I+TDG I + Sbjct: 1 PSENTR-ELMPEGYMPLDGSFTPIKKVVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKA 59 Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGE 276 A +++ QLG+F E P ++ + L K+E + LS R NCL Sbjct: 60 FLSAVKVMSKQLGVF--GERPIANMEYSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKI 117 Query: 277 NIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 I Y+G+L+ +E ++ + N G+KS EI L +G +G L Sbjct: 118 GIKYVGELVLMSEEELKGVKNMGKKSYDEIAEKLNDLGYPVGTEL 162 >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 = 71.2 bits (173), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 38/124 (30%), Positives = 66/124 (53%), Gaps = 2/124 (1%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P G T+ N LRR L+S L G AITAV+I HE ++ G+ E + DIILN+K + Sbjct: 33 PFAHGQGITVANMLRRTLLSELSGLAITAVEIKEASHEYMTLPGISESVQDIILNLKQLI 92 Query: 94 LKMSGDSHKRVTIFK--RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + + D + F +GP ++ A + + I+ ++P+ I L + + +++ + + Sbjct: 93 FRSNFDLKQPEFGFLSIQGPAIIKASHFRLPSFIKCVDPNQYIATLAFNGQLNLKVQICQ 152 Query: 152 GHGY 155 G Y Sbjct: 153 GKNY 156 >gi|222446775|gb|ACM51431.1| RNA polymerase alpha subunit [Caulerpa filiformis] Length = 301 Score = 70.5 bits (171), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 51/194 (26%), Positives = 90/194 (46%), Gaps = 20/194 (10%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 T N+LRR L+ +QI GV HE SS+ GV E + DII N++ + ++S H Sbjct: 32 TFANSLRRTLLEDNSRYIFDTIQISGVEHEYSSLIGVRESVIDIIFNLQKLIFEVSDKVH 91 Query: 102 --------KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS--- 150 + + GPG++ A I D + PD I L+VD + +L S Sbjct: 92 LVGKDPKPQIAFLNFTGPGILRAQHIHLPKDFHFVYPDQYIATLEVDGKLNFKLFFSPKI 151 Query: 151 --KGHGYVPAKHHRTENDPIGL-----ITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 K + + +K P + + +D+ + I++V+YT++S + ++ + Sbjct: 152 FQKKYKSLHSKSGSGRQMPPSVLLENYLFLDSDFCSIERVNYTIQSGNQNPKEEF--ILF 209 Query: 204 TIDTDGSITGEDSV 217 I T+GSI + ++ Sbjct: 210 EIWTNGSIHPQKAI 223 >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 = 69.7 bits (169), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 61/242 (25%), Positives = 103/242 (42%), Gaps = 47/242 (19%) Query: 37 RGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 RG A T GN++RR L+S + G +T V+I G HE + + V E + +I+LN+K Sbjct: 33 RGQALTFGNSIRRALLSEMPGFLMTDVRIQGATHEFAVLPDVEETVLEILLNLKKTVFVP 92 Query: 97 SGDSHKRVTIFK-------RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 +++ F+ GPG V A DI+ ++ ++P+ I L A + + + Sbjct: 93 RIPKNQKFETFQGFGFLKNNGPGKVRAADIRLPETVQCVSPEVHIATLTSGAELSLRFNL 152 Query: 150 S--------KGHGYVPAK---HHRTENDPIGLIT-------------------------- 172 K G +K +TE+ + T Sbjct: 153 QFRNFSQLEKREGTFKSKTVAQAKTEDGNVQDTTNELPTLEKNSLFFQQLQNKRNSKDQL 212 Query: 173 -IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +D + P++KV+Y ++S +Y + + I TDGS+ ++SV A R L D F Sbjct: 213 FLDTVPMPVQKVNYVIKSLNAKNGSEY--IILEIWTDGSLYPQESVEFALRNLTDLFFQF 270 Query: 232 IN 233 N Sbjct: 271 AN 272 >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 = 69.3 bits (168), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 54/179 (30%), Positives = 90/179 (50%), Gaps = 13/179 (7%) 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-IFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV-PA 158 +T F+ +GP +V AG +Q +IE++N + IC + + + M++ + YV P Sbjct: 315 NYITGKFRIKGPMIVVAGHMQLPKNIEIINKNQYICYVAAGSYLEMDVKIESIEEYVMPE 374 Query: 159 KHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDY--DKLSMTIDTDGSIT 212 ++ N I I + +P++ +T R G LD + + + TDGSIT Sbjct: 375 YGSQSRNRDICKDNFIHFCSSCTPVEHFGFT--GQRRGINLDVLGEINIVEMHTDGSIT 431 >gi|213420797|ref|ZP_03353863.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] Length = 56 Score = 68.9 bits (167), Expect = 9e-10, Method: Compositional matrix adjust. 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|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 = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 50/181 (27%), Positives = 89/181 (49%), Gaps = 17/181 (9%) 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 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV-PA 158 ++ +GP +V AG +Q ++E++N + IC++ + + M++ + YV P Sbjct: 327 NYMIGKFRIKGPMIVVAGHMQLPKNVEIVNRNQYICSVAAGSYLSMDVKIESIEEYVMPE 386 Query: 159 KHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYDKLS----MTIDTDGSI 211 ++ N I I + +P++ +T R G ++ D L + + TDGSI Sbjct: 387 YGSQSRNRDICKDNFIHFSSSCTPVEHFVFT--GQRRG--INLDTLGEINIVEMHTDGSI 442 Query: 212 T 212 T Sbjct: 443 T 443 >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 = 68.9 bits (167), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 51/181 (28%), Positives = 87/181 (48%), Gaps = 17/181 (9%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLK-----MSGD 99 NA RRV M L+G +TA++I + HE I GV E+ D+ N++ I K + D Sbjct: 322 NAFRRVAMKHLKGGRVTALRIPNMKHEFYCIVGVRENFFDLAQNLRQITFKNVPENIDMD 381 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV-PA 158 ++ +GP +V AG +Q IE++N + IC++ + + M++ + YV P Sbjct: 382 NYITGKFRIKGPMIVVAGHMQLPKGIEIVNKNQYICSVSAGSYLEMDVKIESIEEYVMPE 441 Query: 159 KHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYDKLS----MTIDTDGSI 211 ++ N I I + +P++ + R G ++ D L + + TDGSI Sbjct: 442 YGSQSRNRDICKDNFIHFSSSCTPVEYFGFM--GQRRG--INLDTLGEINIVEMHTDGSI 497 Query: 212 T 212 T Sbjct: 498 T 498 >gi|213585431|ref|ZP_03367257.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] Length = 54 Score = 68.6 bits (166), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 30/52 (57%), Positives = 39/52 (75%) Query: 280 YMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 2 YIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 53 >gi|218755234|ref|ZP_03534030.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis GM 1503] Length = 153 Score = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 43/134 (32%), Positives = 75/134 (55%), Gaps = 16/134 (11%) Query: 204 TIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNPA 255 +++T SI+ D++A A + L + G+ +N E P + I +LP Sbjct: 1 SVETKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALP---- 56 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL Sbjct: 57 ----IDDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGL 112 Query: 316 FLGMNLPDWPPESI 329 L + P + P + Sbjct: 113 SLKDSPPSFDPSEV 126 >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 = 67.8 bits (164), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 54/179 (30%), Positives = 90/179 (50%), Gaps = 13/179 (7%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLK-MSGDSHKR 103 NA RRV + L+G +TA++I G+ HE I GV E+ D+ N++ I K + D+ Sbjct: 304 NAFRRVAIKHLKGGRVTALRIPGMKHEYYCIVGVRENFFDLSQNLRQITFKNVPEDADMN 363 Query: 104 VTI---FK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV-PA 158 I F+ +GP +V AG +Q +IE++N + IC + + + M++ + YV P Sbjct: 364 NYIIGKFRIKGPMIVVAGHMQLPKNIEIINKNQYICYVAAGSYLEMDVKIESIEEYVMPE 423 Query: 159 KHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDY--DKLSMTIDTDGSIT 212 ++ N I I + +P++ +T R G LD + + + TDGSIT Sbjct: 424 YGSQSRNRDICKDNFIHFCSSCTPVEYFGFT--GQRRGINLDILGEINIVEMHTDGSIT 480 >gi|166714710|gb|ABY88080.1| RpoA [Stenotrophomonas sp. LMG 10851] gi|166714712|gb|ABY88081.1| RpoA [Stenotrophomonas sp. LMG 10877] Length = 93 Score = 67.4 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 36/96 (37%), Positives = 60/96 (62%), Gaps = 3/96 (3%) Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 IG + +DA +SP+++V+Y VE+AR Q D DKL + I+T+G+I E++V A+ IL DQ Sbjct: 1 IGRLVLDASFSPVRRVAYAVEAARVEQRTDLDKLVIDIETNGTIDAEEAVRTAADILSDQ 60 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 L +F +F + + N +P LL+ +++L Sbjct: 61 LSVFGDFTHRDRGAAKPANNG---VDPVLLRPIDDL 93 >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 = 67.0 bits (162), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 43/135 (31%), Positives = 75/135 (55%), Gaps = 16/135 (11%) Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNP 254 + ++T SI+ D++A A + L + G+ +N E P + I +LP Sbjct: 20 LDVETKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALP--- 76 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +G Sbjct: 77 -----IDDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLG 131 Query: 315 LFLGMNLPDWPPESI 329 L L + P + P + Sbjct: 132 LSLKDSPPSFDPSEV 146 >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 = 67.0 bits (162), Expect = 4e-09, Method: Compositional matrix adjust. 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|156102625|ref|XP_001617005.1| hypothetical protein [Plasmodium vivax SaI-1] gi|148805879|gb|EDL47278.1| hypothetical protein, conserved [Plasmodium vivax] Length = 668 Score = 66.6 bits (161), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 52/181 (28%), Positives = 88/181 (48%), Gaps = 17/181 (9%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLK---MSGDSH 101 NA RRV + L+G +TA++I + HE I GV E+ D+ N++ I K D Sbjct: 316 NAFRRVAIKHLKGGRVTALRIPNMKHEFYCIVGVRENFFDLAQNLRHITFKNVPEEADID 375 Query: 102 KRVT-IFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV-PA 158 +T F+ +GP +V AG +Q IE++N + IC++ + + M++ + YV P Sbjct: 376 NYITGKFRIKGPMIVVAGHMQLPKGIEIVNKNQYICSVSAGSYLEMDVKIESIEEYVMPE 435 Query: 159 KHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYDKLS----MTIDTDGSI 211 ++ N I I + +P++ + R G ++ D L + + TDGSI Sbjct: 436 YGSQSRNRDICKDNFIHFSSSCTPVEYFGFM--GQRRG--INLDTLGEINIVEMHTDGSI 491 Query: 212 T 212 T Sbjct: 492 T 492 >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 = 66.6 bits (161), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 43/133 (32%), Positives = 74/133 (55%), Gaps = 16/133 (12%) Query: 205 IDTDGSITGEDSVALASRILQDQLGMF--INFEE------PKKEVKEDINVKSLPFNPAL 256 ++T SI+ D++A A + L + G+ +N E P + I +LP Sbjct: 1 METKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALP----- 55 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL Sbjct: 56 ---IDDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGLS 112 Query: 317 LGMNLPDWPPESI 329 L + P + P + Sbjct: 113 LKDSPPSFDPSEV 125 >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 = 66.6 bits (161), Expect = 5e-09, Method: Compositional matrix adjust. Identities = 53/179 (29%), Positives = 90/179 (50%), Gaps = 14/179 (7%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLK---MSGDSH 101 NA RRV + L+G +TA++I G+ HE I GV E+ D+ N++ I K + D + Sbjct: 222 NAFRRVAIKHLKGGRVTALRIPGMKHEYYCIVGVRENFFDLSQNLRQITFKNVPENADMN 281 Query: 102 KRVT-IFK-RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV-PA 158 + F+ +GP +V AG +Q +IE++N + IC + + + M++ + YV P Sbjct: 282 NYIIGKFRIKGPMIVVAGHMQLPKNIEIINKNQYICYVAAGSYLEMDVKIESIEEYVMPE 341 Query: 159 KHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDY--DKLSMTIDTDGSIT 212 ++ N I I + +P++ +T R G LD + + + TDGSIT Sbjct: 342 YGSQSRNRDICKDNFIFCSSC-TPVEYFGFT--GQRRGINLDILGEINIVEMHTDGSIT 397 >gi|143452|gb|AAA22708.1| RNA polymerase alpha subunit [Bacillus subtilis] Length = 65 Score = 66.2 bits (160), Expect = 7e-09, Method: Compositional matrix adjust. Identities = 28/43 (65%), Positives = 36/43 (83%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEF 65 >gi|225466312|ref|XP_002271159.1| PREDICTED: similar to Os04g0237300, partial [Vitis vinifera] Length = 274 Score = 65.5 bits (158), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 39/130 (30%), Positives = 71/130 (54%), Gaps = 4/130 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTL----MIAEPLPRGFAHTLGNALRRVLMSSLRG 57 I+++ + + +++ + +N+ L I PL +G A T+G A+RR L+ + G Sbjct: 145 IRRSEKVTVSTRTLQWKCVESRVDNKRLCYGRFILSPLIKGQADTIGIAMRRALLGEIEG 204 Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 IT + + + HE S+I G+ E + +I++N+K I L+ + + I RGPG VTA Sbjct: 205 TCITRAKSEKIPHEYSTIVGIQESVHEILMNLKEIVLRSNLYGTRGAFICARGPGYVTAQ 264 Query: 118 DIQTVNDIEV 127 DI + +E+ Sbjct: 265 DIISPPSVEI 274 >gi|58618634|gb|AAW80815.1| RNA polymerase alpha subunit [Polytrichadelphus purpureus] Length = 165 Score = 65.1 bits (157), Expect = 2e-08, Method: Compositional matrix adjust. Identities = 47/162 (29%), Positives = 83/162 (51%), Gaps = 20/162 (12%) Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 + PI+ +Y+V S + + L + I T+GSIT ++++ ASR L D F++ E+ Sbjct: 1 FMPIRNANYSVHSFENNNKIQ-EILFIEIWTNGSITPKEALYEASRSLXDLFIPFLHTEK 59 Query: 237 P------KKEVKEDINVKSLPFNPALLKK----------VEELELSVRSTNCLRGENIVY 280 K E K + F+P K +++LELS R+ NCL+ N+ Sbjct: 60 KETIDGLKTEYKSNDMSDFSSFSPLANKSTKEITFKHIFIDQLELSARAYNCLKRVNVHT 119 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 + DL+ ++ D++++ NFG+KS ++ VL + +NLP Sbjct: 120 ISDLLNYSQDDLMKIKNFGKKS---VEQVLEALXKXFSINLP 158 >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 = 62.8 bits (151), Expect = 6e-08, Method: Compositional matrix adjust. Identities = 33/108 (30%), Positives = 59/108 (54%), Gaps = 11/108 (10%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P + T+ N +RR L+S L AIT+++I+G+LH+ SS+ G+ E + D+I N++ I Sbjct: 29 PFDDSLSQTIANDIRRTLLSELTSLAITSIEIEGILHKYSSLPGMKETVLDLICNLQSIV 88 Query: 94 LKMSGDSHKRVTIFK-----------RGPGVVTAGDIQTVNDIEVLNP 130 LK S +T+ GP V+ A D++ + ++ ++P Sbjct: 89 LKKQEISFTNITLRSTKKTYRGFLNVSGPRVIKAMDLKLPSGLQCVDP 136 >gi|166714662|gb|ABY88056.1| RpoA [Stenotrophomonas sp. LMG 978] Length = 81 Score = 62.0 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 31/78 (39%), Positives = 48/78 (61%), Gaps = 3/78 (3%) Query: 143 VRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R E IG + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSV 217 KL + I+ +G+I E++V Sbjct: 62 KLVIDIENNGTIDAEEAV 79 >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 = 60.5 bits (145), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 31/66 (46%), Positives = 44/66 (66%) Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 L + V + ELSVRS NCL +I +GDL + +E+D+L+ NFG SLVEI+ ++ GL Sbjct: 289 LSRPVTDFELSVRSRNCLASMDIHTLGDLTRVSESDLLQGKNFGETSLVEIRDLMQQHGL 348 Query: 316 FLGMNL 321 +G NL Sbjct: 349 KVGQNL 354 Score = 42.0 bits (97), Expect = 0.12, Method: Compositional matrix adjust. Identities = 24/61 (39%), Positives = 36/61 (59%), Gaps = 1/61 (1%) Query: 251 PFNPALLKK-VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 P ALL + V +L LSVR+ C+ I +G+L+Q++ ++L NFG SL EI+ Sbjct: 381 PQEQALLSRPVSDLNLSVRARKCMARLQIGTLGELVQKSADELLATKNFGVTSLNEIRAQ 440 Query: 310 L 310 L Sbjct: 441 L 441 >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 = 60.5 bits (145), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 55/196 (28%), Positives = 90/196 (45%), Gaps = 26/196 (13%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI---NLKMSGD 99 L N+LRRV L ITA++I G+ +E SI G+ ED D+ N+ + N+ M+ Sbjct: 237 LLNSLRRVAKRHLGAGRITALRIPGMKNEFYSIVGLREDFFDLSRNLTKVIFRNVPMTAT 296 Query: 100 SHKRV--TIFKRGPGVVTAGDI---QTVND--------------IEVLNPDHVICNLDVD 140 H+ + + +GP + AG I QT IE++N + IC L D Sbjct: 297 FHRPLIGRLRLKGPIIAVAGHIELDQTFQKEGVGSSSGSKDDRRIEIVNKNQYICALSRD 356 Query: 141 AVVRMELTVSKGHGYV-PAKHHRTEN---DPIGLITIDALYSPIKKVSYTVESAREGQVL 196 A + ME+ + YV P K + N P G I + +PI+ ++ + + Sbjct: 357 AYLDMEVKIEYIANYVMPEKGPESLNRDITPDGFIHFSSSCTPIEVFAFDGDRRGIDEES 416 Query: 197 DYDKLSMTIDTDGSIT 212 + +++ + TDGS T Sbjct: 417 TSEIVTLELHTDGSTT 432 >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 = 59.7 bits (143), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 35/123 (28%), Positives = 66/123 (53%), Gaps = 2/123 (1%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P P T+G+ L+ + S G A+ AV+I +++ +++ GV +DL +I LN K + Sbjct: 269 PYPVTMGWTIGSLLKVMTQSRCPGHAVVAVKIHN-MNKDTTVDGVADDLLNIALNFKMVA 327 Query: 94 LK-MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 L+ + RV +GP +V AG ++ +++ NP+ I L+ A + +E+ + G Sbjct: 328 LQTLEPGKEARVRTKIKGPAMVCAGALEWPPFVKICNPESYITKLEEGAELDLEIKIEWG 387 Query: 153 HGY 155 G+ Sbjct: 388 RGF 390 >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 = 59.3 bits (142), Expect = 7e-07, Method: Compositional matrix adjust. Identities = 30/64 (46%), Positives = 42/64 (65%) Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + V + ELSVRS NCL +I +GDL + +E D+L NFG+ SL EI+ +L + GL + Sbjct: 265 RPVTDFELSVRSRNCLHAMDIHTLGDLTRVSENDLLAGKNFGQTSLDEIREMLSSFGLHI 324 Query: 318 GMNL 321 G NL Sbjct: 325 GQNL 328 Score = 45.4 bits (106), Expect = 0.013, Method: Compositional matrix adjust. Identities = 28/68 (41%), Positives = 39/68 (57%) Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L NPA K + +L LSVRS C+ I +G+L++R+ ++L NFG SL EI+ Sbjct: 345 LADNPATEKPISDLGLSVRSRKCMSRLGIGTIGELLRRSPDELLASRNFGVTSLNEIREK 404 Query: 310 LGTMGLFL 317 L M L L Sbjct: 405 LTEMNLKL 412 >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 = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 35/122 (28%), Positives = 64/122 (52%), Gaps = 2/122 (1%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 P P TLG+ L+ + +S G + AV++ ++E ++I GV +DL +I LN+ + Sbjct: 264 PYPITMGWTLGSLLKVLALSRSPGHGVVAVKVHN-MNEDTTIDGVTDDLMNIALNLNEVA 322 Query: 94 LK-MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 L+ + RV +GP V AG I+ + +++ PD I N++ + +E+ + G Sbjct: 323 LETLEPGGEARVRTVIKGPAQVCAGSIEWPSFVKIATPDAYITNVEEGGTLDIEIKIEWG 382 Query: 153 HG 154 G Sbjct: 383 RG 384 >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 = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 32/87 (36%), Positives = 52/87 (59%), Gaps = 1/87 (1%) Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GYVP++ ++ G I +D++++PIK V Y +++ + +Y+ L + I TDGSI Sbjct: 2 GYVPSEENKENLIGSGSIPMDSIFTPIKNVKYKIDNCSINKNSNYESLLLEIKTDGSINP 61 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE 240 D++ AS IL L MFI +E KK+ Sbjct: 62 RDALTNASNILIQHLKMFI-YETRKKK 87 >gi|300431274|gb|ADK12602.1| RNA polymerase alpha subunit [Pappostipa vaginata] Length = 167 Score = 58.5 bits (140), Expect = 1e-06, Method: Compositional matrix adjust. Identities = 41/141 (29%), Positives = 73/141 (51%), Gaps = 17/141 (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 FEEPKKEVKEDINVKSLPFN----------------PALLKKVEELELSVRSTNCLRGEN 277 EE +E+ N + P P +++LEL R+ NCL+ N Sbjct: 60 AEEEGTSFEENKNRFTPPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRAN 119 Query: 278 IVYMGDLIQRTEADMLRMANF 298 I + DL+ +TE D++R+ +F Sbjct: 120 IHTLLDLLSKTEEDLMRIDSF 140 >gi|237749604|ref|ZP_04580084.1| RpoA [Helicobacter bilis ATCC 43879] gi|229374800|gb|EEO25191.1| RpoA [Helicobacter bilis ATCC 43879] Length = 88 Score = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 29/58 (50%), Positives = 40/58 (68%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K L +GL L Sbjct: 27 IEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLEELGLGL 84 >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 = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 36/125 (28%), Positives = 70/125 (56%), Gaps = 6/125 (4%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL HT G+ ++ V + + G AI +++ ++E + I V EDL +I LNI + Sbjct: 486 PLNITDGHTFGSLIKYVCQTQIYGYAIVGIKVHN-MNEDTKINNVQEDLLEIALNISDVC 544 Query: 94 L---KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + +++ +S+ R+ IFK GP ++ AG I + ++++N +H IC + D + + + + Sbjct: 545 IYSKEINLESNIRL-IFK-GPLMLVAGMIPLPSHLKIINKEHYICTIKEDGFIDISIKIE 602 Query: 151 KGHGY 155 G G+ Sbjct: 603 YGKGH 607 >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 = 58.2 bits (139), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 46/118 (38%), Positives = 62/118 (52%), Gaps = 13/118 (11%) Query: 220 ASRILQDQLG---MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGE 276 AS L+D MF + EE +K+ V S+P V + ELSVRS NCL+ Sbjct: 273 ASMFLKDAQASSDMFYD-EEAQKKRDRIAQVLSIP--------VTDFELSVRSRNCLQKM 323 Query: 277 NIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD-WPPESIEELA 333 I +GDL + +E ++L NFG SLVEI+ +L + GL LG D PE E+A Sbjct: 324 GIQTLGDLSRCSEQELLSSKNFGETSLVEIREMLNSKGLELGQFSSDKGQPEPTIEVA 381 Score = 42.4 bits (98), Expect = 0.12, Method: Compositional matrix adjust. Identities = 31/86 (36%), Positives = 45/86 (52%), Gaps = 2/86 (2%) Query: 234 FEEPKKEVKEDINVKSL-PFNPALLKK-VEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 F K + + I V L P ALL + + EL LSVR+ C+ I +G+L++RT + Sbjct: 367 FSSDKGQPEPTIEVAGLSPDEQALLDRPISELNLSVRARKCMVRLGISTIGELVRRTGDE 426 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFL 317 +L NFG SL E++ L L L Sbjct: 427 LLECKNFGVTSLNEVREKLTASNLKL 452 >gi|224983719|pdb|3GFK|B Chain B, Crystal Structure Of Bacillus Subtilis SpxRNA POLYMERASE Alpha Subunit C-Terminal Domain Complex Length = 79 Score = 57.8 bits (138), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 29/58 (50%), Positives = 40/58 (68%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K L +GL L Sbjct: 18 IEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLEELGLGL 75 >gi|168704678|ref|ZP_02736955.1| probable DNA-directed RNA polymerase alpha chain [Gemmata obscuriglobus UQM 2246] Length = 458 Score = 57.4 bits (137), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 29/62 (46%), Positives = 40/62 (64%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 + + ELSVRS NCL+ NI +GDL + TE +L NFG SL EI+ ++ T GL +G Sbjct: 309 ITDFELSVRSRNCLKRMNIRTLGDLTRVTEPQLLASKNFGETSLDEIRAIMVTKGLRIGQ 368 Query: 320 NL 321 +L Sbjct: 369 SL 370 Score = 48.9 bits (115), Expect = 0.001, Method: Compositional matrix adjust. Identities = 26/62 (41%), Positives = 37/62 (59%) Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 L K V +L LSVR+ C+ NI +G+L+QRT ++L NFG+ SL E++ L L Sbjct: 394 LGKPVSDLNLSVRARKCMNRLNIGTLGELVQRTADELLEAKNFGQTSLTEVRERLQQFNL 453 Query: 316 FL 317 L Sbjct: 454 KL 455 >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 = 57.0 bits (136), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 29/58 (50%), Positives = 40/58 (68%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K L +GL L Sbjct: 11 IEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLEELGLGL 68 >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 = 57.0 bits (136), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 29/58 (50%), Positives = 40/58 (68%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K L +GL L Sbjct: 13 IEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKLEELGLGL 70 >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 = 57.0 bits (136), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 29/58 (50%), Positives = 40/58 (68%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K L +GL L Sbjct: 17 IEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKHKLEELGLGL 74 >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 = 57.0 bits (136), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 36/123 (29%), Positives = 63/123 (51%), Gaps = 14/123 (11%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI-------KGI 92 HT G L+ V + + G AI A+++ ++E + I V EDL +I LN+ K I Sbjct: 427 GHTFGTLLKYVCQTQVYGYAIVAIKVHN-MNEDTRIDNVQEDLLEIALNLSDVCIYSKEI 485 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 N++ + V + +GP +V AG I + ++V+N + IC L D + + + + G Sbjct: 486 NIETN------VRLIFKGPLMVVAGMIPLPSHLQVVNKEQYICTLKEDGYLDISIKIEYG 539 Query: 153 HGY 155 G+ Sbjct: 540 KGH 542 >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 = 56.6 bits (135), Expect = 5e-06, Method: Compositional matrix adjust. Identities = 54/223 (24%), Positives = 95/223 (42%), Gaps = 54/223 (24%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI---NLKMSGD 99 L N+LRRV L ITA++I G+ +E S+ G+ ED +++ N++G+ N+ + Sbjct: 181 LLNSLRRVAKRHLGSGRITALRIPGMENEFYSVVGLREDFFELVRNLRGVIFKNVPKTAT 240 Query: 100 SHKRV--TIFKRGPGVVTAGDIQ---------------------------------TVND 124 H+ V T+ +GP + AG ++ +ND Sbjct: 241 FHRPVIATLRLKGPIIAVAGHLKFDNKRSTKTASDIDNKTENKNDNTDTKADNEEGVIND 300 Query: 125 ----------IEVLNPDHVICNLDVDAVVRMELTVSKGHGYV-----PAKHHRTENDPIG 169 IEV+N +H IC+L + M++ + YV P +R + P G Sbjct: 301 YVYDKKYTGEIEVINKNHYICSLSQGCYLTMDVKIEYISNYVIPEFGPESLNR-DITPDG 359 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 I + +P++ +T E + + +S+ + TDGS T Sbjct: 360 FIHFCSSCNPVEIFGFTGERRGLDEQSTSEIVSLELHTDGSAT 402 >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 = 56.6 bits (135), Expect = 5e-06, Method: Compositional matrix adjust. 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: 25 IEELDLSVRSYNCLKRAGINTVQELADKSEDDMMKVRNLGRKSLEEVKVKLADLGLSL 82 >gi|207092544|ref|ZP_03240331.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori HPKX_438_AG0C1] Length = 126 Score = 56.2 bits (134), Expect = 8e-06, Method: Compositional matrix adjust. Identities = 28/73 (38%), Positives = 45/73 (61%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPIGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL 94 ++ I+N+K I Sbjct: 78 VSLFIMNLKNIRF 90 >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 = 55.8 bits (133), Expect = 9e-06, Method: Compositional matrix adjust. Identities = 29/65 (44%), Positives = 41/65 (63%), Gaps = 3/65 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQINTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQID 66 V+I+ Sbjct: 58 EVEIE 62 >gi|291533600|emb|CBL06713.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Megamonas hypermegale ART12/1] Length = 85 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 25/48 (52%), Positives = 37/48 (77%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 +E+L+LSVRS NCL+ I + DL+Q++E DM+++ N GRKSL E+K Sbjct: 31 IEDLDLSVRSYNCLKRAEINTVADLMQKSEDDMIKVRNLGRKSLEEVK 78 >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 = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 29/60 (48%), Positives = 37/60 (61%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 V + ELSVRS NCL+ I +GDL + TE+ +L NFG SL EIK ++ L LGM Sbjct: 296 VTDFELSVRSRNCLKKMGIRTLGDLTRITESQLLSSKNFGETSLTEIKAMMEAKSLRLGM 355 Score = 43.1 bits (100), Expect = 0.064, Method: Compositional matrix adjust. Identities = 23/58 (39%), Positives = 33/58 (56%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + EL LSVR+ C+ I +G+LI T+ +L NFG SL E++ L +GL L Sbjct: 388 ITELNLSVRARKCMNKLGITTVGELIAHTQDQLLECKNFGVTSLNEVRDKLSELGLKL 445 >gi|207108315|ref|ZP_03242477.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori HPKX_438_CA4C1] Length = 130 Score = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 28/73 (38%), Positives = 45/73 (61%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++GV ED Sbjct: 18 EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPIGLKIEGVHHEFDSLRGVTED 77 Query: 82 LTDIILNIKGINL 94 ++ I+N+K I Sbjct: 78 VSLFIMNLKNIRF 90 >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 = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 29/59 (49%), Positives = 37/59 (62%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 V ELSVRS NCL+ I +GDL + +E ++L NFG SLVEI+ +L GL LG Sbjct: 352 VANFELSVRSRNCLQKMGIETIGDLTRHSEQELLSSKNFGETSLVEIREMLSQKGLSLG 410 Score = 48.5 bits (114), Expect = 0.001, Method: Compositional matrix adjust. Identities = 28/66 (42%), Positives = 41/66 (62%), Gaps = 1/66 (1%) Query: 251 PFNPALLKK-VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 P ALL++ + +L LSVR+ C+ I +G+LI++T DML NFG SL E++ Sbjct: 430 PDEQALLERPIADLNLSVRARKCMTRLQINSIGELIRKTGDDMLECKNFGVTSLNEVREK 489 Query: 310 LGTMGL 315 LG +GL Sbjct: 490 LGDLGL 495 >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 = 55.5 bits (132), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 37/119 (31%), Positives = 67/119 (56%), Gaps = 6/119 (5%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINL---KM 96 HT G L+ V + L G AI A++I ++E + I V EDL +I LN+ + + ++ Sbjct: 450 GHTFGTLLKYVCQTQLYGYAIVAIKIHN-MNEDTRIDNVQEDLLEIALNLSDVCIYSKEV 508 Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY 155 + +++ R+ IFK GP ++ AG I + ++V+N + IC L D + + + + G G+ Sbjct: 509 NIETNIRL-IFK-GPLMLVAGMIPLPSHLQVVNKEQYICTLKEDGHLDISIKIEYGKGH 565 >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 = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 28/59 (47%), Positives = 39/59 (66%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 V + ELSVRS NCL+ + +GDL + +E ++L NFG SLVEI+ +L + GL LG Sbjct: 292 VTDFELSVRSRNCLQKMGVRTLGDLTRTSEQELLASKNFGETSLVEIRDMLHSKGLELG 350 Score = 47.0 bits (110), Expect = 0.004, Method: Compositional matrix adjust. Identities = 33/94 (35%), Positives = 55/94 (58%), Gaps = 7/94 (7%) Query: 227 QLGMFINFEEPKKEVKEDI-NVKSL-PFNPALLKK-VEELELSVRSTNCLRGENIVYMGD 283 +LG F +K V E + ++ S+ P ALL++ + EL LSVR+ C+ + +G+ Sbjct: 348 ELGQFA----AEKAVAEPVLDLASMSPDEQALLERPISELNLSVRARKCMARLGLTLIGE 403 Query: 284 LIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+++T D+L NFG SL E++ L T+G+ L Sbjct: 404 LVRKTGDDLLECKNFGVTSLNEVREKLTTLGIKL 437 >gi|20451756|emb|CAD30546.1| DNA-directed RNA polymerase alpha subunit [Listonella anguillarum] Length = 61 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. Identities = 29/64 (45%), Positives = 39/64 (60%), Gaps = 3/64 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISTTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQI 65 V I Sbjct: 58 EVVI 61 >gi|255018323|ref|ZP_05290449.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes FSL F2-515] Length = 62 Score = 54.7 bits (130), Expect = 2e-05, Method: Compositional matrix adjust. 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|91203075|emb|CAJ72714.1| hypothetical protein kustd1969 [Candidatus Kuenenia stuttgartiensis] Length = 380 Score = 54.3 bits (129), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 29/61 (47%), Positives = 37/61 (60%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 + + ELSVRS NCL NI + DL + +E D+L NFG SL EIK +L GL LG Sbjct: 298 ISDFELSVRSRNCLEKMNIHTLRDLTRISEPDLLTFKNFGETSLNEIKAILIQKGLQLGQ 357 Query: 320 N 320 + Sbjct: 358 S 358 >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 = 53.9 bits (128), Expect = 3e-05, Method: Composition-based stats. Identities = 28/79 (35%), Positives = 49/79 (62%), Gaps = 11/79 (13%) Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF- 234 L+ K+VSY VE+ R G V DYDKL++ + T+G+IT ++++++AS +L FI+F Sbjct: 3 LFYTSKRVSYNVENTRVGHVTDYDKLTLEVWTNGTITPKEAISMASDMLIKYFQKFISFT 62 Query: 235 ----------EEPKKEVKE 243 ++P+K+ +E Sbjct: 63 GEYKSSDIFVDKPEKKSRE 81 >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 = 53.5 bits (127), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 36/100 (36%), Positives = 50/100 (50%), Gaps = 9/100 (9%) Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 MF + EE + K+ + S+P + + ELS RS NCL I + DL + +E Sbjct: 268 MFYD-EEAARRDKQLEQILSIPMS--------DFELSARSRNCLERAGIDRLEDLTKMSE 318 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +L NFG SL EIK +L GL LG N+ PE + Sbjct: 319 EQLLAGKNFGETSLKEIKAILEMHGLKLGQNVHKKQPEPL 358 Score = 42.0 bits (97), Expect = 0.14, Method: Compositional matrix adjust. Identities = 24/58 (41%), Positives = 35/58 (60%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 V +LELSVR+ CL I +G+L+ R+ ++L + NFG SL EI+ LG + L Sbjct: 376 VSDLELSVRARKCLARLGINTVGELVSRSADELLSVRNFGVTSLNEIREKLGEKNIRL 433 >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 = 52.8 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 28/65 (43%), Positives = 40/65 (61%), Gaps = 3/65 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF +TL NALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISTTHAKVTL---EPLERGFGYTLRNALRRILLSSMPGCAVT 57 Query: 62 AVQID 66 V+ID Sbjct: 58 EVEID 62 >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 = 52.4 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 30/77 (38%), Positives = 45/77 (58%), Gaps = 10/77 (12%) Query: 250 LPFNPA------LLKKVE----ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +P N A L+ K+E E+ L+VR+TNCL I + DL+ T AD+L ++NFG Sbjct: 4 IPLNAAAQESESLMSKLEMSTAEIGLTVRTTNCLEERGIFTVRDLLNCTRADLLSISNFG 63 Query: 300 RKSLVEIKGVLGTMGLF 316 K+L E+ L ++G F Sbjct: 64 EKTLDEVYSSLESIGFF 80 >gi|166714640|gb|ABY88045.1| RpoA [Stenotrophomonas rhizophila] Length = 79 Score = 52.4 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 30/82 (36%), Positives = 49/82 (59%), Gaps = 3/82 (3%) 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 KEDINVKSLPFNPALLKKVEEL 263 + N +P LL+ +++L Sbjct: 61 AKPANNG---VDPVLLRPIDDL 79 >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 = 52.0 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 27/60 (45%), Positives = 37/60 (61%), Gaps = 3/60 (5%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISSTHAKVTL---EPLERGFGHTLGNALRRILLSSMPGCAVT 57 >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 = 51.6 bits (122), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 34/125 (27%), Positives = 69/125 (55%), Gaps = 6/125 (4%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL HT G+ ++ V S + G AI ++I ++E + I+ EDL +I LN+ + Sbjct: 419 PLNITDGHTFGSLIKYVCQSQIYGYAIVGIKIHN-MNEDTKIENTQEDLLEIALNLSDVC 477 Query: 94 L---KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + +++ +++ R+ IFK GP ++ AG I + ++V+N + IC + + + + + + Sbjct: 478 IYSKEINIETNIRL-IFK-GPLMLVAGMIPLPSHLKVVNKEQYICTIKENGYIDISIKIE 535 Query: 151 KGHGY 155 G G+ Sbjct: 536 YGKGH 540 >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 = 51.6 bits (122), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 34/125 (27%), Positives = 69/125 (55%), Gaps = 6/125 (4%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL HT G+ ++ V S + G AI ++I ++E + I+ EDL +I LN+ + Sbjct: 343 PLNITDGHTFGSLIKYVCQSQIYGYAIVGIKIHN-MNEDTKIENTQEDLLEIALNLSDVC 401 Query: 94 L---KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + +++ +++ R+ IFK GP ++ AG I + ++V+N + IC + + + + + + Sbjct: 402 IYSKEINIETNIRL-IFK-GPLMLVAGMIPLPSHLKVVNKEQYICTIKENGYIDISIKIE 459 Query: 151 KGHGY 155 G G+ Sbjct: 460 YGKGH 464 >gi|239933877|ref|ZP_04690830.1| DNA-directed RNA polymerase subunit alpha [Streptomyces ghanaensis ATCC 14672] Length = 88 Score = 51.2 bits (121), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 24/63 (38%), Positives = 41/63 (65%) Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 IG I +D++YSP+ KV+Y VE+ R Q D+DKL + ++T ++ D++A A + L + Sbjct: 10 IGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVEL 69 Query: 228 LGM 230 G+ Sbjct: 70 FGL 72 >gi|218508353|ref|ZP_03506231.1| DNA-directed RNA polymerase subunit alpha [Rhizobium etli Brasil 5] Length = 37 Score = 50.4 bits (119), Expect = 4e-04, 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|67968322|dbj|BAE00222.1| RNA polymerase alpha chain like [Selaginella uncinata] Length = 245 Score = 49.7 bits (117), Expect = 7e-04, Method: Compositional matrix adjust. Identities = 55/202 (27%), Positives = 84/202 (41%), Gaps = 11/202 (5%) Query: 34 PLPR-GFAHTLGNALRRVLMSSLRGAAIT-AVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 P P+ G A TLG A+RR GA T A + + HE +I GV E + + +N+K Sbjct: 33 PPPKIGQASTLGIAMRRAPPGESEGACTTPAGSPERINHEYPAIAGVRESVHETSMNLKE 92 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 I L + + I GPG V A D + I ++ P + V Sbjct: 93 IALTAHPSAAQEAHIPIVGPGKVAARDTVPPSSIGIIYPAQHAATVTRKIRSSTGSRVEG 152 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE--SAREGQVLDYDKLSMTIDTDG 209 G GY + + E G DA+ PI+ +Y++ + G ++ + TDG Sbjct: 153 GCGY--RRRNMVEYQ-KGSPPPDAVSMPIRNANYSIHRLESHSGGIMK-EMPPPEARTDG 208 Query: 210 SITGEDSVALASRILQDQLGMF 231 S T ++ ASR D +F Sbjct: 209 SPTPGEATYEASR---DSANLF 227 >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 = 48.9 bits (115), Expect = 0.001, Method: Compositional matrix adjust. Identities = 22/44 (50%), Positives = 29/44 (65%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 NALRR +S L AI+AV+I+G HE S+ G+ ED+ D I N Sbjct: 74 NALRRTSLSRLESLAISAVKIEGAKHEFYSLPGIREDIVDDIFN 117 >gi|221484912|gb|EEE23202.1| DNA-directed RNA polymerase alpha chain, putative [Toxoplasma gondii GT1] Length = 837 Score = 48.9 bits (115), Expect = 0.001, Method: Compositional matrix adjust. Identities = 22/44 (50%), Positives = 29/44 (65%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 NALRR +S L AI+AV+I+G HE S+ G+ ED+ D I N Sbjct: 74 NALRRTSLSRLESLAISAVKIEGAKHEFYSLPGIREDIVDDIFN 117 >gi|255027531|ref|ZP_05299517.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes FSL J2-003] Length = 55 Score = 48.5 bits (114), Expect = 0.002, Method: Compositional matrix adjust. Identities = 20/33 (60%), Positives = 27/33 (81%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 + EPL RG+ TLGN+LRR+L+SSL GAA+T+ Sbjct: 23 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTS 55 >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 = 48.5 bits (114), Expect = 0.002, Method: Compositional matrix adjust. Identities = 46/205 (22%), Positives = 86/205 (41%), Gaps = 33/205 (16%) Query: 72 ISSIKGVHEDLTDIILNIKGINLK-MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 ++ + V EDL +I LN+KG+ + + V + GP ++ AG I + + V NP Sbjct: 225 VTQLPNVREDLLEIALNLKGVAFETLRPRESACVRVKAVGPQLLVAGMIDWPSFVRVGNP 284 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTEN---------------DPIGLIT 172 +H I ++ V+ +E+ + G G A H R E D G Sbjct: 285 EHFIAKVEEGGVLDLEMKLEWGRGAWLADLHGLYREEEGVDTRCYKRRRIWEVDHRGFYP 344 Query: 173 IDALYSPIKKVSYTVESA--------REGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 ++ + V R+ ++L + I TD S + ++ +A A L Sbjct: 345 TSCIFGACTMMRLAVHKLMGTRFCQDRQASTNPTEQLVLEIWTDASKSPKEVLAFA---L 401 Query: 225 QDQLGMFINFEEPKKEVKEDINVKS 249 QD L ++ ++++ ED++ K+ Sbjct: 402 QDMLAWLVDL---RRQLVEDVDWKT 423 >gi|4140424|gb|AAD04047.1| DNA-directed RNA polymerase [Chlamydia trachomatis] Length = 62 Score = 47.8 bits (112), Expect = 0.002, Method: Composition-based stats. Identities = 22/49 (44%), Positives = 30/49 (61%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 +A+PL +G HTLG+ALRR L+ L AI + + GVL I +G H Sbjct: 14 VADPLEKGMGHTLGSALRRALLIGLEAPAIVSFSMTGVLQRIYGGRGDH 62 >gi|71904766|gb|AAZ52664.1| DNA-dependent RNA polymerase alpha chain [Mycoplasma hominis ATCC 23114] Length = 180 Score = 47.4 bits (111), Expect = 0.004, Method: Compositional matrix adjust. Identities = 32/146 (21%), Positives = 76/146 (52%), Gaps = 18/146 (12%) Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ---- 225 + +D+ +SPIKKV+ E + ++L + ++TDG++ ++ + A++I+ Sbjct: 16 FLAMDSDFSPIKKVAILFEELNSTSNIIEERLKIKVETDGTVEAKNVMEEAAKIIVAHFQ 75 Query: 226 -----DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVY 280 D LG F++ K++ ++ P + +++L L++RS N LR Sbjct: 76 IIGNIDALGTIDLFDDQKEKHEK---------TPKVSVSIDKLNLTIRSLNALRRAGFNN 126 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEI 306 + ++++ ++ ++ + N G+KS+ +I Sbjct: 127 VDEIMKLSDEELSNIKNLGKKSVQDI 152 >gi|166714718|gb|ABY88084.1| RpoA [Stenotrophomonas sp. LMG 11002] Length = 65 Score = 47.0 bits (110), Expect = 0.004, Method: Composition-based stats. Identities = 28/63 (44%), Positives = 44/63 (69%) Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 G + +DA +SP+++V+Y VE+A Q D DKL + I+T+G+I E++V A+ IL DQL Sbjct: 1 GRLVLDASFSPVRRVAYAVEAAAVEQRTDLDKLVIDIETNGTIDAEEAVRTAADILSDQL 60 Query: 229 GMF 231 +F Sbjct: 61 SVF 63 >gi|325120592|emb|CBZ56146.1| putative DNA-directed RNA polymerase alpha chain [Neospora caninum Liverpool] Length = 941 Score = 47.0 bits (110), Expect = 0.004, Method: Compositional matrix adjust. Identities = 20/44 (45%), Positives = 28/44 (63%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 NALRR +S + A+ AV+I+G HE S+ G+ ED+ D I N Sbjct: 183 NALRRTSLSRIESLAVAAVKIEGAKHEFYSLPGIREDIVDDIFN 226 >gi|221487600|gb|EEE25832.1| hypothetical protein TGGT1_089410 [Toxoplasma gondii GT1] Length = 1082 Score = 46.6 bits (109), Expect = 0.005, Method: Composition-based stats. Identities = 47/205 (22%), Positives = 87/205 (42%), Gaps = 33/205 (16%) Query: 72 ISSIKGVHEDLTDIILNIKGINLK-MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 ++ + V EDL +I LN+KG+ + + V + GP ++ AG I + + V NP Sbjct: 684 VTQLPNVREDLLEIALNLKGVAFETLRPRESACVRVKAVGPQLLVAGMIDWPSFVRVGNP 743 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTEN---------------DPIGLIT 172 +H I ++ V+ +E+ + G G A H R E D G Sbjct: 744 EHFIAKVEEGGVLDLEMKLEWGRGAWLADLHGLYREEEGVDTRCYKRRRIWEVDHRGFYP 803 Query: 173 IDALYSPIKKVSYTVESA--------REGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 ++ + V R+ ++L + I TD S + ++ +A A L Sbjct: 804 TSCIFGACTMMRLAVHKLMGTRFCQDRQASTNPTEQLVLEIWTDASKSPKEVLAFA---L 860 Query: 225 QDQLGMFINFEEPKKEVKEDINVKS 249 QD L F++ ++++ ED++ K+ Sbjct: 861 QDMLAWFVDL---RRQLVEDVDWKT 882 >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 = 46.2 bits (108), Expect = 0.007, Method: Compositional matrix adjust. Identities = 21/57 (36%), Positives = 36/57 (63%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 + E+ L+VR+TNCL I+ + DL+ T +L+++NFG K+L E+ L +G + Sbjct: 25 IAEMGLTVRTTNCLEETGILTVRDLLNATPRRLLKISNFGEKTLEEVYDALEQLGFY 81 >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 = 45.4 bits (106), Expect = 0.012, Method: Compositional matrix adjust. Identities = 32/117 (27%), Positives = 65/117 (55%), Gaps = 6/117 (5%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL HT G+ ++ V S + G AI ++I ++E + I+ EDL +I LN+ + Sbjct: 99 PLNITDGHTFGSLIKYVCQSQIYGYAIVGIKIHN-MNEDTKIENTQEDLLEIALNLSDVC 157 Query: 94 L---KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 + +++ +++ R+ IFK GP ++ AG I + ++V+N + IC + + + + + Sbjct: 158 IYSKEINIETNIRL-IFK-GPLMLVAGMIPLPSHLKVVNKEQYICTIKENGYIDISI 212 >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 = 44.7 bits (104), Expect = 0.019, Method: Compositional matrix adjust. Identities = 20/49 (40%), Positives = 34/49 (69%) Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 ++E+L LSVR+ NCL+ + I Y L+ + +++ + N G+KSLVEI+ Sbjct: 97 EIEKLCLSVRAYNCLKSDGIEYYSQLVDKLVEELITIPNMGQKSLVEIE 145 >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 = 44.7 bits (104), Expect = 0.019, Method: Compositional matrix adjust. Identities = 22/52 (42%), Positives = 28/52 (53%) Query: 276 ENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 E IV +G +Q T D+LR G+KS E + L +GL LGM L W E Sbjct: 4 EGIVLVGSFVQLTAGDILRKQGLGKKSYREARATLEALGLSLGMELCGWDEE 55 >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 = 44.7 bits (104), Expect = 0.022, Method: Compositional matrix adjust. Identities = 19/41 (46%), Positives = 30/41 (73%) Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 L+L +RSTNCLR I + DL++ ++ ++LR+ N GR+SL Sbjct: 147 LDLDIRSTNCLRSRGIDKIEDLLKLSDTELLRIDNLGRRSL 187 >gi|110004169|emb|CAK98507.1| hypothetical protein with alpha rna polymerase domain pd001179 [Spiroplasma citri] Length = 111 Score = 44.7 bits (104), Expect = 0.022, Method: Compositional matrix adjust. Identities = 25/92 (27%), Positives = 48/92 (52%), Gaps = 13/92 (14%) Query: 224 LQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGD 283 +Q+Q+ +++ +E ++ N L +++LE++ R+ CL I + D Sbjct: 29 IQEQITIWLEMDETER-------------NQLLNHSIDDLEITQRTQICLEKAKIYRLSD 75 Query: 284 LIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 L+ +TE ++ + N G KSL EIK + +GL Sbjct: 76 LVSKTENEIKNIKNLGEKSLTEIKEKMHELGL 107 >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 = 44.3 bits (103), Expect = 0.027, Method: Compositional matrix adjust. Identities = 19/54 (35%), Positives = 35/54 (64%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +E L LSVR+ NCL+ ++ Y LI + +++ + N GRK+L+E++ + T+ Sbjct: 98 IENLNLSVRAFNCLKSTSVDYYSQLIDVLDEELIAIPNMGRKTLLELEHIKKTV 151 >gi|221507397|gb|EEE33001.1| RNA polymerase Rpb3/Rpb11 dimerisation domain-containing protein, putative [Toxoplasma gondii VEG] Length = 1084 Score = 44.3 bits (103), Expect = 0.027, Method: Composition-based stats. Identities = 46/205 (22%), Positives = 86/205 (41%), Gaps = 33/205 (16%) Query: 72 ISSIKGVHEDLTDIILNIKGINLK-MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 ++ + V EDL +I LN+KG+ + + V + GP ++ AG I + + V NP Sbjct: 686 VTQLPNVREDLLEIALNLKGVAFETLRPRESACVRVKAVGPQLLVAGMIDWPSFVRVGNP 745 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTEN---------------DPIGLIT 172 +H I ++ V+ +E+ + G G A H R E D G Sbjct: 746 EHFIAKVEEGGVLDLEMKLEWGRGAWLADLHGLYREEEGVDTRCYKRRRIWEVDHRGFYP 805 Query: 173 IDALYSPIKKVSYTVESA--------REGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 ++ + V R+ ++L + I TD S + ++ +A A L Sbjct: 806 TSCIFGACTMMRLAVHKLMGTRFCQDRQASTNPTEQLVLEIWTDASKSPKEVLAFA---L 862 Query: 225 QDQLGMFINFEEPKKEVKEDINVKS 249 QD L ++ ++++ ED++ K+ Sbjct: 863 QDMLAWLVDL---RRQLVEDVDWKT 884 >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 = 43.9 bits (102), Expect = 0.035, Method: Compositional matrix adjust. Identities = 72/332 (21%), Positives = 131/332 (39%), Gaps = 55/332 (16%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED------LTDIIL 87 P + A N LRRVL+S ITAV I G HE S + GV E ++ Sbjct: 27 PFLKNQAFLYSNVLRRVLLSDSSNIVITAVNIVGAKHEYSLLPGVRESSLDLLLNLKELV 86 Query: 88 NIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA--VVRM 145 +K I K + + GP ++ DI N I ++ I + + +++M Sbjct: 87 FVKDIYTKFNKSYFAYLK--SNGPKIIRCSDIILPNTIYAVDSTQYIATISNNKSLILKM 144 Query: 146 ELTVSKGHGYVPAKHHR------------TENDPIGLITIDALYSPIKKVSYTVESAREG 193 +LT + + + ++ E LI ID +S + KV+ ++ S Sbjct: 145 KLTANLLNNFYSNLNYELNSLLSYYTNDILEKTNFSLI-IDPNFSCVNKVNSSLISLDNL 203 Query: 194 QVLDYDKLSMTIDTDGS----ITGEDSV-ALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + + D +S+ + T+ S I ++S+ ++ + L FI+ + + + ++ Sbjct: 204 ENYN-DSISLEVWTNSSYSPRIIIQNSIKSMVNLFLSIYDTSFIDIKLENSDNFLENHLV 262 Query: 249 SLPFNPALLKK--------------------------VEELELSVRSTNCLRGENIVYMG 282 SL KK ++EL+LS+ S L+ NI+ + Sbjct: 263 SLSNRATFFKKSFFNICTEFNTVKYKTSFDKNLTLISIDELDLSIYSKFLLKRHNILTLY 322 Query: 283 DLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 DL + + + R N K+L I+ + G Sbjct: 323 DLFKIDKRVLERFYNISYKTLQSIERKMVKYG 354 >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 = 43.5 bits (101), Expect = 0.043, Method: Compositional matrix adjust. Identities = 20/64 (31%), Positives = 37/64 (57%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 ++ L LSVR+ NCL+ NI Y LI +TE +++ + + G +L E++ + + + G Sbjct: 164 IDFLGLSVRAKNCLKSANIEYYSQLISKTEEELMTIKHMGVTTLKELQRLKFLIFFYFGF 223 Query: 320 NLPD 323 + D Sbjct: 224 PVVD 227 >gi|325119669|emb|CBZ55222.1| putative RNA polymerase Rpb3/Rpb11 dimerisation domain-containing protein [Neospora caninum Liverpool] Length = 980 Score = 43.1 bits (100), Expect = 0.059, Method: Compositional matrix adjust. Identities = 24/86 (27%), Positives = 44/86 (51%), Gaps = 5/86 (5%) Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHK---RVTIFKRGPGVVTAGDIQTVNDIEVL 128 ++ + V ED+ +I LN+KG+ + RV + GP ++ AG I + + V Sbjct: 552 VTKLPSVREDILEIALNLKGVAFETLAPRESACIRVKVV--GPQLLVAGMIGWPSFVRVA 609 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHG 154 NP+H I ++ V+ +E+ + G G Sbjct: 610 NPEHFIAKVEEGGVLDLEIKLEWGRG 635 >gi|169836384|ref|ZP_02869572.1| DNA-directed RNA polymerase alpha chain [candidate division TM7 single-cell isolate TM7a] Length = 74 Score = 42.4 bits (98), Expect = 0.11, Method: Compositional matrix adjust. Identities = 24/71 (33%), Positives = 40/71 (56%), Gaps = 3/71 (4%) Query: 117 GDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKHHRTENDPI--GLITI 173 GDIQ+ D+E++NP+ VIC + D A ++L + G GY+ + I +I + Sbjct: 1 GDIQSHADVEIINPEQVICTVDDPSAKAVIDLVIDSGRGYLSIEDSSETRLTISRSIIAL 60 Query: 174 DALYSPIKKVS 184 DA SP+ +V+ Sbjct: 61 DASISPVIRVT 71 >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 = 42.0 bits (97), Expect = 0.14, Method: Compositional matrix adjust. Identities = 23/78 (29%), Positives = 38/78 (48%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PLP G A +LG +R VL+ A+ ++ + + + G E + II I GI+ Sbjct: 25 PLPEGIAQSLGFNIRSVLLKEFPYFAVKNIRFNPENNNYKTHIGTKESIETIINTILGID 84 Query: 94 LKMSGDSHKRVTIFKRGP 111 S D +K + ++K P Sbjct: 85 FNYSFDFYKAMGLYKSKP 102 >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 = 42.0 bits (97), Expect = 0.15, Method: Compositional matrix adjust. Identities = 39/182 (21%), Positives = 80/182 (43%), Gaps = 41/182 (22%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVL-------------HEISSIKGVHEDLTDIILNI 89 N LRR+L+ G + ++I G + +E S + ++E + + LNI Sbjct: 35 FANQLRRILLGKSEG--LRFLKISGFIANKNSKFSVYQKINEFSEFEEINESVFQLFLNI 92 Query: 90 KGINLKM-SGDSHKRV--TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 K I+L S D++KR 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------------------IGSFFTPVKRVNYIIEENK----LSFSRVVLELE 189 Query: 207 TD 208 TD Sbjct: 190 TD 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 = 41.6 bits (96), Expect = 0.15, Method: Compositional matrix adjust. Identities = 32/125 (25%), Positives = 55/125 (44%), Gaps = 3/125 (2%) Query: 45 NALRRVLMSSLRGAAITAVQIDGV--LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 NA+RR L+S + V+I+ + G + D+I ++ +++++ S Sbjct: 36 NAVRRTLLSFSTQLKLVGVKINSSRNTYPWCMFSGCRDSYLDLISRLQRLSVRIRETSLC 95 Query: 103 RVTIFKR-GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 V K GP VV AG + T +E+L P+ + +L + MEL S VP + Sbjct: 96 YVLQLKSSGPLVVVAGHMITPPTLEILTPNKYLTSLAAKCALDMELIFSSYVLAVPVSYW 155 Query: 162 RTEND 166 D Sbjct: 156 EKTTD 160 >gi|213580698|ref|ZP_03362524.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] Length = 46 Score = 39.7 bits (91), Expect = 0.62, Method: Compositional matrix adjust. Identities = 21/49 (42%), Positives = 28/49 (57%), Gaps = 3/49 (6%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRV 50 +Q + E +KP ++ + TL EPL RGF HTLGNALRR+ Sbjct: 1 MQGSVTEFLKPRLVDIEQVSSTHAKVTL---EPLERGFGHTLGNALRRI 46 >gi|126348269|emb|CAJ89990.1| putative oxidoreductase [Streptomyces ambofaciens ATCC 23877] Length = 310 Score = 39.7 bits (91), Expect = 0.65, Method: Compositional matrix adjust. Identities = 32/109 (29%), Positives = 46/109 (42%), Gaps = 9/109 (8%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P + ++VL + NRT E LG AL L S G + ++I H Sbjct: 137 PVKLSHVVLNSPDLNRTREWYE-------RHLGFALSDTLSSPHMGEVMHFMRISSQHHS 189 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR--GPGVVTAGD 118 ++ KG H L + ++GI+ M G FK+ GPG AGD Sbjct: 190 MALAKGPHTSLHHVSFEMRGIDEYMRGSGRVIRAGFKKVWGPGRHMAGD 238 >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 = 39.3 bits (90), Expect = 0.81, Method: Compositional matrix adjust. Identities = 22/56 (39%), Positives = 37/56 (66%), Gaps = 1/56 (1%) Query: 259 KVEELELSVRSTNCLRGE-NIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 K+E++ LS R+ + L + + +GD++ T D+L + NFGRKSL EIK V+ ++ Sbjct: 142 KLEDIRLSHRTFHTLLNQGQMETIGDVMLTTCTDLLSLKNFGRKSLNEIKEVIRSL 197 >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 = 39.3 bits (90), Expect = 0.97, Method: Compositional matrix adjust. Identities = 20/42 (47%), Positives = 28/42 (66%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 LS RSTN L E I +GD++ TE +L++ N G+KS+ EI Sbjct: 13 LSARSTNALHREEIHTVGDMLGFTEESLLQVKNLGKKSVEEI 54 >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 = 38.9 bits (89), Expect = 1.2, Method: Compositional matrix adjust. Identities = 17/51 (33%), Positives = 34/51 (66%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 ++ LEL VRS N L+ NI+ + L++ ++ ++L++ N G++ + EI+ L Sbjct: 227 IDNLELGVRSYNVLKRANIISIKKLLKMSDDELLKIRNLGKRQVAEIRTQL 277 >gi|295091278|emb|CBK77385.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Clostridium cf. saccharolyticum K10] Length = 1539 Score = 38.5 bits (88), Expect = 1.4, Method: Compositional matrix adjust. Identities = 28/74 (37%), Positives = 38/74 (51%), Gaps = 9/74 (12%) Query: 234 FEEPKKEVKEDI-NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 FEE K +KE + NV+ P +E L L R+TN LR I +G LIQ ++ D+ Sbjct: 85 FEERAKRIKEILPNVQDAP--------IESLGLGTRATNALRRGGIHTVGALIQMSQKDI 136 Query: 293 LRMANFGRKSLVEI 306 + N G S EI Sbjct: 137 FELRNVGVLSREEI 150 >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 = 38.5 bits (88), Expect = 1.5, Method: Compositional matrix adjust. Identities = 64/270 (23%), Positives = 105/270 (38%), Gaps = 79/270 (29%) Query: 35 LPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIKGVHEDLTDI 85 L +G T+ NALRRVL+ + G IT V+ + LHE S+I G+ E + ++ Sbjct: 50 LKKGQGITVANALRRVLLYDIMGLGITKVKFNSKNNENLSSQKLHEFSTISGIRESILEL 109 Query: 86 ILNIKGI---------NLKMSGDS-------HKRVTI------------------FK--- 108 ++N++ + N K+SGDS H+ + I FK Sbjct: 110 LMNLRLLVWTTSPLDSNQKVSGDSSSDPLLVHEELDISSSPSLTSYLGQFSLPEYFKSKD 169 Query: 109 ----------------RGPGVVTAGDI--QTVNDIEVLNPDHVICNL--------DVDAV 142 RG +++A Q N +++NP+ + + + Sbjct: 170 WLSEKNKNNQSSVFVLRGKHLISADQRTNQNPNFAQLINPEQYLATILPIQKTATGLSKF 229 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG--QVLDYDK 200 E+ G G + N+ L+ + P+KKV+YTVE + L Sbjct: 230 PEFEIEYKIGKGNLFENLDLQSNNEEFLLNSGPFF-PVKKVNYTVEDIKNSTNNFLWERG 288 Query: 201 LS----MTIDTDGSITGEDSVALASRILQD 226 S I TDGS+ E +++ A IL D Sbjct: 289 FSECVFFEIWTDGSLHPEKALSQAFDILLD 318 >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 = 38.1 bits (87), Expect = 1.7, Method: Compositional matrix adjust. Identities = 28/89 (31%), Positives = 45/89 (50%), Gaps = 1/89 (1%) Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 N ++L A L ++L +S R TN I +GDLI +TE D+LR+ G K++ E Sbjct: 1321 NGRTLSSEDAKLYLFDDLGVSQRWTNKFSEVGIETVGDLIGKTEEDLLRIDGIGSKAIEE 1380 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEELAK 334 ++ L L + PD E+L++ Sbjct: 1381 LRQGLDARNLLYILE-PDEDEADAEDLSQ 1408 >gi|166714716|gb|ABY88083.1| RpoA [Stenotrophomonas sp. LMG 980] Length = 66 Score = 38.1 bits (87), Expect = 2.0, Method: Composition-based stats. Identities = 22/67 (32%), Positives = 38/67 (56%), Gaps = 3/67 (4%) Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D DKL + I+T+G+I E++V A+ I DQL +F +F + + N +P L Sbjct: 3 DLDKLVIDIETNGTIDAEEAVRTAADITSDQLSVFGDFTHRDRGAAKPANNG---VDPVL 59 Query: 257 LKKVEEL 263 L+ +++L Sbjct: 60 LRPIDDL 66 >gi|251788175|ref|YP_003002896.1| threonine synthase [Dickeya zeae Ech1591] gi|247536796|gb|ACT05417.1| threonine synthase [Dickeya zeae Ech1591] Length = 429 Score = 37.7 bits (86), Expect = 2.3, Method: Compositional matrix adjust. Identities = 29/95 (30%), Positives = 47/95 (49%), Gaps = 8/95 (8%) Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDG-SITGEDSVALASRILQDQL-----GMFIN 233 ++ ++ ++ G V D + ++ D T E A+A R+L+DQL G+F+ Sbjct: 316 FRRKNWQLKELAFGAVSDETTKTTMLELDALGYTSEPHAAIAYRLLRDQLQPGEYGLFLG 375 Query: 234 FEEPKK--EVKEDINVKSLPFNPALLKKVEELELS 266 P K E E I K+LP PAL ++ E+ LS Sbjct: 376 TAHPAKFKESVEAILGKTLPLPPALAERAEQALLS 410 >gi|166714714|gb|ABY88082.1| RpoA [Stenotrophomonas sp. LMG 10996] Length = 67 Score = 37.4 bits (85), Expect = 3.0, Method: Composition-based stats. Identities = 22/67 (32%), Positives = 38/67 (56%), Gaps = 3/67 (4%) Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D DKL + I+T+G+I E++V A+ I DQL +F +F + + N +P L Sbjct: 4 DLDKLVIDIETNGTIDAEEAVRTAADIPSDQLSVFGDFTHRDRGAAKPANNG---VDPVL 60 Query: 257 LKKVEEL 263 L+ +++L Sbjct: 61 LRPIDDL 67 >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 = 37.4 bits (85), Expect = 3.0, Method: Compositional matrix adjust. Identities = 24/61 (39%), Positives = 31/61 (50%), Gaps = 1/61 (1%) Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 LPF+ L K +EEL L VR N + DL T+ ML NFGRKS ++ + Sbjct: 276 LPFS-LLEKPLEELNLPVRLFNVFNVNGFTSLNDLKDITDKTMLSWPNFGRKSARDLYSL 334 Query: 310 L 310 L Sbjct: 335 L 335 >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 = 37.4 bits (85), Expect = 3.2, Method: Composition-based stats. Identities = 21/52 (40%), Positives = 30/52 (57%) Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 L+L+ R TN L I +GDL + +D+L+M FG KSL E++ L G Sbjct: 17 LDLNFRVTNRLASAGIFRVGDLCVCSASDLLKMPGFGVKSLQEVERSLQRAG 68 >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 = 37.4 bits (85), Expect = 3.3, Method: Compositional matrix adjust. Identities = 30/110 (27%), Positives = 53/110 (48%), Gaps = 8/110 (7%) Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV-PAKHHRTENDP 167 +GP +V AG +Q +IE++N + IC + + + M++ + YV P ++ N Sbjct: 16 KGPMIVVAGHMQLPKNIEIINKNQYICYVAAGSYLEMDVKIESIEEYVMPEYGSQSRNRD 75 Query: 168 I---GLITIDALYSPIKKVSYTVESAREGQVLDY--DKLSMTIDTDGSIT 212 I I + +P++ +T R G LD + + + TDGSIT Sbjct: 76 ICKDNFIHFCSSCTPVEYFGFT--GQRRGINLDILGEINIVEMHTDGSIT 123 >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 = 37.0 bits (84), Expect = 4.4, Method: Compositional matrix adjust. Identities = 22/62 (35%), Positives = 35/62 (56%) Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 N ++L A L ++L +S R TN I +GDLI +TE D+LR+ G K++ E Sbjct: 1320 NGRTLSSEDAKLYLFDDLGVSQRWTNKFSEVGIETVGDLIGKTEDDLLRIDGIGAKAIEE 1379 Query: 306 IK 307 ++ Sbjct: 1380 LR 1381 >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 = 37.0 bits (84), Expect = 4.5, Method: Compositional matrix adjust. Identities = 22/62 (35%), Positives = 35/62 (56%) Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 N ++L A L ++L +S R TN I +GDLI +TE D+LR+ G K++ E Sbjct: 1319 NGRTLSSEDAKLYLFDDLGVSQRWTNKFSEVGIETVGDLIGKTEEDLLRIDGIGAKAIEE 1378 Query: 306 IK 307 ++ Sbjct: 1379 LR 1380 >gi|289809444|ref|ZP_06540073.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 45 Score = 36.6 bits (83), Expect = 5.0, Method: Compositional matrix adjust. Identities = 18/44 (40%), Positives = 30/44 (68%) Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA Sbjct: 1 STKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTA 44 >gi|14591566|ref|NP_143648.1| TRK system potassium uptake protein [Pyrococcus horikoshii OT3] gi|3258249|dbj|BAA30932.1| 496aa long hypothetical TRK system potassium uptake protein [Pyrococcus horikoshii OT3] Length = 496 Score = 36.6 bits (83), Expect = 5.4, Method: Compositional matrix adjust. Identities = 27/96 (28%), Positives = 43/96 (44%), Gaps = 4/96 (4%) Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 + FE K +++ I LP + +KV E E S + G + Y L+ T Sbjct: 370 LTFESLKWTIQQAI----LPKGAVIRRKVGEYEFSEDEIQEVLGFTMTYFAFLLFGTMYM 425 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 MLR+ +L E +G +GL +G+ P PP+ Sbjct: 426 MLRIGARFADALFESASAIGNVGLSVGITSPLLPPD 461 >gi|260840788|ref|XP_002613804.1| hypothetical protein BRAFLDRAFT_124174 [Branchiostoma floridae] gi|229299194|gb|EEN69813.1| hypothetical protein BRAFLDRAFT_124174 [Branchiostoma floridae] Length = 601 Score = 36.2 bits (82), Expect = 6.8, Method: Compositional matrix adjust. Identities = 30/113 (26%), Positives = 53/113 (46%), Gaps = 26/113 (23%) Query: 195 VLDYDKLSMTID-----TDGSITGEDSVALASRILQDQLG------------MFINFEEP 237 + D+DK+S T+ G T + +A+R ++ +LG +F P Sbjct: 243 IADWDKVSATVAGLTLLAVGVYTARGATGVAARYIEARLGKPALVRETSRISVFEGIRHP 302 Query: 238 KKEVK------EDINVKSLPFNPALLKKVEELELSVRSTNCLRG--ENIVYMG 282 K VK ED ++ + FNP+L +V ++ ++ R+T RG NI++ G Sbjct: 303 VKTVKRLMTKPEDA-LEGILFNPSLESRVRDIAIATRNTKANRGVYRNILFHG 354 >gi|332158054|ref|YP_004423333.1| TRK system potassium uptake protein [Pyrococcus sp. NA2] gi|331033517|gb|AEC51329.1| TRK system potassium uptake protein [Pyrococcus sp. NA2] Length = 493 Score = 36.2 bits (82), Expect = 6.9, Method: Compositional matrix adjust. Identities = 27/96 (28%), Positives = 42/96 (43%), Gaps = 4/96 (4%) Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 + FE K +++ I LP + +KV E E S + G + Y L T Sbjct: 366 LTFESLKWTIQQAI----LPKGAIIRRKVGEYEFSEDEIQEVLGFTMTYFAFLFLGTMYM 421 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 MLR+ +L E +G +GL +G+ P PP+ Sbjct: 422 MLRLGARFADALFESASAIGNVGLSVGITSPLLPPD 457 >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 = 36.2 bits (82), Expect = 7.9, Method: Compositional matrix adjust. Identities = 28/89 (31%), Positives = 45/89 (50%), Gaps = 1/89 (1%) Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 N +SL A L ++L +S R TN I +GDLI +TE ++LR+ G K++ E Sbjct: 1322 NGRSLSTEDAKLYLFDDLGVSQRWTNKFSEVGIETVGDLIGKTEDELLRIDGIGAKAIEE 1381 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEELAK 334 ++ L L + PD E+L++ Sbjct: 1382 LREGLEARNLLYILE-PDEDEADSEDLSQ 1409 >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 = 35.8 bits (81), Expect = 8.8, Method: Compositional matrix adjust. Identities = 23/61 (37%), Positives = 36/61 (59%), Gaps = 1/61 (1%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEA-DMLRMANFGRKSLVEIKGVLGTMGLFLG 318 V+ L LSVR+ N L I G++ + A +L++ N GRK++ +I+ +G GL LG Sbjct: 406 VQNLNLSVRAINVLNVIGISTFGEIPKIDAAVTLLKVRNSGRKTVHDIEVFIGKFGLQLG 465 Query: 319 M 319 M Sbjct: 466 M 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 = 35.8 bits (81), Expect = 9.2, Method: Compositional matrix adjust. Identities = 23/61 (37%), Positives = 36/61 (59%), Gaps = 1/61 (1%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEA-DMLRMANFGRKSLVEIKGVLGTMGLFLG 318 V+ L LSVR+ N L I G++ + A +L++ N GRK++ +I+ +G GL LG Sbjct: 406 VQNLNLSVRAINVLNVIGISTFGEIPKIDAAVTLLKVRNSGRKTVHDIEVFIGKFGLQLG 465 Query: 319 M 319 M Sbjct: 466 M 466 >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 = 35.8 bits (81), Expect = 9.5, Method: Compositional matrix adjust. Identities = 29/104 (27%), Positives = 48/104 (46%), Gaps = 19/104 (18%) Query: 233 NFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGD---LIQRTE 289 +F E KK +E +L + + L L R T L I +G L+++ E Sbjct: 70 SFAEQKKAREEA--------RTSLERPIASLNLGTRPTEALAKAGITTVGQVIALLEQGE 121 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELA 333 A +L + FGRK+L+++K L +G L P + +E+A Sbjct: 122 AALLNVEGFGRKALIDLKKTLRGLGYQL--------PAAADEIA 157 Searching..................................................done Results from round 2 >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 = 423 bits (1088), Expect = e-116, 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 MIQKNWQELIKPNKVDFITHGSRTH--ATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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|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 = 423 bits (1088), Expect = e-116, 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 MIQKNWQELIKPNKVDFITHGSRTH--ATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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|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 = 423 bits (1088), Expect = e-116, 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 MIQKNWQELIKPNKVDFITHGSRTH--ATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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|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 = 423 bits (1087), Expect = e-116, 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 MIQKNWQELIKPNKVDFITHGSRTH--ATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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|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 = 422 bits (1086), Expect = e-116, 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 MIQKNWQELIKPNKVDFITHGSRTH--ATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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|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 = 422 bits (1086), Expect = e-116, 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 MIQKNWQELIKPNKVDFITHGSRAH--ATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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|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 = 422 bits (1085), Expect = e-116, 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 MIQKNWQELIKPNKVDFITHGSRTH--ATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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|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 = 422 bits (1085), Expect = e-116, 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 MIQKNWQELIKPNKVDFITHGSRTH--ATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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|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 = 422 bits (1085), Expect = e-116, Method: Composition-based stats. Identities = 226/339 (66%), Positives = 279/339 (82%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +++I G ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVDFITNGSRTH--ATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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|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 = 422 bits (1084), Expect = e-116, 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|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 = 420 bits (1081), Expect = e-115, 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 MIQKNWQELIKPNKVDFITHGSRTH--ATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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|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 = 418 bits (1076), Expect = e-115, Method: Composition-based stats. Identities = 237/339 (69%), Positives = 284/339 (83%), Gaps = 4/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP+ IE+ G+ + N ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPSKIEFTSKGRTQTN---LVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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|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 = 418 bits (1076), Expect = e-115, Method: Composition-based stats. Identities = 234/339 (69%), Positives = 284/339 (83%), Gaps = 4/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E+ G+ + ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVEFASSGR---TKATLVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 = 418 bits (1075), Expect = e-115, Method: Composition-based stats. Identities = 233/339 (68%), Positives = 285/339 (84%), Gaps = 4/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +++ G+ + ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVDFTSSGR---TKATLVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 AEEEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 297 KSLNEIKEVLASMGLHLGMEVPSWPPENIEDLAKRYEDQ 335 >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 = 418 bits (1074), Expect = e-115, 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|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 = 417 bits (1072), Expect = e-114, 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 MIERNWQELIRPEKPQVEG-GSDPQHKARLIAEPLERGFGVTLGNALRRVLLSSLQGAAV 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|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 = 417 bits (1072), Expect = e-114, 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|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 = 417 bits (1071), Expect = e-114, Method: Composition-based stats. Identities = 238/339 (70%), Positives = 283/339 (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 TEEEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 297 KSLNEIKEVLASMGLHLGMEVPAWPPENIEDLAKRYEDQ 335 >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 = 417 bits (1071), Expect = e-114, Method: Composition-based stats. Identities = 234/339 (69%), Positives = 282/339 (83%), Gaps = 4/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E+ G+ + ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVEFSSSGR---TKATLVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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|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 = 416 bits (1070), Expect = e-114, Method: Composition-based stats. Identities = 234/339 (69%), Positives = 282/339 (83%), 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 AEEE-SVTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 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 = 416 bits (1070), Expect = e-114, Method: Composition-based stats. Identities = 212/338 (62%), Positives = 271/338 (80%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN ++ + G + + ++AEPL RGF TLGN+LRRVL+SSL+GAA+ Sbjct: 28 VIQKNWQELIKPNKLQ-VTAGDDPKRVATVVAEPLERGFGTTLGNSLRRVLLSSLQGAAV 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|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 = 416 bits (1070), Expect = e-114, Method: Composition-based stats. Identities = 238/339 (70%), Positives = 285/339 (84%), Gaps = 4/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E+ G+ + ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVEFTSSGR---TKATLVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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|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 = 416 bits (1070), Expect = e-114, Method: Composition-based stats. Identities = 207/339 (61%), Positives = 267/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI++NW ELI+P + G + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIERNWNELIRPEKPQIET-GADASRKARIVAEPLERGFGVTLGNALRRVLLSSLQGAAV 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 ++ + LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 SADE-SKPELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++P+WPPE+IE+LAKK+ED+ Sbjct: 299 KSLNEIKEVLAGMGLHLGMDVPNWPPENIEDLAKKFEDQ 337 >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 = 416 bits (1070), Expect = e-114, Method: Composition-based stats. Identities = 208/339 (61%), Positives = 268/339 (79%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI++NW ELI+P + G + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIERNWNELIRPEKPQIET-GADATRKARIVAEPLERGFGVTLGNALRRVLLSSLQGAAV 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 ++ LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 TADEA-KPELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++P+WPPE+IE+LAKK+ED+ Sbjct: 299 KSLNEIKEVLAGMGLHLGMDVPNWPPENIEDLAKKFEDQ 337 >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 = 416 bits (1069), Expect = e-114, Method: Composition-based stats. Identities = 237/339 (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 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 VAAEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +PDWPPE+IE+LAK+YED+ Sbjct: 297 KSLNEIKEVLAAMGLHLGMEVPDWPPENIEDLAKRYEDQ 335 >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 = 416 bits (1069), Expect = e-114, 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 IQKNWQELIKPTKLDVK-PGEDPRFVATVVAEPLERGYGLTLGNALRRILLSSLQGAAVT 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|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 = 416 bits (1069), Expect = e-114, Method: Composition-based stats. Identities = 207/339 (61%), Positives = 267/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI++NW ELI+P + G + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIERNWNELIRPEKPQIET-GADATRKARIVAEPLERGFGVTLGNALRRVLLSSLQGAAV 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 ++ + LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 SADE-SKPELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++P+WPPE+IE+LAKK+ED+ Sbjct: 299 KSLNEIKEVLAGMGLHLGMDVPNWPPENIEDLAKKFEDQ 337 >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 = 415 bits (1068), Expect = e-114, 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|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 = 415 bits (1066), Expect = e-114, Method: Composition-based stats. Identities = 236/339 (69%), Positives = 282/339 (83%), 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 VAAEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +PDWPPE+IE+LAK+YED+ Sbjct: 297 KSLNEIKEVLAAMGLHLGMEVPDWPPENIEDLAKRYEDQ 335 >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 = 414 bits (1064), Expect = e-113, Method: Composition-based stats. Identities = 215/337 (63%), Positives = 270/337 (80%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELIKPN +E + G + +AEPL RGF TLGNALRR+L+SSL+GAAIT Sbjct: 3 IQKNWQELIKPNKLE-VTAGDDPRRVATAVAEPLERGFGVTLGNALRRILLSSLQGAAIT 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|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 = 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 TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQ-VTPGSDSGRFATLVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 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|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 = 413 bits (1063), Expect = e-113, 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 VIQKNWQELIKPNKLEVV-PGHDPKRVATVVAEPLERGFGTTLGNALRRVLLSSLQGAAV 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|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 = 413 bits (1063), Expect = e-113, Method: Composition-based stats. Identities = 217/337 (64%), Positives = 275/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ + G + ++AEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 7 IQKNWQELIRPNKLQ-VTPGSDPARFATIVAEPLERGFGQTLGNALRRILLSSLQGAAVQ 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|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 = 413 bits (1062), Expect = e-113, 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 DQGGAD-EELLFNAALLRKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL T+GL LGM++PDWPP++IEELA+K+ED+ Sbjct: 299 KSLNEIKEVLATLGLHLGMDVPDWPPDNIEELARKFEDQ 337 >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 = 413 bits (1062), Expect = e-113, Method: Composition-based stats. Identities = 219/337 (64%), Positives = 273/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ + G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQ-VTAGSDATRFATLVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 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|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 = 413 bits (1061), Expect = e-113, 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|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 = 412 bits (1060), Expect = e-113, Method: Composition-based stats. Identities = 213/337 (63%), Positives = 272/337 (80%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ + G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQ-VTPGSDPSRFATLVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 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|23010819|ref|ZP_00051380.1| COG0202: DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Magnetospirillum magnetotacticum MS-1] Length = 339 Score = 412 bits (1060), Expect = e-113, Method: Composition-based stats. Identities = 212/338 (62%), Positives = 271/338 (80%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN ++ + G + + ++AEPL RGF TLGN+LRRVL+SSL+GAA+ Sbjct: 2 VIQKNWQELIKPNKLQ-VTAGDDPKRVATVVAEPLERGFGTTLGNSLRRVLLSSLQGAAV 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|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 = 412 bits (1060), Expect = e-113, 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 VIQKNWQELIKPNKLQ-VSAGDDPKRVATVVAEPLERGFGTTLGNSLRRVLLSSLQGAAV 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|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 = 412 bits (1060), Expect = e-113, 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|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 = 412 bits (1060), Expect = e-113, Method: Composition-based stats. Identities = 218/337 (64%), Positives = 275/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ + G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQ-VSPGSDATRFATLVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 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|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 = 412 bits (1059), Expect = e-113, Method: Composition-based stats. Identities = 219/338 (64%), Positives = 278/338 (82%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP +E + +G + + ++AEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 1 MIQKNWQELIKPEKLE-VAVGSDPKRLATVVAEPLERGFGQTLGNALRRILLSSLQGAAV 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 TESPA-MQELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL +MGL LGM +P WPPE+IE+LAK++ED Sbjct: 299 KSLNEIKEVLASMGLHLGMEVPGWPPENIEDLAKRFED 336 >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 = 412 bits (1059), Expect = e-113, 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 TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQ-VTAGSDATRFATLVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 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|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 = 412 bits (1059), Expect = e-113, Method: Composition-based stats. Identities = 211/337 (62%), Positives = 273/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ + G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQ-VTPGADATRFATVVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 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 = 412 bits (1058), Expect = e-113, Method: Composition-based stats. Identities = 216/337 (64%), Positives = 274/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ + G + ++AEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 7 IQKNWQELIRPNKLQ-VTPGSDATRFATVVAEPLERGFGQTLGNALRRILLSSLQGAAVQ 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|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 = 412 bits (1058), Expect = e-113, Method: Composition-based stats. Identities = 218/339 (64%), Positives = 273/339 (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 E+ + L FN ALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TE++MLR NFGR Sbjct: 240 HVEE-SRPELEFNAALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P+WPPE+IEELAK+YED+ Sbjct: 299 KSLNEIKEVLAQMGLHLGMEVPNWPPENIEELAKRYEDQ 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 = 412 bits (1058), Expect = e-113, 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 IQKNWQELIKPTKLEVK-PGDDPRFLATVVAEPLERGYGLTLGNALRRILLSSLQGAAVT 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|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 = 412 bits (1058), Expect = e-113, Method: Composition-based stats. Identities = 213/338 (63%), Positives = 273/338 (80%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN +E + G + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 2 VIQKNWQELIKPNKLE-VAPGHDPKRIATVVAEPLERGFGTTLGNALRRVLLSSLQGAAV 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|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 = 412 bits (1058), Expect = e-113, 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|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 = 412 bits (1058), Expect = e-113, Method: Composition-based stats. Identities = 211/338 (62%), Positives = 273/338 (80%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN ++ + G + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 2 VIQKNWQELIKPNKLQ-VTTGDDPKRVATVVAEPLERGFGTTLGNALRRVLLSSLQGAAV 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|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 = 412 bits (1058), Expect = e-113, Method: Composition-based stats. Identities = 227/339 (66%), Positives = 280/339 (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 E+ V L FNP+LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 238 VHEET-VAELAFNPSLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 297 KSLNEIKEVLASMGLHLGMEVPSWPPENIEDLAKRYEDQ 335 >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 = 412 bits (1058), 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 IQKNWQELIRPNKLQVV-PGSDPSRFATLIAEPLERGFGQTLGNALRRILLSSLQGAAVQ 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|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 = 411 bits (1056), Expect = e-113, Method: Composition-based stats. Identities = 212/337 (62%), Positives = 270/337 (80%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELIKP+ +E + G + + +AEPL RGF TLGNALRR+L+SSL+G+AIT Sbjct: 3 IQKNWQELIKPSKLE-VTAGDDPRRVAVAVAEPLERGFGVTLGNALRRILLSSLQGSAIT 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|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 = 411 bits (1056), Expect = e-113, 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|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 = 411 bits (1056), Expect = e-113, Method: Composition-based stats. Identities = 212/338 (62%), Positives = 271/338 (80%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN ++ + G + + ++AEPL RGF TLGN+LRRVL+SSL+GAA+ Sbjct: 2 VIQKNWQELIKPNKLQ-VTAGDDPKRVATVVAEPLERGFGTTLGNSLRRVLLSSLQGAAV 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|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 = 411 bits (1056), Expect = e-113, Method: Composition-based stats. Identities = 206/339 (60%), Positives = 265/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI++NW ELI+P + G + + ++AEPL RGF TLGN+LRRVL+SSL+GAA+ Sbjct: 1 MIERNWNELIRPEKPQIET-GADASRKARLVAEPLERGFGVTLGNSLRRVLLSSLQGAAV 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 VEGEA-KPELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++P+WPPE+IEELAKK+ED+ Sbjct: 299 KSLNEIKEVLAGMGLHLGMDVPNWPPENIEELAKKFEDQ 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 = 410 bits (1055), Expect = e-112, 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 TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQ-VTPGSDATRFATLVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 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|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 = 410 bits (1055), Expect = e-112, Method: Composition-based stats. Identities = 211/338 (62%), Positives = 271/338 (80%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN ++ + G + + ++AEPL RGF TLGN+LRRVL+SSL+GAA+ Sbjct: 2 VIQKNWQELIKPNKLQ-VTAGDDPKRVATVVAEPLERGFGTTLGNSLRRVLLSSLQGAAV 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|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 = 410 bits (1055), Expect = e-112, 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 IQKNWQELIRPNKLQVV-PGSDPSRFATLVAEPLERGFGQTLGNALRRILLSSLQGAAVQ 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|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 = 410 bits (1054), Expect = e-112, Method: Composition-based stats. Identities = 210/339 (61%), Positives = 264/339 (77%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI++NWQ+LI+P + I GQ+ + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIERNWQQLIRPEKPQ-IESGQDSQRKMRLVAEPLERGFGVTLGNALRRVLLSSLQGAAV 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 + E+ LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TE++MLR NFGR Sbjct: 240 IVEE-GKPELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM++P+WPPE++E+LAKK+ED+ Sbjct: 299 KSLNEIKEVLQSMGLSLGMDVPNWPPENVEDLAKKFEDQ 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 = 410 bits (1054), Expect = e-112, Method: Composition-based stats. Identities = 217/339 (64%), Positives = 273/339 (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 E+ + L FN ALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TE++MLR NFGR Sbjct: 259 HVEE-SRPELEFNAALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 317 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P+WPPE+IEELAK+YED+ Sbjct: 318 KSLNEIKEVLAQMGLHLGMEVPNWPPENIEELAKRYEDQ 356 >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 = 409 bits (1052), Expect = e-112, Method: Composition-based stats. Identities = 216/337 (64%), Positives = 270/337 (80%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN + ++V G + +IAEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKL-HVVPGSDPSRFATLIAEPLERGFGQTLGNALRRILLSSLQGAAVQ 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|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 = 407 bits (1047), Expect = e-112, 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 MIHKNWAELIKPTQLDVK-PGNDPLRQATVVAEPLERGFGLTLGNALRRVLLSSLQGAAI 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|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 = 407 bits (1047), Expect = e-112, Method: Composition-based stats. Identities = 212/338 (62%), Positives = 270/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP+ ++ + G + + +IAEPL RGF TLGNALRR+L+SSL+GAAI Sbjct: 1 MIQKNWQELIKPSKLD-VTPGDDSKRFATIIAEPLERGFGLTLGNALRRILLSSLQGAAI 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|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 = 407 bits (1047), Expect = e-111, 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 MIHKNWAELIKPTQLDGK-PGNDPARQATIVAEPLERGFGLTLGNALRRVLMSSLQGAAI 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|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 = 407 bits (1047), Expect = e-111, Method: Composition-based stats. Identities = 211/338 (62%), Positives = 270/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP ++ + G + + +IAEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 1 MIQKNWQELIKPEKLQ-VNPGHDPKRFATVIAEPLERGFGMTLGNALRRILLSSLQGAAV 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 E +++LPF+PALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ++E +MLR NFGR Sbjct: 240 -SETTAIQTLPFSPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSETEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL ++GL LGM +P WPPE+IEELAK++E+ Sbjct: 299 KSLNEIKEVLASLGLHLGMEVPGWPPENIEELAKRFEE 336 >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 = 407 bits (1046), Expect = e-111, Method: Composition-based stats. Identities = 207/338 (61%), Positives = 267/338 (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 VEEE-KKDELPFNKNLLRKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM + +WPPE+IEELAKK E+ Sbjct: 299 KSLNEIKEVLAQMGLHLGMEIANWPPENIEELAKKLEE 336 >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 = 407 bits (1046), Expect = e-111, Method: Composition-based stats. Identities = 209/339 (61%), Positives = 266/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E + G + ++AEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLE-VRPGADPSRVATVVAEPLERGFGLTLGNALRRVLLSSLQGAAI 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|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 = 407 bits (1046), Expect = e-111, 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|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 = 406 bits (1044), Expect = e-111, Method: Composition-based stats. Identities = 218/338 (64%), Positives = 272/338 (80%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKP ++ + G + + ++AEPL RGF TLGN+LRR+L+SSL+GAA+ Sbjct: 4 VIQKNWQELIKPEKLQ-VTAGADPKRLATVVAEPLERGFGMTLGNSLRRILLSSLQGAAV 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 E ++ LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ++E +MLR NFGR Sbjct: 243 -SETAAIQELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSETEMLRTPNFGR 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL +MGL LGM +P WPPE+IEELAK++ED Sbjct: 302 KSLNEIKEVLASMGLHLGMEVPGWPPENIEELAKRFED 339 >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 = 405 bits (1042), Expect = e-111, Method: Composition-based stats. Identities = 208/338 (61%), Positives = 267/338 (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 VSEEKH-EEVPFNKNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM +P+WPPE+IEELAK+ E+ Sbjct: 299 KSLNEIKEVLSQMGLHLGMEIPNWPPENIEELAKRLEE 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 = 405 bits (1041), Expect = e-111, 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 TLGNA+RRVL+SSL+GAA+ Sbjct: 2 VLQKNWQSLIKPEKLEVE-PGAEPSRIATVVAEPLERGFGMTLGNAIRRVLLSSLQGAAV 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 RRVSYKVEQTRVGQVTDYDRLLLTVETNGAVTPEDAVALAARILQDQLQLFINFDEPRTV 240 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E+ LPFN LL+KV+ELELSVRS NCL+ +NIVY+GDL+Q+TE +MLR NFGR Sbjct: 241 RTEEP-QDDLPFNRNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKTEQEMLRTPNFGR 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 = 405 bits (1041), Expect = e-111, Method: Composition-based stats. Identities = 202/338 (59%), 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 VLQKNWQSLIKPEKLEVE-PGGEPLRTATVVAEPLERGFGMTLGNAIRRVLLSSLQGAAV 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 RRVSYKVEPTRVGQVTDYDRLLLTVETNGAVTPEDAVALAARILQDQLQLFINFDEPRPV 240 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E+ LPFN LL+KV+ELELSVRS NCL+ +NIVY+GDL+Q+TE +MLR NFGR Sbjct: 241 RTEEP-QDDLPFNRNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKTEQEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL +MGL LGMN+P WPPE+IE+LAK+ ++ Sbjct: 300 KSLNEIKEVLTSMGLSLGMNVPAWPPENIEDLAKRLDE 337 >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 = 405 bits (1040), Expect = e-111, Method: Composition-based stats. Identities = 195/338 (57%), Positives = 259/338 (76%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M+++NW+ LI+P ++ G + +++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MLERNWRSLIRPEKLDVE-PGADPSRVAVVVAEPLERGFGMTLGNALRRVLLSSLQGAAV 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++ Sbjct: 180 RRVAYQVQPTRVGQRTDYDKLVLTVETDGTVAPEDAVALAARILQDQLQLFINFDEPRER 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E++ LPFN LL+KV+ELELSVRS NCL+ +NIVY+GDL+Q+TE +MLR NFGR Sbjct: 240 KVEEV-QDDLPFNRNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKTEQEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL +MGL LGM +P WPPE+IE+LAKK E+ Sbjct: 299 KSLNEIKEVLASMGLSLGMTVPGWPPENIEDLAKKIEE 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 = 405 bits (1040), Expect = e-111, Method: Composition-based stats. Identities = 206/339 (60%), Positives = 258/339 (76%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI++NWQ+LI+P + G + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIERNWQQLIRPEKPQVEA-GTDASRKMRLVAEPLERGFGVTLGNALRRVLLSSLQGAAV 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 E+ LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLI +TE++MLR NFGR Sbjct: 240 VVEE-GKPELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLILKTESEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +M L LGM++P+WPPE++E+LAKK+ED+ Sbjct: 299 KSLNEIKEVLASMNLSLGMDIPNWPPENVEDLAKKFEDQ 337 >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 = 405 bits (1040), Expect = e-111, 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|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 = 405 bits (1040), Expect = e-111, 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|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 = 405 bits (1040), Expect = e-111, 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|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 = 404 bits (1038), Expect = e-110, Method: Composition-based stats. Identities = 205/338 (60%), Positives = 258/338 (76%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++QKNWQ LIKP +E G E ++AEPL RGF TLGNA+RRVL+SSL+GAA+ Sbjct: 2 VLQKNWQSLIKPEKLEVE-PGAEPSRTATVVAEPLERGFGMTLGNAIRRVLLSSLQGAAV 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 RRVSYKVEQTRVGQVTDYDRLLLTVETNGAVTPEDSVALAARILQDQLQLFINFDEPRAV 240 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E+ LPFN LL+KV+ELELSVRS NCL+ +NIVY+GDL+Q+TE +MLR NFGR Sbjct: 241 RTEEP-QDDLPFNRNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKTEQEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGMN+P WPPE+IE+LAK+ ++ Sbjct: 300 KSLNEIKEVLTAMGLSLGMNVPAWPPENIEDLAKRLDE 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 = 403 bits (1037), Expect = e-110, Method: Composition-based stats. Identities = 209/339 (61%), Positives = 268/339 (79%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E + G + ++AEPL RGF T+GNALRR+L+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLE-VRPGADPSRVATVVAEPLERGFGLTMGNALRRILLSSLQGAAI 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|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 = 403 bits (1037), Expect = e-110, 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|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 = 403 bits (1037), Expect = e-110, 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|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 = 403 bits (1036), Expect = e-110, 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|144900908|emb|CAM77772.1| DNA-directed RNA polymerase alpha chain (RNAP alpha subunit) [Magnetospirillum gryphiswaldense MSR-1] Length = 338 Score = 403 bits (1036), Expect = e-110, Method: Composition-based stats. Identities = 204/338 (60%), Positives = 264/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP+ ++ G + +IAEPL RGF TLGN+LRR+L+SSL+GAA+ Sbjct: 1 MIQKNWQELIKPSKLQVE-PGADAARVATVIAEPLERGFGMTLGNSLRRILLSSLQGAAV 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 VEEE-KKDELPFNKNLLRKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM +P+WPPE+IE+LAKK E+ Sbjct: 299 KSLNEIKEVLSHMGLHLGMEIPNWPPENIEDLAKKLEE 336 >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 = 403 bits (1036), Expect = e-110, 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 MIHKNWAELIKPTQLEVK-PGNDPLRQAVLIAEPLERGFGLTLGNALRRVLLSSLQGAAI 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 SRQD-DDDGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 336 >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 = 403 bits (1035), Expect = e-110, Method: Composition-based stats. Identities = 228/339 (67%), Positives = 274/339 (80%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E + N +IAEPL RGF TLGNALRRVL+SSLRGAAI Sbjct: 1 MIQKNWQELIKPNKVESCA--HDNPNVISVIAEPLERGFGLTLGNALRRVLLSSLRGAAI 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 PVEEADSE-LSFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPAWPPENIDDLAKRYEDQ 336 >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 = 403 bits (1035), Expect = e-110, 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|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 = 403 bits (1035), Expect = e-110, 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 MIHKNWAELIKPTQLDGK-PGNDPARQATLVAEPLERGFGLTLGNALRRVLMSSLQGAAI 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 = 403 bits (1035), Expect = e-110, Method: Composition-based stats. Identities = 205/337 (60%), Positives = 259/337 (76%), 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 RVSYRVEPTRVGQVTDYDRLILNIETNGAVTPEDAVALAARILQDQLGMFINFEEPQRLR 247 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ LPFNP LL+KV+ELELSVRS NCL+ +NIVY+GDL+Q++E +MLR NFGRK Sbjct: 248 AEEP-RPELPFNPNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKSEQEMLRTPNFGRK 306 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM + DWPPE+IEEL K+ ++ Sbjct: 307 SLNEIKEVLSAMGLGLGMVVQDWPPENIEELVKRSDN 343 >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 = 403 bits (1035), Expect = e-110, 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 TRQD-DDDGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKLED 336 >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 = 402 bits (1034), Expect = e-110, Method: Composition-based stats. Identities = 212/339 (62%), Positives = 267/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ G + + +IAEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLDVK-PGNDPMRQATVIAEPLERGFGLTLGNALRRVLLSSLQGAAI 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 GRESED-EGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED+ Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFEDQ 337 >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 = 402 bits (1034), Expect = e-110, 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 MIHKNWAELIKPQQLDVK-PGNDPARQATVVAEPLERGFGLTMGNALRRVLMSSLQGAAI 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 SRQD-DDDGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 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 = 402 bits (1034), Expect = e-110, 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|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 = 402 bits (1034), Expect = e-110, 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|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 = 402 bits (1033), Expect = e-110, 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 MIHKNWAELIKPTQLEVK-PGNDPMRQATVIAEPLERGFGLTLGNALRRVLLSSLQGAAI 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 TS-TSDDDGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED+ Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFEDQ 337 >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 = 402 bits (1033), Expect = e-110, Method: Composition-based stats. Identities = 204/337 (60%), Positives = 259/337 (76%), 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 RVSYRVEPTRVGQVTDYDRLILNIETNGAVTPEDAVALAARILQDQLGMFINFEEPQRLR 241 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ LPFNP LL+KV+ELELSVRS NCL+ +NIVY+GDL+Q++E +MLR NFGRK Sbjct: 242 AEEP-RPELPFNPNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKSEQEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM + DWPPE+IEEL K+ ++ Sbjct: 301 SLNEIKEVLSAMGLGLGMVVQDWPPENIEELVKRSDN 337 >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 = 402 bits (1033), Expect = e-110, 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 MIHKNWAELIKPTQLDVK-PGNDPLRQAVLIAEPLERGFGLTLGNALRRVLLSSLQGAAI 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 SRQD-DDDGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 336 >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 = 402 bits (1033), Expect = e-110, 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 VLQKNWQSLIKPEKLEVE-PGPVASRIATVVAEPLERGFGMTLGNALRRILLSSLQGAAV 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 RRVSYKIEQTRVGQVTDYDKLLLTVETNGAVTPEDSLALAARILQDQLQLFINFDEPR-P 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|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 = 402 bits (1033), Expect = e-110, Method: Composition-based stats. Identities = 210/339 (61%), Positives = 265/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI +NW ELIKP ++ + G + + ++AEPL RGF TLGNALRR+L+SSL+GAAI Sbjct: 1 MIHRNWSELIKPTQLD-VRPGADAARQATIVAEPLERGFGLTLGNALRRILLSSLQGAAI 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|319408741|emb|CBI82398.1| DNA-directed RNA polymerase alpha subunit [Bartonella schoenbuchensis R1] Length = 337 Score = 402 bits (1032), Expect = e-110, 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 MIQKNWQELIKPNKVEFHADGNS--NVVSVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 LVEEP-ASELSFNLALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPAWPPENIDDLAKRYEDQ 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 = 402 bits (1032), Expect = e-110, Method: Composition-based stats. Identities = 213/339 (62%), Positives = 269/339 (79%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++QKNWQ+LIKP+ +E G++ ++AEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 3 VLQKNWQDLIKPSKLEIQT-GRDRSRIATVVAEPLERGFGMTLGNALRRVLLSSLQGAAI 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 KKVSYKVENTREGQILDYDKLTMVVETDGSVRPEDAVALAARILQDQLAVFINFEEPKK- 240 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +E+ L FN ALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 241 AQEEQRHPELAFNAALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 300 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL TMGL LGM +P+WPP++I+ELAK++ED+ Sbjct: 301 KSLNEIKEVLATMGLHLGMEVPNWPPDNIDELAKRFEDQ 339 >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 = 402 bits (1032), Expect = e-110, 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|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 = 402 bits (1032), Expect = e-110, 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 MIHKNWAELIKPTQLEVK-PGNDPARQATVIAEPLERGFGLTLGNALRRILMSSLQGAAI 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 KKVSYDVQPTREGQVLDYDKLTMKVETDGSLTPDDAVAYAARILQDQLSIFVNFDEP-ES 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|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 = 401 bits (1031), Expect = e-110, 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 MIHKNWAELIKPTQLEAK-PGNDPARQATIIAEPLERGFGLTLGNALRRVLMSSLQGAAI 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|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 = 401 bits (1031), Expect = e-110, 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 VIQRNWQSLIKPEKLDVE-PGNEPSRIATIVAEPLERGFGMTLGNAIRRILLSSLQGAAV 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|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 = 401 bits (1031), Expect = e-110, 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 MIHKNWAELIKPTQLDVK-PGFDPSRQATVVAEPLERGFGLTLGNALRRVLMSSLQGAAI 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|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 = 401 bits (1031), Expect = e-110, 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 MIHKNWAELIKPAQLEVK-PGNDPARQATVVAEPLERGFGLTLGNALRRVLMSSLQGAAI 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|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 = 401 bits (1030), Expect = e-110, Method: Composition-based stats. Identities = 221/339 (65%), Positives = 274/339 (80%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E+ + N + +I EPL RGF TLGNALRRVL+SSLRGAAI Sbjct: 1 MIQKNWQELIKPNKVEFCT--HDNPNISSVIVEPLERGFGLTLGNALRRVLLSSLRGAAI 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 IVDESDSE-LTFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPTWPPENIDDLAKRYEDQ 336 >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 = 401 bits (1030), Expect = e-110, 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 MIHKNWAELIKPTQLEVK-PGNDPARQATVIAEPLERGFGLTLGNALRRILMSSLQGAAI 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 GRQD-DDDGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 336 >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 = 400 bits (1029), Expect = e-109, 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 MIHKNWQELIKPTQLEVK-PGNEPARQATVVAEPLERGFGLTLGNALRRVLMSSLQGAAI 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 KKVSYDVQPTREGQVLDYDKLTLKLETDGSVTPDDAVAYAARILQDQLSVFVNFDEP-EA 243 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 244 ARSQSEEDDLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 303 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ DWPPE+IE+LAKK+ED+ Sbjct: 304 KSLNEIKEVLSGMGLHLGMDILDWPPENIEDLAKKFEDQ 342 >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 = 400 bits (1029), Expect = e-109, 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 MIHKNWAELIKPQQLDVK-PGNDPARQATVTAEPLERGFGLTMGNALRRVLMSSLQGAAI 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|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 = 400 bits (1029), Expect = e-109, 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 MIHKNWAELIKPTQLDVK-PGNDPARQATVVAEPLERGFGLTLGNALRRVLMSSLQGAAI 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 GRQD-DDDGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 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 = 400 bits (1029), Expect = e-109, 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 MIHKNWAELIKPTQLDVK-PGNDAGRQATVVAEPLERGFGLTLGNALRRVLMSSLQGAAI 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|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 = 400 bits (1028), Expect = e-109, 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|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 = 400 bits (1028), Expect = e-109, 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 MIHKNWAELIKPQQLDVK-PGNDPARQATVMAEPLERGFGLTLGNALRRVLMSSLQGAAI 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 SRQD-DDDGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPPE+IE+LAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPENIEDLAKKFED 336 >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 = 400 bits (1028), Expect = e-109, 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 MIHKNWAELIKPQQLDVK-PGNDPARQATVTAEPLERGFGLTMGNALRRVLMSSLQGAAI 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|163796895|ref|ZP_02190852.1| lipoyltransferase [alpha proteobacterium BAL199] gi|159177884|gb|EDP62433.1| lipoyltransferase [alpha proteobacterium BAL199] Length = 338 Score = 400 bits (1027), Expect = e-109, Method: Composition-based stats. Identities = 206/338 (60%), Positives = 264/338 (78%), 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 AEAE-EAHDLPFNKNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKTEPEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL +MGL LGM + +WPPE+IEELAK+ E+ Sbjct: 299 KSLNEIKEVLASMGLSLGMEITNWPPENIEELAKRLEE 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 = 400 bits (1027), Expect = e-109, 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 MIHKNWAELIKPQQLDVK-PGNDPARQATVTAEPLERGFGLTMGNALRRVLMSSLQGAAI 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|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 = 399 bits (1026), Expect = e-109, 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|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 = 399 bits (1026), Expect = e-109, 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 MIHKNWAELIKPTQLEAK-PGNDPARQATIIAEPLERGFGLTLGNALRRVLMSSLQGAAI 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|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 = 399 bits (1026), Expect = e-109, 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 MIHKNWAELIKPQQLDVK-PGNDPARQATVIAEPLERGFGLTMGNALRRVLMSSLQGAAI 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 SRQD-DDDGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 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 = 399 bits (1025), Expect = e-109, Method: Composition-based stats. Identities = 227/339 (66%), Positives = 274/339 (80%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E + N +IAEPL RGF TLGNALRRVL+SSLRGAAI Sbjct: 1 MIQKNWQELIKPNKVESFT--HDNSNIISVIAEPLERGFGLTLGNALRRVLLSSLRGAAI 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 PVEEADSE-LSFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 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 = 399 bits (1025), Expect = e-109, 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 MIHKNWAELIKPTQLEVK-PGNDPARQATLVAEPLERGFGLTLGNALRRILMSSLQGAAI 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|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 = 398 bits (1024), Expect = e-109, Method: Composition-based stats. Identities = 204/338 (60%), Positives = 266/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++ KNWQ+LIKP I + G + ++AEPL RGF TLGNALRRVL+SSL+G A+ Sbjct: 9 VLNKNWQDLIKPGKINVV-PGANPKYVASIVAEPLERGFGLTLGNALRRVLLSSLQGGAV 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 VAEE-RIPQLEFNAALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 306 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM +P+WPPE+IEELAK++ED Sbjct: 307 KSLNEIKEVLAGMGLHLGMEVPNWPPENIEELAKRFED 344 >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 = 398 bits (1024), Expect = e-109, 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 MIHKNWAELIKPTQLDVK-PGNDPARQATVVAEPLERGFGLTLGNALRRVLMSSLQGAAI 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 NRQD-DDDGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 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 = 398 bits (1024), Expect = e-109, 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 MIHKNWAELIKPMQLDVK-PGNDPMRQATMVAEPLERGFGLTLGNALRRILMSSLQGAAI 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 KKVSYDVQPTREGQVLDYDKLTMKVETDGSLSPDDAVAYAARILQDQLSIFVNFDEP-ES 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|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 = 398 bits (1024), Expect = e-109, 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 MIHKNWAELIKPTQLDVK-PGNDPSRQATVIAEPLERGFGLTLGNALRRVLMSSLQGAAI 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 SRQD-DDDGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ +WPPE+IE+LAKK+ED+ Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEEWPPENIEDLAKKFEDQ 337 >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 = 398 bits (1023), Expect = e-109, Method: Composition-based stats. Identities = 221/339 (65%), Positives = 273/339 (80%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E+ + N + +I EPL RGF TLGNALRRVL+SSLRGAAI Sbjct: 1 MIQKNWQELIKPNKVEFSK--HDNPNISSVIVEPLERGFGLTLGNALRRVLLSSLRGAAI 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 TVEESNSE-LAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEVPTWPPENIDDLAKRYEDQ 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 = 398 bits (1023), Expect = e-109, 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 MIHKNWAELIKPTQLEVK-PGNDPARQATLVAEPLERGFGLTLGNALRRILMSSLQGAAI 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|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 = 398 bits (1023), Expect = e-109, 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|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 = 398 bits (1022), Expect = e-109, 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 EQE-PDLGFNPVLLKKVDELELSVRSANCLRNDNIVYIGDLIQKSEAEMLRTPNFGRKSL 306 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 EIK VL TMGL LGM++P WPPE+IE+LAKKYED Sbjct: 307 NEIKEVLATMGLHLGMDVPSWPPENIEDLAKKYED 341 >gi|319407401|emb|CBI81052.1| DNA-directed RNA polymerase alpha subunit [Bartonella sp. 1-1C] Length = 337 Score = 397 bits (1021), Expect = e-109, Method: Composition-based stats. Identities = 217/339 (64%), Positives = 277/339 (81%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP+ +E+ + N ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPSKVEF--HAHNDPNIVSVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 LVEEPDSE-LSFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 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 = 397 bits (1021), Expect = e-108, Method: Composition-based stats. Identities = 219/339 (64%), Positives = 277/339 (81%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP+ +E+ + N ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPSKVEF--HAHNDPNIVSVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 LVEEPDSE-LSFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPP++I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPAWPPDNIDDLAKRYEDQ 336 >gi|319405874|emb|CBI79506.1| DNA-directed RNA polymerase alpha subunit [Bartonella sp. AR 15-3] Length = 337 Score = 397 bits (1019), Expect = e-108, Method: Composition-based stats. Identities = 220/339 (64%), Positives = 276/339 (81%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E+ + N ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVEF--HAHNDPNIVSVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 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 LIEEPDPE-LSFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPAWPPENIDDLAKRYEDQ 336 >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 = 396 bits (1018), Expect = e-108, Method: Composition-based stats. Identities = 219/339 (64%), Positives = 275/339 (81%), 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 + E+ L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 239 LIEEP-ASELTFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 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 = 395 bits (1015), Expect = e-108, 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 MIHKNWQELIKPNQLKVQ-PGNDPSRQATVIAEPLERGFGLTMGNALRRILMSSLQGAAI 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 SRAD-EEDELEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK +D Sbjct: 299 KSLNEIKEVLSGMGLHLGMDIVDWPPDNIEDLAKKLDD 336 >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 = 395 bits (1015), Expect = e-108, 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 MIHKNWAELIKPTQLDVK-PGNDPSRQATVVAEPLERGFGLTMGNALRRVLMSSLQGAAI 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 KKVSYDVQPTREGQVLDYDKLTMKVETDGSITPDDAVAFAARILQDQLSIFVNFDEP-ES 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|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 = 394 bits (1013), Expect = e-108, Method: Composition-based stats. Identities = 216/343 (62%), Positives = 269/343 (78%), Gaps = 6/343 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI NWQ+L KPN + + G + + AEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIASNWQDLTKPNQVVFKNGGSRS--KASLTAEPLERGFGLTLGNALRRVLLSSLQGAAI 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 VKEDINVKSLP----FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + + 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|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 = 394 bits (1013), Expect = e-108, 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 MIHKNWAELIKPTQLDVQ-PGNDPSRQATVIAEPLERGFGLTLGNALRRILMSSLQGAAI 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 KKVSYDVQPTREGQVLDYDKLTMKVETDGSITPDDAVAFAARILQDQLSIFVNFDEP-ES 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|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 = 393 bits (1010), Expect = e-107, Method: Composition-based stats. Identities = 164/327 (50%), Positives = 224/327 (68%), Gaps = 1/327 (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 KSLVEIKGVLGTMGLFLGMNLPDWPPE 327 KSL EIK +L MGL LGM L +WPP+ Sbjct: 304 KSLKEIKEILAEMGLSLGMKLENWPPK 330 >gi|9837272|gb|AAG00506.1|AF285111_1 RNA polymerase alpha subunit [Bartonella henselae] Length = 337 Score = 392 bits (1008), Expect = e-107, Method: Composition-based stats. Identities = 219/339 (64%), Positives = 271/339 (79%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELI PN +E+ + N + +I EPL RGF TLGNALRRVL+S LRGAAI Sbjct: 1 MIQKNWQELINPNKVEFSK--HDNPNISSVIVEPLERGFGLTLGNALRRVLLSYLRGAAI 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 TVEESNSE-LAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEVPTWPPENIDDLAKRYEDQ 336 >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 = 392 bits (1008), Expect = e-107, 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|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 = 392 bits (1006), Expect = e-107, 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 MIQKNWQELIKPNKIEFHAHSNP--NVLSVVAEPLERGFGLTLGNALRRILLSSLRGAAI 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|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 = 391 bits (1005), Expect = e-107, 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 KNWQELKKPNSLEVK-PGNDPQRRATFIAEPLERGFGLTLGNALRRVLLSSLQGAAVTSI 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|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 = 391 bits (1005), Expect = e-107, 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 QRQD-EEDDLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ DWPPE+IEELAKK+ED+ Sbjct: 299 KSLNEIKEVLTVMGLHLGMDIVDWPPENIEELAKKFEDQ 337 >gi|296282607|ref|ZP_06860605.1| DNA-directed RNA polymerase subunit alpha [Citromicrobium bathyomarinum JL354] Length = 352 Score = 390 bits (1001), Expect = e-106, 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|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 = 388 bits (996), Expect = e-106, 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|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 = 387 bits (995), Expect = e-105, Method: Composition-based stats. Identities = 219/352 (62%), Positives = 271/352 (76%), Gaps = 16/352 (4%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI NWQ+L KPN + + G+ + + AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIASNWQDLSKPNQVVFKGSGR---TKASLTAEPLERGFGLTLGNALRRVLLSSLQGAAV 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|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 = 385 bits (990), Expect = e-105, Method: Composition-based stats. Identities = 198/344 (57%), Positives = 254/344 (73%), Gaps = 9/344 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN ++ I G ++ + +AEPL RGF TLGNALRRVL+SSL+GAAIT++ Sbjct: 6 KNWQELKKPNTLD-IKDGGDKGRKATFVAEPLERGFGLTLGNALRRVLLSSLQGAAITSI 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|239787588|emb|CAX84056.1| DNA-directed RNA polymerase subunit alpha [uncultured bacterium] Length = 339 Score = 385 bits (989), Expect = e-105, Method: Composition-based stats. Identities = 173/339 (51%), Positives = 244/339 (71%), Gaps = 3/339 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +NW ELIKP +E + G + + + ++AEPL RGF TLGNALRRVL+SSL+GAA++ Sbjct: 1 MYRNWTELIKPRKVELVGEG-DSQYKATLVAEPLERGFGTTLGNALRRVLLSSLQGAAVS 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 AV+I+GVLHE SSI GV ED+TDIILN+KG+ ++M + +T+ GVVTAGDI Sbjct: 60 AVRIEGVLHEFSSIPGVLEDVTDIILNLKGVAIRMRSGVTRTMTLVADKEGVVTAGDIDC 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN-DPIGLITIDALYSPI 180 +DIE+LNP H I L+ + M +TV+ G GYV A + IG 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 D N + +NP L +KV+ELELSVRS NCL+ ++IVY+GDL+Q+TE++ML+ NFGR Sbjct: 240 EGRDDNA-TPKWNPNLFRKVDELELSVRSANCLKNDDIVYIGDLVQKTESEMLKTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL M L LGM+L WPPE++E+LA++++++ Sbjct: 299 KSLNEIKEVLEEMDLSLGMHLDGWPPENLEDLARQFDEE 337 >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 = 385 bits (988), Expect = e-105, 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 KNWQELKKPNSLEIKVAGDGR-RKATFVAEPLERGFGLTLGNALRRVLLSSLQGAAVTSI 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP------ 237 +Y V++ R GQ LDYDKLS+T++TDG++T ED+VA A+RILQDQL +F++FE+ Sbjct: 185 AYKVDNTRVGQELDYDKLSLTVETDGTVTPEDAVAYAARILQDQLQLFVHFEDALPAAAP 244 Query: 238 -----KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 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|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 = 384 bits (987), Expect = e-104, 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 KNWQELKKPNSLEIKVSGDGR-RKATFVAEPLERGFGLTLGNALRRVLLSSLQGAAVTSI 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP------ 237 +Y V++ R GQ LDYDKLS+T++TDG++T ED+VA A+RILQDQL +F++FE+ Sbjct: 185 AYKVDNTRVGQELDYDKLSLTVETDGTVTPEDAVAYAARILQDQLQLFVHFEDALPAAAP 244 Query: 238 -----KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 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|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 = 383 bits (985), Expect = e-104, 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|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 = 383 bits (985), Expect = e-104, Method: Composition-based stats. Identities = 198/344 (57%), Positives = 256/344 (74%), Gaps = 9/344 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN +E I G +++ +T +AEPL RGF TLGNALRRVL+SSL+GAAIT++ Sbjct: 6 KNWQELKKPNALE-IKEGGDKQRKTTFVAEPLERGFGLTLGNALRRVLLSSLQGAAITSI 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VE+AR GQ LDYDKLS+TI+TDG++T ED+VA A+RILQDQL +F++FE+ + + Sbjct: 185 SYKVENARVGQELDYDKLSLTIETDGTVTPEDAVAYAARILQDQLTLFVHFEDGIPQPQS 244 Query: 244 --------DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 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 = 383 bits (984), Expect = e-104, Method: Composition-based stats. Identities = 165/332 (49%), Positives = 224/332 (67%), Gaps = 1/332 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNW++LIKP + + +AEPL RGF TLGN+LRRVL+SSL+GAAIT+V Sbjct: 8 KNWRDLIKPRGL-VVDQESLSNTYGKFVAEPLERGFGITLGNSLRRVLLSSLQGAAITSV 66 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+GV HE +I V ED+TDIILN+K + L++ + K + I GP + AGDI Sbjct: 67 KIEGVEHEFMTIPEVAEDVTDIILNLKEVLLQIHTNEVKTLRIEADGPREIKAGDIIADG 126 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 +E+LNP H I + VRME+T +G GYVPA ++ PIG I IDAL+SPI+KV Sbjct: 127 QVEILNPGHHILTISEGGRVRMEMTARRGRGYVPADKNKVPGQPIGTIPIDALFSPIRKV 186 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y V +AR GQ DYDKLS+ + TDGS+ D+VA A++I+++QL +FINF+E ++ +E Sbjct: 187 NYQVTNARVGQQTDYDKLSLEVWTDGSVAPNDAVAYAAKIVKEQLSIFINFDEAEEPAEE 246 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 V+ N L + V+ELELSVRS NCL+ NI +GDL+Q+TEA+ML+ NFGRKSL Sbjct: 247 VKPVEEQKLNENLFRSVDELELSVRSANCLQNANIKTIGDLVQKTEAEMLKTKNFGRKSL 306 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 EIK +L MGL LGM L +WPP++ + A K Sbjct: 307 KEIKEILAEMGLSLGMKLENWPPKAAPQGAPK 338 >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 = 383 bits (984), Expect = e-104, 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 KVNYRVTNARVGHRTDYDRLILQVWTDGSVKPDDALAYAAKIVKEQLSIFINHEEI-EET 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|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 = 383 bits (983), Expect = e-104, 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 KNWQELKKPNGLEKKS-GGDGKRKATFVAEPLERGFGLTLGNSLRRVLLSSLQGAAVTSI 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|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 = 382 bits (982), Expect = e-104, Method: Composition-based stats. Identities = 196/347 (56%), Positives = 254/347 (73%), Gaps = 12/347 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN++E G + + +AEPL RGF TLGNALRRVL+SSL+GAA+T++ Sbjct: 2 KNWQELKKPNSLEIKASGDG-KRKATFVAEPLERGFGLTLGNALRRVLLSSLQGAAVTSI 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|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 = 382 bits (980), Expect = e-104, Method: Composition-based stats. Identities = 192/345 (55%), Positives = 252/345 (73%), Gaps = 10/345 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NWQEL KP+N+E G + + + +AEPL RGF TLGNALRRVL+SSL+GAAIT++ Sbjct: 6 RNWQELKKPSNLEIKT-GGDGKRKATFVAEPLERGFGLTLGNALRRVLLSSLQGAAITSI 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP------ 237 +Y V++AR GQ LDYDKL++T++TDG++T ED+VA A+RILQDQL +F++FEE Sbjct: 185 AYKVDNARIGQELDYDKLNLTVETDGTVTPEDAVAYAARILQDQLQVFVHFEEAMSDSGL 244 Query: 238 ---KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 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|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 = 381 bits (979), Expect = e-104, Method: Composition-based stats. Identities = 179/340 (52%), Positives = 243/340 (71%), Gaps = 4/340 (1%) 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP-IGLITIDALYSPI 180 IE+LNPDH I L+ + + +TV+ G GYV A+ +R + IG I IDA Y+P+ Sbjct: 121 ETGIEILNPDHHIATLNKSGTLDITMTVTTGKGYVRAQLNREDESYAIGDIPIDASYNPV 180 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE-PKK 239 KKV+Y VE+AR GQ DYDKL M I+T+G +T ED++ALA++ILQDQL FINF++ P Sbjct: 181 KKVAYRVENARVGQQTDYDKLIMDIETNGVVTPEDALALAAKILQDQLNPFINFDDVPTA 240 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 E + +NP L +KV+ELELSVRS NCL+ ++IVY+GDL+Q++E++ML+ NFG Sbjct: 241 HDHEMEDRPQ--WNPNLFRKVDELELSVRSANCLKNDDIVYIGDLVQKSESEMLKTPNFG 298 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 RKSL EIK VL MGL LGM L WPPE+I++L+K++E++ Sbjct: 299 RKSLNEIKEVLDEMGLSLGMTLDTWPPENIDDLSKQFEEE 338 >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 = 380 bits (975), Expect = e-103, 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 KNWQELKKPNALEKKASGNG-KCKATFVAEPLERGFGLTLGNALRRVLLSSLQGAAITAI 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|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 = 379 bits (974), Expect = e-103, Method: Composition-based stats. Identities = 181/337 (53%), Positives = 239/337 (70%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q+NW+ELIKP +E G EPL RGF TLGNALRRVL+SSL+GAAIT Sbjct: 1 MQRNWRELIKPKRLEVETKGLPN-TYGKFECEPLERGFGITLGNALRRVLLSSLQGAAIT 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 EEEVRAEPV-FNDHLFRSVDELELSVRSANCLKNADIRYIGELVQKTEAEMLKTKNFGRK 298 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWP-PESIEELAKKYE 337 SL EIK +L MGL LGM L ++P + IE K+ E Sbjct: 299 SLNEIKEILTEMGLSLGMKLENFPSRDDIENRRKEQE 335 >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 = 379 bits (973), Expect = e-103, Method: Composition-based stats. Identities = 186/338 (55%), Positives = 257/338 (76%), 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 +++ + LPF+ LL+KV+ELELSVRS NCL+ +NIVY+GDL+ +TE +MLR NFGR Sbjct: 240 TQDE-DPDPLPFSRNLLRKVDELELSVRSANCLKNDNIVYIGDLVLKTEHEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL M L LGM++ +WPPE++EELA++ ++ Sbjct: 299 KSLNEIKEVLKGMELELGMDIANWPPENVEELARRLDE 336 >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 = 379 bits (973), Expect = e-103, 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|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 = 378 bits (970), Expect = e-103, 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|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 = 374 bits (961), Expect = e-101, Method: Composition-based stats. Identities = 166/337 (49%), Positives = 229/337 (67%), Gaps = 1/337 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI +NW++LI+P I I + EPL RGF T+GN+LRRVL+SSL+GAA Sbjct: 10 MIARNWRDLIRPKGI-SIDAESGTQFYAKFTCEPLERGFGITIGNSLRRVLLSSLQGAAA 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 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 KSL EIK +L MGL LGM + +WP A++ + Sbjct: 309 KSLKEIKEILANMGLSLGMKIDNWPQLLERWKAQQAQ 345 >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 = 371 bits (954), Expect = e-101, Method: Composition-based stats. Identities = 197/321 (61%), Positives = 253/321 (78%), Gaps = 1/321 (0%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + G + + ++AEPL RGF TLGNALRR+LMSSL+GAAITAVQID VLHE SSI G Sbjct: 1 MKPGNDPSRQATVVAEPLERGFGLTLGNALRRILMSSLQGAAITAVQIDNVLHEFSSISG 60 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+TD++LN+KG+ ++M + KR+ + +GPGVVTAGDI IE+LN DHV+C+L Sbjct: 61 VREDVTDVVLNLKGVAIRMEVEGPKRLQVQAKGPGVVTAGDISESAGIEILNKDHVLCHL 120 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D A + MELTV+ G GYV A+ ++ E+ PIG++ IDA+YSP+KKVSY V+ REGQVLD Sbjct: 121 DEGAELYMELTVNTGKGYVAAEKNKPEDAPIGMMAIDAIYSPVKKVSYDVQPTREGQVLD 180 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 YDKL+M ++TDGSIT +D+VA A+RILQDQL +F+NF+EP+ + + L FNP LL Sbjct: 181 YDKLTMKVETDGSITPDDAVAFAARILQDQLSIFVNFDEPESAQAAN-DDDGLEFNPLLL 239 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 KKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGRKSL EIK VL MGL L Sbjct: 240 KKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGRKSLNEIKEVLSGMGLHL 299 Query: 318 GMNLPDWPPESIEELAKKYED 338 GM++ DWPP++IE+LAKK+ED Sbjct: 300 GMDVEDWPPDNIEDLAKKFED 320 >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 = 370 bits (951), Expect = e-100, Method: Composition-based stats. Identities = 137/310 (44%), Positives = 200/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E N + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDG Sbjct: 3 EFEKPN----ITKVDESTNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDG 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|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 = 370 bits (950), Expect = e-100, Method: Composition-based stats. Identities = 142/313 (45%), Positives = 207/313 (66%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDG Sbjct: 3 EIEKPR-IETVEIS-EDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 AKLAELGLSLRKD 313 >gi|2896137|gb|AAC03116.1| DNA-directed RNA polymerase alpha chain [Pseudomonas aeruginosa] Length = 358 Score = 370 bits (949), Expect = e-100, Method: Composition-based stats. Identities = 152/338 (44%), Positives = 228/338 (67%), Gaps = 9/338 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ Q R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQSSVNEFLTPRHIDVQVVSQ---TRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++N DHVI NL + + M+L V++G GY PA +++ D IG + +DA +S Sbjct: 118 DHDVEIINGDHVIANLADNGALNMKLKVARGRGYEPADARQSDEDESRSIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++VSY VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRVSYVVENARVEQRTNLDKLVLDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V E+ + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EPVVEEQEDE---IDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKY 336 G+KSL EIK VL + GL LGM L +WPP S+ E + + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLTERRQGH 332 >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 = 370 bits (949), Expect = e-100, 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 MYKNWRDLIKPKRLQVDSRS-LTANYGKFFAEPFERGFGTTIGNSLRRILLSSLQGAAIT 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|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 = 369 bits (948), Expect = e-100, Method: Composition-based stats. Identities = 138/310 (44%), Positives = 200/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E N + EPL RG+ TLGN+LRR+L+SSL GAAI+++QIDG Sbjct: 3 EFEKPN----ITKVDESTNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAISSIQIDG 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|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 = 369 bits (948), Expect = e-100, Method: Composition-based stats. Identities = 143/313 (45%), Positives = 207/313 (66%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDG Sbjct: 3 EIEKPR-IETVEIS-EDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 AKLAELGLSLRKD 313 >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 = 369 bits (947), Expect = e-100, Method: Composition-based stats. Identities = 142/313 (45%), Positives = 207/313 (66%), 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-KIETVELS-EDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 AKLAELGLSLRKD 313 >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 = 369 bits (947), Expect = e-100, 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|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 = 368 bits (946), Expect = e-100, Method: Composition-based stats. Identities = 188/339 (55%), Positives = 257/339 (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+ Sbjct: 179 KRVSYNVSNTREGLSIDYDKLTMEIETNGSVASDDCLAFAARILQDQLSLFVNFDEPKEV 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V + + FN LL++V+ELELSVRS NCL+ +NI+Y+GDL+Q+TE +MLR NFGR Sbjct: 239 VVQPTQSEP-EFNKNLLRRVDELELSVRSMNCLKNDNIIYIGDLVQKTEGEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK V+ M L+LG+ +P+WPPE+I EL+KK ED+ Sbjct: 298 KSLNEIKEVISGMSLYLGIEIPNWPPENISELSKKLEDE 336 >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 = 368 bits (946), Expect = e-100, Method: Composition-based stats. Identities = 143/313 (45%), Positives = 206/313 (65%), 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-KIETVELS-EDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 AKLAELGLSLRKD 313 >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 = 368 bits (946), Expect = e-100, 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|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 = 368 bits (946), Expect = e-100, Method: Composition-based stats. Identities = 128/314 (40%), Positives = 204/314 (64%), Gaps = 2/314 (0%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E+ KP I+ + L ++ + EPL RG+ TLGNALRRVL+SSL GAA+T+V+I Sbjct: 1 MSEMEKPT-IQTVELS-DDGTYGRFVVEPLERGYGITLGNALRRVLLSSLPGAAVTSVRI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 +GVLHE S++ GV ED T+IILN+K + +KM D + + I +G G V A DI T D+ Sbjct: 59 EGVLHEFSTLPGVVEDTTEIILNLKELAIKMYTDEPQVLRIEAQGEGEVRAADIITPPDV 118 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++N DH+I L+ D + ME+TV +G GYVPA ++ + IG+I +D++++PI+KV++ Sbjct: 119 EIVNGDHLIATLEPDGRLFMEMTVQRGRGYVPADRNKDPDRSIGVIPVDSIFTPIRKVNF 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R G+V DYD+L++ + T+G+I +++ + A++IL D L +F+ + + + Sbjct: 179 QVENTRVGKVTDYDRLTLEVWTNGTIAPDEAASQAAQILTDHLALFLTLTDQARGTGTAV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L ++EL+LSVRS NCL+ I +G+L+++T DM+R+ N G+KSL E Sbjct: 239 EKEDDARAKLLEMSIDELDLSVRSYNCLKRAGINTIGELVEKTPEDMMRVRNLGKKSLEE 298 Query: 306 IKGVLGTMGLFLGM 319 ++ L +GL L Sbjct: 299 VEEKLAALGLSLKQ 312 >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 = 209/313 (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-KIETVEL-TDNGTYGRFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 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|49087442|gb|AAT51459.1| PA4238 [synthetic construct] Length = 334 Score = 368 bits (945), Expect = e-100, Method: Composition-based stats. Identities = 152/336 (45%), Positives = 228/336 (67%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ Q R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQSSVNEFLTPRHIDVQVVSQ---TRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++N DHVI NL + + M+L V++G GY PA +++ D IG + +DA +S Sbjct: 118 DHDVEIINGDHVIANLADNGALNMKLKVARGRGYEPADARQSDEDESRSIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++VSY VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRVSYVVENARVEQRTNLDKLVLDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V E+ + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EPVVEEQEDE---IDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >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 = 368 bits (944), Expect = e-100, 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|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 = 367 bits (943), Expect = 1e-99, Method: Composition-based stats. Identities = 152/336 (45%), Positives = 228/336 (67%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ Q R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQSSVNEFLTPRHIDVQVVSQ---TRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++N DHVI NL + + M+L V++G GY PA +++ D IG + +DA +S Sbjct: 118 DHDVEIINGDHVIANLADNGALNMKLKVARGRGYEPADARQSDEDESRSIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++VSY VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRVSYVVENARVEQRTNLDKLVLDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V E+ + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EPVVEEQEDE---IDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >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 = 366 bits (941), Expect = 2e-99, Method: Composition-based stats. Identities = 164/325 (50%), Positives = 225/325 (69%), Gaps = 4/325 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 + KNW++LI+P +E Q+ +N EPL RGF TLGN+LRRVL+SSL+GAA Sbjct: 17 FMAKNWRDLIRPRMLET---EQKTDNYGKFSCEPLERGFGTTLGNSLRRVLLSSLQGAAF 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 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL EIK +L MGL LGM L +WP Sbjct: 313 KSLKEIKEILAEMGLSLGMKLDNWP 337 >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 = 366 bits (941), Expect = 2e-99, Method: Composition-based stats. Identities = 150/336 (44%), Positives = 227/336 (67%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ + R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQEVS---PTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++N DHVI NL + + M+LTV++G GY PA +++ D IG + +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 EPVVVEQEDE---IDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >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 = 366 bits (940), Expect = 3e-99, 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|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 = 366 bits (940), Expect = 3e-99, Method: Composition-based stats. Identities = 163/332 (49%), Positives = 225/332 (67%), Gaps = 1/332 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNW++LIKP + + +AEPL RGF TLGN+LRRVL+SSL+GAAIT+V Sbjct: 8 KNWRDLIKPRGL-VVDQDSLSNTYGKFVAEPLERGFGITLGNSLRRVLLSSLQGAAITSV 66 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +++GV HE +I V ED+TDIILN+K + L++ + K + I GP + AGD+ T Sbjct: 67 KVEGVEHEFMTIPEVAEDVTDIILNLKEVLLQIHTNDVKTIRIEADGPKEIKAGDLITDA 126 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 +EVLNP H I + VR E+T +G GYVPA+ ++ PIG I IDAL+SPI+KV Sbjct: 127 QVEVLNPGHHILTISEGGRVRAEMTARRGRGYVPAERNKVPGSPIGTIPIDALFSPIRKV 186 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y V +AR GQ DYDKL++ + TDGS+ D+VA A++I+++QL +FINF+E ++ +E Sbjct: 187 NYQVTNARVGQQTDYDKLTLEVWTDGSVAPADAVAFAAKIVKEQLSIFINFDEAEEPAEE 246 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 V+ N L + V+ELELSVRS NCL+ NI +GDL+Q+TEA+ML+ NFGRKSL Sbjct: 247 IKPVEEQKLNENLFRSVDELELSVRSANCLQNANIKTIGDLVQKTEAEMLKTKNFGRKSL 306 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 EIK +L MGL LGM L +WPP++ + A K Sbjct: 307 KEIKEILAEMGLSLGMKLENWPPKAAPQGAPK 338 >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 = 366 bits (939), Expect = 3e-99, Method: Composition-based stats. Identities = 136/313 (43%), Positives = 209/313 (66%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + ++ + + EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDG Sbjct: 3 EIEKP-KIEVVEVS-DDNSYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVRTVQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 EKLAELGLSLRSD 313 >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 = 366 bits (939), Expect = 4e-99, Method: Composition-based stats. Identities = 161/324 (49%), Positives = 221/324 (68%), Gaps = 1/324 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNW++LIKP + + +AEPL RGF TLGN+LRRVL+SSL+GAAIT+V Sbjct: 8 KNWRDLIKPRGL-VVDQDSLSNTYGKFVAEPLERGFGITLGNSLRRVLLSSLQGAAITSV 66 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +++GV HE +I V ED+TDIILN+K + L++ + K + I GP + AGD+ T Sbjct: 67 KVEGVEHEFMTIPEVAEDVTDIILNLKEVLLQIHTNDVKTIRIEADGPKEIKAGDLITDA 126 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 +EVLNP H I + VR E+T +G GYVPA+ ++ PIG I IDAL+SPI+KV Sbjct: 127 QVEVLNPGHHILTISEGGRVRAEMTARRGRGYVPAERNKIPGSPIGTIPIDALFSPIRKV 186 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y V +AR GQ DYDKL++ + TDGS+ D+VA A++I+++QL +FINF+E ++ +E Sbjct: 187 NYQVTNARVGQQTDYDKLTLEVWTDGSVAPADAVAFAAKIVKEQLSIFINFDEAEEPAEE 246 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 V+ N L + V+ELELSVRS NCL+ NI +GDL+Q+TEA+ML+ NFGRKSL Sbjct: 247 IKPVEEQKLNENLFRSVDELELSVRSANCLQNANIKTIGDLVQKTEAEMLKTKNFGRKSL 306 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPE 327 EIK +L MGL LGM L +WPP+ Sbjct: 307 KEIKEILAEMGLSLGMKLENWPPK 330 >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 = 365 bits (938), Expect = 4e-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-KIETVDLN-EDGTYGRFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 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|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 = 365 bits (938), Expect = 4e-99, 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|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 = 365 bits (936), Expect = 8e-99, Method: Composition-based stats. Identities = 129/314 (41%), Positives = 202/314 (64%), Gaps = 2/314 (0%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E+ KP IE + + E+ + EPL RG+ TLGNALRRVL+SSL GAA+T+V+I Sbjct: 1 MNEMEKPT-IETVEIS-EDGTYGRFVVEPLERGYGITLGNALRRVLLSSLPGAAVTSVRI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 +GVLHE S+I GV ED T+IILN+K + +KM D + + + +G G V A DI ++ Sbjct: 59 EGVLHEFSTIPGVVEDTTEIILNLKELAIKMHTDEPQILRVEAQGEGEVRAADIIAPPEV 118 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++N DH+I L+ D + ME+TV +G GYVPA ++ + IGLI +D++++PI+KV++ Sbjct: 119 EIVNGDHLIATLEHDGRLFMEMTVQRGRGYVPADRNKGPDRSIGLIPVDSIFTPIRKVNF 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R G+V DYD+L++ I T+G++ +++ + A+RIL D L +F+ + + Sbjct: 179 QVENTRVGKVTDYDRLTLEIWTNGTVAPDEAASQAARILTDHLALFLTLTDQTRGAGTAA 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L ++EL+LSVRS NCL+ I +G+L+++T DM+R+ N G+KSL E Sbjct: 239 EKEDDARAKLLEMSIDELDLSVRSYNCLKRAGINTIGELVEKTPEDMMRVRNLGKKSLEE 298 Query: 306 IKGVLGTMGLFLGM 319 ++ L +GL L Sbjct: 299 VEEKLAALGLSLKQ 312 >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 = 365 bits (936), Expect = 8e-99, Method: Composition-based stats. Identities = 157/336 (46%), Positives = 229/336 (68%), 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 PVRRVAYSVDNARVEQRTDLDKLVLDIESNGTIDPEEAIRRAATILQQQIAVFVALE--- 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E + + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 235 SESEAPVVEEEDEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL GL LGM L +WPP S+++ +K Sbjct: 295 GKKSLTEIKDVLAQRGLSLGMRLENWPPASLKDDSK 330 >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 = 364 bits (935), Expect = 1e-98, 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|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 = 364 bits (935), Expect = 1e-98, Method: Composition-based stats. Identities = 157/340 (46%), Positives = 227/340 (66%), Gaps = 3/340 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW++LIKP ++ I +AEP RGF TLGN+LRRVL+SSL+GAAIT Sbjct: 1 MYKNWRDLIKPKQLQ-IEKETLTTTYGKFVAEPFERGFGTTLGNSLRRVLLSSLQGAAIT 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|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 = 364 bits (934), Expect = 1e-98, 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|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 = 364 bits (934), Expect = 1e-98, Method: Composition-based stats. Identities = 151/336 (44%), Positives = 228/336 (67%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVVS---PTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + + M+LTV++G GY PA +T+ D IG + +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 EPVVVEQEDE---IDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >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 = 363 bits (933), Expect = 2e-98, 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-IETVEVS-EDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDS 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|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 = 363 bits (933), Expect = 2e-98, Method: Composition-based stats. Identities = 147/336 (43%), 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 MQSSVNEFLTPRHIDVQVVS---PTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++N DH+I NL + + M+L V++G GY PA +++ D IG + +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 EPVVVEQEDE---IDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >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 = 363 bits (933), Expect = 2e-98, Method: Composition-based stats. Identities = 148/336 (44%), Positives = 227/336 (67%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQSSVNEFLTPRHIDVQVVS---PTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + + M+L V++G GY PA +++ D IG + +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 EPVVVEQEDE---IDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >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 (933), Expect = 2e-98, Method: Composition-based stats. Identities = 142/313 (45%), Positives = 207/313 (66%), Gaps = 2/313 (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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 AKLEELGLGLRKD 313 >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 = 363 bits (933), Expect = 2e-98, Method: Composition-based stats. Identities = 142/313 (45%), Positives = 206/313 (65%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDG Sbjct: 3 EIEKP-KIETVEIS-EDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 AKLEELGLSLRKD 313 >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 = 363 bits (933), Expect = 2e-98, 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 MQNSASEFLKPRLIDVQPVS---ATHARVSMEPFERGYAHTLGNALRRILLSSMPGFAPT 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 VRRVSFGVESARVEQRTDLDRLVLDIETNGVIEPEQAVRNAARILMDQLSIFADLQGTAV 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 E++ K+ P +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G Sbjct: 238 ---EEVVEKAPPIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTETELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 RKSL EIK VL + GL LGM L +WPP +E+ Sbjct: 295 RKSLNEIKEVLASKGLTLGMKLENWPPAGLEK 326 >gi|311029077|ref|ZP_07707167.1| DNA-directed RNA polymerase subunit alpha [Bacillus sp. m3-13] Length = 314 Score = 363 bits (933), Expect = 2e-98, Method: Composition-based stats. Identities = 137/313 (43%), Positives = 204/313 (65%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + ++ N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEIS-DDANYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 HKLEELGLGLRKD 313 >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 = 363 bits (933), Expect = 2e-98, 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|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 = 130/313 (41%), Positives = 206/313 (65%), Gaps = 4/313 (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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 EKLHALGLSLRKD 311 >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 = 363 bits (932), Expect = 2e-98, Method: Composition-based stats. Identities = 154/336 (45%), Positives = 225/336 (66%), Gaps = 8/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ E + P +I+ + + R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQRSVNEFLSPRHIDVQEISK---TRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+I+GV ED+ +I+LN+KGI + + + +T+ K G VTAGDIQ Sbjct: 58 EVEIDGVLHEYSTIEGVQEDVIEILLNLKGIAVLLHNNDEAVLTLSKSEAGPVTAGDIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 178 D+E+ NPDHVI +L+ A + M+LT+ +G GYVPA E IG + +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 DQAKDEPEEPEI--DPILLRPVDDLELTVRSANCLKAEQIYYIGDLIQRTEVELLKTPNL 295 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S++ K Sbjct: 296 GKKSLTEIKDVLASKGLSLGMRLENWPPASLKNDDK 331 >gi|330891907|gb|EGH24568.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. mori str. 301020] Length = 333 Score = 363 bits (932), Expect = 2e-98, Method: Composition-based stats. Identities = 149/336 (44%), Positives = 228/336 (67%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVVS---PTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + V+ M+LTV++G GY PA +++ D IG + +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 EPVVIEQEDE---IDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >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 = 363 bits (932), Expect = 2e-98, Method: Composition-based stats. Identities = 150/336 (44%), Positives = 229/336 (68%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVVS---PTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + V+ M+LTV++G GY PA +++ D IG + +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 EPVVIEQEDE---IDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >gi|325560586|gb|ADZ31263.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus sp. SL1108] Length = 298 Score = 363 bits (932), Expect = 2e-98, 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|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 = 363 bits (931), Expect = 3e-98, 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 MQNSASEFLKPRLIDVQPVS---ATQARVAMEPFERGYAYTLGNALRRILLSSMPGFAPT 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|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 = 363 bits (931), Expect = 3e-98, Method: Composition-based stats. Identities = 149/336 (44%), Positives = 228/336 (67%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVVS---PTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + + M+LTV++G GY PA +++ D IG + +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 EPVVVEQEDE---IDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >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 = 363 bits (931), Expect = 3e-98, Method: Composition-based stats. Identities = 145/336 (43%), Positives = 222/336 (66%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ + R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQSSVNEFLTPRHIDVQAVS---PTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++N HVI NL + + M+L V++G GY PA +++ D IG + +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 APVVVEQEDE---IDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >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 = 363 bits (931), Expect = 3e-98, Method: Composition-based stats. Identities = 150/336 (44%), Positives = 229/336 (68%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVVS---PTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + V+ M+LTV++G GY PA +++ D IG + +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 EPVVIEQEDE---IDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 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 = 363 bits (931), Expect = 3e-98, Method: Composition-based stats. Identities = 149/336 (44%), Positives = 228/336 (67%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVVS---PTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + + M+LTV++G GY PA +++ D IG + +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 EPVVIEQEDE---IDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >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 = 362 bits (930), Expect = 4e-98, Method: Composition-based stats. Identities = 156/331 (47%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 178 +D+E+ NP+HVIC+L + V M L V++G GY PA E IG + +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 EPE---RVEEEEEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASL 325 >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 = 362 bits (930), Expect = 4e-98, Method: Composition-based stats. Identities = 138/313 (44%), Positives = 205/313 (65%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L E+ + EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKP-KIETVELN-EDAKYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 HKLEELGLGLRKD 313 >gi|330879400|gb|EGH13549.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. glycinea str. race 4] Length = 333 Score = 362 bits (929), Expect = 5e-98, Method: Composition-based stats. Identities = 149/336 (44%), Positives = 228/336 (67%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVVS---PTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + V+ M+LTV++G GY PA +++ D IG + +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 EPVVIEQEDE---IDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >gi|330430070|gb|AEC21404.1| DNA-directed RNA polymerase alpha chain [Pusillimonas sp. T7-7] Length = 329 Score = 362 bits (929), Expect = 5e-98, Method: Composition-based stats. Identities = 150/327 (45%), Positives = 213/327 (65%), Gaps = 6/327 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 Q +KP +IE +G+ N ++ EP RG+ HTLGNALRR+L+SS+ G A T VQ+ Sbjct: 4 QGFLKPRSIEVEPVGK---NHARVVMEPFERGYGHTLGNALRRILLSSMTGYAPTEVQMT 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKV 183 ++NPDHVI NL + M++ V +G GYVP +D IG 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 VEIKGVLGTMGLFLGMNLPDWPPESIE 330 EIK VL GL LGM L +WPP +E Sbjct: 301 NEIKEVLAARGLTLGMKLENWPPLGLE 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 = 362 bits (929), Expect = 5e-98, 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-KIETVSVN-EDGSYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 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|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 = 361 bits (928), Expect = 6e-98, Method: Composition-based stats. Identities = 148/336 (44%), Positives = 227/336 (67%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVVS---PTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + + M+L V++G GY PA +++ D IG + +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 EPVVVEQEDE---IDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 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 = 361 bits (928), Expect = 6e-98, Method: Composition-based stats. Identities = 188/338 (55%), Positives = 250/338 (73%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++Q NW+ LIKPN ++ + G + +I EPL RG+ TLGNALRR+L+SSL+GAA Sbjct: 1 VLQNNWEALIKPNKLD-VRYGTPDLRHADIIVEPLERGYGLTLGNALRRILLSSLQGAAF 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 KRVSYKIEQTRVGQRTDFDKLIMSISTDGSLKPDDAVALAARIMQDQLYSFINFDEPKTI 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 K++ ++ LPFNP LL+KV+ELELSVRS NCL+ ENI+Y+GDL+Q++E +MLR NFGR Sbjct: 240 DKKESKIE-LPFNPNLLRKVDELELSVRSANCLKNENIIYIGDLVQKSEHEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EI+ VL TMGL LGM +P+WPPE+IEEL KK ED Sbjct: 299 KSLNEIREVLETMGLTLGMIIPNWPPENIEELTKKLED 336 >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 = 361 bits (928), Expect = 6e-98, Method: Composition-based stats. Identities = 139/311 (44%), Positives = 204/311 (65%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE V ++ I EPL RG+ TLGN+LRR+L+SSL GAA+ +++IDG Sbjct: 3 EIEKPR-IE-CVSNSDDNTYGKFIVEPLERGYGITLGNSLRRILLSSLPGAAVNSIKIDG 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|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 = 361 bits (928), Expect = 7e-98, Method: Composition-based stats. Identities = 183/337 (54%), Positives = 251/337 (74%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y E N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNKVAYENF-PETNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 +++ Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGAVLPEMAVGLAARILQEQLQLFISFEEQEEDK 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTEADMLR NFGRK Sbjct: 243 Q--VKTDALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTEADMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+++EL+K+YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENMQELSKRYED 337 >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 = 361 bits (927), Expect = 7e-98, Method: Composition-based stats. Identities = 137/313 (43%), Positives = 205/313 (65%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L E+ + EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKP-KIETVELN-EDAKYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 HKLEELGLGLRKD 313 >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 (927), Expect = 7e-98, Method: Composition-based stats. Identities = 137/313 (43%), Positives = 205/313 (65%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L E+ + EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKP-KIETVELN-EDAKYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 HKLEELGLGLRKD 313 >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 = 361 bits (927), Expect = 8e-98, Method: Composition-based stats. Identities = 142/312 (45%), Positives = 203/312 (65%), 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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSY 185 LNPD IC + A M +T + G GYV A+ ++ ++ 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|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 = 361 bits (927), Expect = 8e-98, Method: Composition-based stats. Identities = 155/332 (46%), Positives = 226/332 (68%), Gaps = 9/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E + P +I+ + + R ++ EPL RGF HTLGNALRR+L+SS+ G AI Sbjct: 1 MQTAVNEFLTPRHID---VSEITPTRARVVLEPLERGFGHTLGNALRRILLSSMAGCAIV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGVLHE S+I+GV ED+ +I+LN+KG+ + M G +T+ K+GPGVVTAGDIQ Sbjct: 58 EAEIDGVLHEYSAIEGVREDVIEILLNLKGVAVVMHGKDSTVLTLSKKGPGVVTAGDIQV 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYS 178 +D+E+ NPDHVI N+ + ++M LT+++G GY PA R ++D G + +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 + K +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 QSA---PEQKEEAIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 G+KSL EIK VL + GL LGM L +WPP S++ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLK 326 >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 = 361 bits (927), Expect = 8e-98, 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-IETVEVS-EDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 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|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 = 361 bits (927), Expect = 8e-98, Method: Composition-based stats. Identities = 139/311 (44%), Positives = 204/311 (65%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE V ++ I EPL RG+ TLGN+LRR+L+SSL G+A+ +++IDG Sbjct: 3 EIEKPR-IE-CVSNSDDNTYGKFIVEPLERGYGITLGNSLRRILLSSLPGSAVNSIKIDG 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|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 = 361 bits (927), Expect = 9e-98, Method: Composition-based stats. Identities = 137/313 (43%), Positives = 205/313 (65%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L E+ + EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKP-KIETVELN-EDAKYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 HKLEELGLGLRKD 313 >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 = 361 bits (927), Expect = 9e-98, Method: Composition-based stats. Identities = 183/337 (54%), Positives = 251/337 (74%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y + E N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNALIKPNKVAYENVS-ETNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 +++ Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDLLPEMAVGLAARILQEQLQLFISFEEQEEDK 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTEADMLR NFGRK Sbjct: 243 Q--VKTDALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTEADMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L + L GM++PDWPPE+I+EL+K+YED Sbjct: 301 SLNEIKEILAKLNLRFGMDVPDWPPENIQELSKRYED 337 >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 = 361 bits (927), Expect = 9e-98, Method: Composition-based stats. Identities = 125/307 (40%), Positives = 187/307 (60%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S++ GV Sbjct: 11 EETVNETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFSTVPGVK 70 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+T+IILN+K + + D + + K+GPG VTA DI + + V NPD I +L+ Sbjct: 71 EDVTEIILNLKELVVSSEEDEPVTMYLRKQGPGEVTAADIVPPSGVTVHNPDLHIASLNG 130 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + +EL V +G GYVPA ++ IG I ID++YSP+ KV+Y VE+ R Q D+D Sbjct: 131 KGKLEIELVVERGRGYVPALQNKQAGAEIGRIPIDSIYSPVLKVTYKVEATRVEQRTDFD 190 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + ++T SIT D+VA A + L + G+ + ++ + + A Sbjct: 191 KLVLDVETKPSITPRDAVASAGKTLVELFGLARELNVDAEGIEIGPSPQEADTIAAYAMP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L +GL L Sbjct: 251 IEDLDLTVRSYNCLKREGIHTVGELVSRSEADLLDIRNFGAKSIDEVKMKLAGLGLTLKD 310 Query: 320 NLPDWPP 326 + P + P Sbjct: 311 SPPGFDP 317 >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 = 361 bits (927), Expect = 9e-98, Method: Composition-based stats. Identities = 126/319 (39%), Positives = 197/319 (61%), Gaps = 4/319 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V ENR+ + EPL GF +T+GN+LRR L+SS+ GAA+T+++I+GVLH Sbjct: 6 RPTLTEEVV----SENRSRFVLEPLEPGFGYTIGNSLRRTLLSSIPGAAVTSIRIEGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TDIILN+KG+ + D + + K+GPG VTAGDI +EV NP Sbjct: 62 EFTTVPGVKEDVTDIILNLKGLVVSSVEDEPVTMYLKKQGPGAVTAGDIVPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLHIATLNEKGRLEIELVVERGRGYVPAGLNKDAGHEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T S+T D++A A + L + G+ E + ++ + Sbjct: 182 RVHQRTDFDRLVLDVETKNSMTARDALASAGKTLVELFGLARELNEEAEGIEIGPSPAEA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 A +++L+LSVRS NCL+ E + +G+L+ R+E+D+L + NFG+KS+ E+K L Sbjct: 242 DHIAAYGMPIDDLDLSVRSYNCLKREGVHTVGELVARSESDLLDIRNFGQKSIDEVKVKL 301 Query: 311 GTMGLFLGMNLPDWPPESI 329 +GL L P + P S+ Sbjct: 302 VELGLSLKDAPPGFDPASV 320 >gi|330969796|gb|EGH69862.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. aceris str. M302273PT] Length = 333 Score = 361 bits (927), Expect = 9e-98, Method: Composition-based stats. Identities = 150/336 (44%), Positives = 229/336 (68%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVVS---PTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + V+ M+LTV++G GY PA +++ D IG + +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 EPVVIEQEDE---IDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLVSRGLSLGMRLDNWPPASLKKDDK 330 >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 = 361 bits (926), Expect = 9e-98, Method: Composition-based stats. Identities = 125/309 (40%), Positives = 187/309 (60%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV Sbjct: 10 TEDSVTETRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+TDIILN+K + + D + + K+GPG VTAGDI + V NPD I L+ Sbjct: 70 KEDVTDIILNLKELVVSSEEDEPVTMYLRKQGPGPVTAGDIVPPAGVTVHNPDLHIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+ Sbjct: 130 DKGRLEVELVVERGRGYVPAMQNKATGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T SIT D++A A + L + G+ + ++ + + A Sbjct: 190 DKLVLDVETKPSITPRDALASAGKTLVELFGLARELNVDAEGIEIGPSPQEADTIAAFAM 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +EEL+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L +GL L Sbjct: 250 PIEELDLTVRSYNCLKREGIHTVGELVGRSEADLLDIRNFGAKSIDEVKMKLVGLGLALK 309 Query: 319 MNLPDWPPE 327 + P + P Sbjct: 310 DSPPGFDPS 318 >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 = 361 bits (926), Expect = 1e-97, 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-LETVEIN-ESGTYGKFVIEPLERGYGTTLGNALRRILLSSLPGAACTSVKIDG 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|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 = 361 bits (926), Expect = 1e-97, Method: Composition-based stats. Identities = 180/335 (53%), Positives = 258/335 (77%), 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 EVSTEP-EFNKNLLRKVDELELSVRSMNCLKNDNIIYIGDLVQKSEGEMLRTPNFGRKSL 305 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 EIK VL M L+LGM +P+WPP++I E++KK E+ Sbjct: 306 NEIKEVLTGMSLYLGMEIPNWPPDNIAEMSKKLEE 340 >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 = 361 bits (926), Expect = 1e-97, Method: Composition-based stats. Identities = 137/313 (43%), Positives = 205/313 (65%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L E+ + EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKP-KIETVELN-EDAKYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 HKLEELGLGLRKD 313 >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 = 361 bits (926), Expect = 1e-97, Method: Composition-based stats. Identities = 132/310 (42%), Positives = 199/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E N + EPL RG+ TLGN+LRR+L++SL G A+T +QIDG Sbjct: 3 EFEKPN----ITKVDESTNYGKFVVEPLERGYGTTLGNSLRRILLASLPGTAVTDIQIDG 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|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 = 360 bits (925), Expect = 1e-97, Method: Composition-based stats. Identities = 121/322 (37%), Positives = 189/322 (58%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++I+G LHE +++ GV Sbjct: 10 TEETISEQRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIEGTLHEFTTVPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+IILN+KG+ + D + + K+GPG VTA DI +EV NP+ I L+ Sbjct: 70 KEDVTEIILNLKGLVVSSDSDEPVTMYLRKQGPGEVTAADIAPPAGVEVHNPELHIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+ Sbjct: 130 GKGRLEIELVVERGRGYVPAPQNKQPGQEIGRIPVDSIYSPVLKVTYAVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 D+L + ++T SI D++A A L + G+ + ++ + Sbjct: 190 DRLVVDVETKPSIAPRDAIASAGSTLVELFGLLRELNIDAEGIEVGPSPAEAADIANFSM 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+++L+VRS NCL+ E + +G+L+ R+EAD+L + NFG KS+ E+K L MGL L Sbjct: 250 PIEDMDLTVRSYNCLKREGVHTVGELVTRSEADLLDIRNFGAKSIDEVKMKLAAMGLALK 309 Query: 319 MNLPDWPPESIEELAKKYEDKC 340 + P + P S+E + YE Sbjct: 310 DSPPGFIPTSVESYDEGYETDA 331 >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 = 360 bits (925), Expect = 1e-97, Method: Composition-based stats. Identities = 135/313 (43%), Positives = 204/313 (65%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + ++ + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEIS-DDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 AKLEELGLGLRKD 313 >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 = 360 bits (925), Expect = 1e-97, Method: Composition-based stats. Identities = 127/321 (39%), Positives = 190/321 (59%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 E R+ I EPL GF +T+GN+LRR L+SS+ GAA+T+++I+GVLHE S++ GV Sbjct: 10 QEEPLSEYRSRFILEPLEPGFGYTIGNSLRRTLLSSIPGAAVTSIRIEGVLHEFSTVPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+TDIILN+K + + D + + K+GPG VTA DI +EV NP+ I L+ Sbjct: 70 KEDVTDIILNLKQLVVSSEHDEPVVMYLRKQGPGEVTAADIAPPAGVEVHNPELHIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 A + MELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ R Q D+ Sbjct: 130 GKAKLEMELTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSPVLKVTYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 D+L + ++T SI D+VA A + L + G+ + ++ + L Sbjct: 190 DRLILDVETKPSIKPRDAVASAGKTLVELFGLARELNVEAEGIEIGPSPTDAALAADLAL 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +EEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L MGL L Sbjct: 250 PIEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLDIRNFGAKSIEEVKQKLAEMGLTLK 309 Query: 319 MNLPDWPPESIEELAKKYEDK 339 + P + P ++ + +D+ Sbjct: 310 DSPPGFDPATVAGGGGRLDDE 330 >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 = 360 bits (925), Expect = 2e-97, 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 MQNSASEFLKPRLIDVQPVS---ATHARVSMEPFERGYAHTLGNSLRRILLSSMPGYAPT 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 VRRVSFAVESARVEQRTDLDRLVLDIETNGVIEPEQAVRNAARILMDQLSIFADLQGTAV 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 E++ K+ P +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G Sbjct: 238 ---EEVVEKAPPIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTETELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 RKSL EIK VL + GL LGM L +WPP +E+ Sbjct: 295 RKSLNEIKEVLASKGLTLGMKLENWPPAGLEK 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 = 360 bits (925), Expect = 2e-97, 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-VIETIEIS-EDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 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|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 = 360 bits (925), Expect = 2e-97, Method: Composition-based stats. Identities = 136/313 (43%), Positives = 205/313 (65%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L E+ + EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKP-KIETVELN-EDAKYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 HKLEELGLGLRKD 313 >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 (924), Expect = 2e-97, Method: Composition-based stats. Identities = 133/313 (42%), Positives = 207/313 (66%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + ++ + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEVS-DDATYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 AKLEDLGLGLRKD 313 >gi|205372042|ref|ZP_03224859.1| DNA-directed RNA polymerase subunit alpha [Bacillus coahuilensis m4-4] Length = 314 Score = 360 bits (924), Expect = 2e-97, Method: Composition-based stats. Identities = 136/313 (43%), Positives = 205/313 (65%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + ++ + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEVS-DDATYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 AKLDELGLGLRKD 313 >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 = 360 bits (924), Expect = 2e-97, Method: Composition-based stats. Identities = 139/310 (44%), Positives = 205/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + EE + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVDVN-EEGTYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 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|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 = 360 bits (924), Expect = 2e-97, Method: Composition-based stats. Identities = 136/313 (43%), Positives = 203/313 (64%), Gaps = 2/313 (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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 AKLEELGLGLRKD 313 >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 = 360 bits (924), Expect = 2e-97, Method: Composition-based stats. Identities = 141/335 (42%), Positives = 223/335 (66%), Gaps = 9/335 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ E ++P +I+ + ++ EP RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQRSVTEFLRPRDIKVEEISAH---HAKIVLEPFERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYS 178 +D+EV+NP+HVI +++ A ++M+L +++G GY PA +D G + +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 EQE---VEEEEDHIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELA 333 G+KSL EIK VL GL LGM L +WPP S+++ Sbjct: 295 GKKSLNEIKDVLAARGLSLGMRLENWPPASLKDDK 329 >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 (923), Expect = 2e-97, Method: Composition-based stats. Identities = 134/310 (43%), 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-KIETVEVN-DEGTYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 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|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 = 360 bits (923), Expect = 2e-97, Method: Composition-based stats. Identities = 183/337 (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 LSKNWNTLIKPNKVAYENV-PETNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 +++ Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDVLPEMAVGLAARILQEQLQLFISFEEQEEDK 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFGRK Sbjct: 243 Q--VKTDALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >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 = 360 bits (923), Expect = 2e-97, Method: Composition-based stats. Identities = 141/318 (44%), Positives = 207/318 (65%), Gaps = 1/318 (0%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 W+ KP + + E A+P RGF T+GN LRR L+SS+ GAA+TAV++ Sbjct: 3 WRGFQKPKRL-AVEGETLTEKYGKFSAQPFERGFGTTIGNGLRRTLLSSIEGAAVTAVRL 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|331018185|gb|EGH98241.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. lachrymans str. M302278PT] Length = 333 Score = 360 bits (923), Expect = 3e-97, Method: Composition-based stats. Identities = 149/336 (44%), Positives = 227/336 (67%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVVS---PTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + V+ M+LTV++G GY PA +++ D IG + +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 EPVVIEQEDE---IDPILLRPVYDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + L LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRSLSLGMRLDNWPPASLKKDDK 330 >gi|332107893|gb|EGJ09117.1| DNA-directed RNA polymerase subunit alpha [Rubrivivax benzoatilyticus JA2] Length = 328 Score = 360 bits (923), Expect = 3e-97, Method: Composition-based stats. Identities = 153/326 (46%), Positives = 212/326 (65%), Gaps = 6/326 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG R + EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKAIHVEPLG---GYRAKAVLEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSY 185 NPDHVI +L + M++ V KG GYVP R ++ G 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|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 = 360 bits (923), Expect = 3e-97, 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|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 = 359 bits (922), Expect = 3e-97, Method: Composition-based stats. Identities = 185/337 (54%), Positives = 247/337 (73%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y E N+ +I EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNRVTYENF-PETNNKAKIIVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 +++ Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDVLPEMAVGLAARILQEQLQLFIAFEEQEEDK 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + SLPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFGRK Sbjct: 243 Q--VKTDSLPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >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 = 359 bits (922), Expect = 3e-97, Method: Composition-based stats. Identities = 163/337 (48%), Positives = 218/337 (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---LLKPKTINVEQLG---HNRAKVVLEPFERGYGHTLGNALRRVLLSSMVGYAAT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYS 178 +D+E++NPDHVI +L + M++ V KG GYVP R ++ G 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 KEVKEDINVK----SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 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|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 = 359 bits (922), Expect = 3e-97, Method: Composition-based stats. Identities = 183/337 (54%), Positives = 249/337 (73%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y E N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNKVAYENF-PETNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 +++ Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDVLPEMAVGLAARILQEQLQLFISFEEQEEDK 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFGRK Sbjct: 243 Q--VKTDTLPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >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 = 359 bits (921), Expect = 4e-97, Method: Composition-based stats. Identities = 137/313 (43%), Positives = 203/313 (64%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + ++ + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEIS-DDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 HKLEDLGLGLRKD 313 >gi|332040527|gb|EGI76903.1| DNA-directed RNA polymerase subunit alpha [Hylemonella gracilis ATCC 19624] Length = 328 Score = 359 bits (921), Expect = 4e-97, Method: Composition-based stats. Identities = 160/328 (48%), Positives = 215/328 (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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKV 183 ++NP+HVI L + M++ V KG GYVP R ++ G 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|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 = 359 bits (921), Expect = 5e-97, Method: Composition-based stats. Identities = 154/331 (46%), Positives = 225/331 (67%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ EL+ P I+ G R + EPL RGF HTLG+ALRR+L+SS+ G A+T Sbjct: 1 MQRSVHELLTPRTIDVKESGS---TRAKVTLEPLERGFGHTLGSALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 QIDGVLHE S+I+GV ED+ +I+LN+KG+ +KM G + + K+GPGVVTAGDI+ Sbjct: 58 EAQIDGVLHEYSAIEGVQEDVIEILLNLKGVAVKMHGRDDAELMLSKKGPGVVTAGDIKL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 178 +D+E+ NP+HVIC+L + V M L++++G GY PA E IG + +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 EPE---RVEEEEEIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASL 325 >gi|324999252|ref|ZP_08120364.1| DNA-directed RNA polymerase subunit alpha [Pseudonocardia sp. P1] Length = 350 Score = 358 bits (920), Expect = 5e-97, Method: Composition-based stats. Identities = 126/317 (39%), Positives = 194/317 (61%), Gaps = 4/317 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPSLTEDVV----TETRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TDIILN+K + + D + + K+GPG VTAGDI + V NP Sbjct: 62 EFTTVPGVKEDVTDIILNLKELVVSSEEDEPVTMYLRKQGPGAVTAGDIVPPAGVTVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I +L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLHIASLNDKGRLEVELVVERGRGYVPAMQNKATGAEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + +++ SIT D++A + + L + G+ + ++ + + Sbjct: 182 RVEQRTDFDKLVLDVESKPSITPRDALASSGKTLVELFGLARELNVDAEGIEIGPSPQEA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 A +EEL+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 DTIAAFAMPIEELDLTVRSYNCLKREGIHTVGELVGRSEADLLDIRNFGAKSIDEVKMKL 301 Query: 311 GTMGLFLGMNLPDWPPE 327 +GL L + P + P Sbjct: 302 VGLGLALKDSPPGFDPS 318 >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 = 358 bits (920), Expect = 5e-97, Method: Composition-based stats. Identities = 148/332 (44%), Positives = 221/332 (66%), Gaps = 9/332 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYS 178 +D+E+ NP+ VI N+ D + M+LT+++G GY P +++ D G + +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 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 G+KSL EIK +L + GL LGM L +WPP S++ Sbjct: 295 GKKSLTEIKDILASRGLSLGMRLENWPPASLK 326 >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 = 358 bits (920), Expect = 5e-97, 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-KIEAVEVS-EDGSYGKFVVEPLERGYGTTLGNSLRRILLSSLPGSAVTSVQFDG 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|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 = 358 bits (920), Expect = 5e-97, Method: Composition-based stats. Identities = 160/326 (49%), Positives = 218/326 (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 YKFWREMIKPKGFEVDRDSLRDD-YAKFIIRPLERGFGVTLGNSLRRILLSSMMGSAITA 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 DKIEVLNPDLPIATLGANANFNAEIVVSFGRGYVPVE-NRETDLPVGFIGVDALYSPIRK 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|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 = 358 bits (920), Expect = 5e-97, Method: Composition-based stats. Identities = 135/313 (43%), Positives = 202/313 (64%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + ++ + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEIS-DDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 HKLEELGLGLRKD 313 >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 = 358 bits (920), Expect = 5e-97, Method: Composition-based stats. Identities = 184/336 (54%), Positives = 259/336 (77%), 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 + + Sbjct: 187 SYSISTAREGKALDYDKLIMEVETNGSISAEDAVAYSARIFQDQLNMFVNFDEPVEVPVK 246 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 +++ + FN LL+KV+ELELSVRS NCL+ +NI+Y+GDL+Q++E +MLR NFGRKSL Sbjct: 247 EVSSEP-EFNKNLLRKVDELELSVRSMNCLKNDNIIYIGDLVQKSEGEMLRTPNFGRKSL 305 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EIK VL M L+LGM +P+WPPE+I E++KK E++ Sbjct: 306 NEIKEVLTGMSLYLGMEIPNWPPENIAEMSKKLEEQ 341 >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 = 358 bits (920), Expect = 5e-97, Method: Composition-based stats. Identities = 182/337 (54%), Positives = 247/337 (73%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y E N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNALIKPNKVAYENF-PETNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 +++ Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDLLPEMAVGLAARILQEQLQLFISFEEQEEDK 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFGRK Sbjct: 243 Q--VKTDALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >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 = 358 bits (920), Expect = 6e-97, Method: Composition-based stats. Identities = 154/341 (45%), Positives = 225/341 (65%), Gaps = 7/341 (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 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 FGRKSL EIK VL MGL GM L + P + ED Sbjct: 302 FGRKSLNEIKEVLSEMGLSFGMKLEGFQPPEESDEEGDTED 342 >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 = 358 bits (920), Expect = 6e-97, Method: Composition-based stats. Identities = 134/313 (42%), Positives = 203/313 (64%), Gaps = 2/313 (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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 AKLEELGLGLRKD 313 >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 = 358 bits (919), Expect = 7e-97, 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-KIETVDVN-DDGTYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 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|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 = 358 bits (919), Expect = 8e-97, 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|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 = 358 bits (919), Expect = 8e-97, Method: Composition-based stats. Identities = 125/308 (40%), Positives = 185/308 (60%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV Sbjct: 11 EEAVAETRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSLRIDGVLHEFTTIPGVK 70 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+TD+ILN+K + + D + + K+GPG VTA DI + V NPD I L+ Sbjct: 71 EDVTDVILNLKELVVSSEEDEPVTMYLRKQGPGEVTAADIVPPAGVTVHNPDLHIATLNG 130 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+D Sbjct: 131 KGKLEIELVVERGRGYVPAVQNKQTGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFD 190 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + ++T SIT D+VA A R L + G+ + ++ + A Sbjct: 191 KLILDVETKPSITPRDAVASAGRTLVELFGLARELNVDAEGIEIGPSPAEADTIAAYAMP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L +GL L Sbjct: 251 IEDLDLTVRSYNCLKREGIHTVGELVSRSEADLLDIRNFGAKSIDEVKLKLVGLGLSLKD 310 Query: 320 NLPDWPPE 327 + P + P Sbjct: 311 SPPGFDPS 318 >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 = 358 bits (919), Expect = 8e-97, Method: Composition-based stats. Identities = 183/337 (54%), Positives = 247/337 (73%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y E N+ +I EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNRVTYENF-PETNNKAKIIVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 +++ Sbjct: 183 SVTYKVENTRVGQVTDYDKLIIFVETNGDVLPEMAVGLAARILQEQLQLFIAFEEQEEDK 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + SLPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFGRK Sbjct: 243 Q--VKTDSLPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >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 = 358 bits (919), Expect = 8e-97, Method: Composition-based stats. Identities = 153/332 (46%), Positives = 222/332 (66%), Gaps = 9/332 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYS 178 +DIE+ NP+ VI N+ D + M LTVS+G GY P T+ D G + +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 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 G+KSL EIK +L + GL LGM L +WPP S++ Sbjct: 295 GKKSLTEIKDILASRGLSLGMRLENWPPASLK 326 >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 = 358 bits (918), Expect = 8e-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-KIETVDVN-DDGTYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 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|254776830|ref|ZP_05218346.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium avium subsp. avium ATCC 25291] Length = 347 Score = 358 bits (918), Expect = 8e-97, Method: Composition-based stats. Identities = 119/306 (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 AIILNLKSLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPELHIATLNDKGKL 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 SIT D++A A + L + G+ + ++ + + +++L Sbjct: 195 DVETKSSITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPPEADHIASFALPIDDL 254 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL L + P Sbjct: 255 DLTVRSYNCLKREGVHTVGELVSRTESDLLDIRNFGQKSIDEVKVKLHQLGLSLKDSPPS 314 Query: 324 WPPESI 329 + P + Sbjct: 315 FDPSQV 320 >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 = 358 bits (918), Expect = 9e-97, Method: Composition-based stats. Identities = 151/330 (45%), Positives = 209/330 (63%), Gaps = 7/330 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 + Q +KP +IE +G ++ EP RG+ HTLGNALRR+L+SS+ G A T V Sbjct: 1 MSTQGFLKPRSIEVEPVGTH---HAKIVMEPFERGYGHTLGNALRRILLSSMTGYAPTEV 57 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 Q+ GV+HE S+I GV ED+ DI+LN+KG+ K+ + + K G G V A DI+ + Sbjct: 58 QMTGVVHEYSTIPGVREDVVDILLNLKGVVFKLHNRDEVTLVLRKNGAGTVVASDIELPH 117 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPI 180 D+E++NPDH+ICNL V M++ V KG GYVP D IG I +DA +SP+ Sbjct: 118 DVEIINPDHLICNLTEAGKVEMQIKVEKGRGYVPGNVRALSEDRTHTIGRIVLDASFSPV 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++VSY VESAR Q D DKL + I+T+G I+ E++V ++RIL DQ+ +F E Sbjct: 178 RRVSYAVESARVEQRTDLDKLVLDIETNGVISPEEAVRQSARILMDQISVFAALEGAGDS 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GR Sbjct: 238 YEAPV-RGTPQIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 KSL EIK VL GL LGM L +WPP +E Sbjct: 297 KSLNEIKEVLAARGLTLGMKLENWPPLGLE 326 >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 = 358 bits (918), Expect = 9e-97, 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|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 = 358 bits (918), Expect = 1e-96, Method: Composition-based stats. Identities = 125/319 (39%), Positives = 197/319 (61%), Gaps = 4/319 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E ++ ENR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLTEEVI----AENRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TDIILN+KG+ + D + + K+GPGVVTAGDI + V NP Sbjct: 62 EFTTVPGVKEDVTDIILNLKGLVVSSEEDEPVTMYVRKQGPGVVTAGDIVPPAGVTVNNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLHIATLNDKGKLEIELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T SIT D++A A + L + G+ + ++ + Sbjct: 182 RVEQRTDFDRLILDVETKNSITARDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + +E+L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L Sbjct: 242 DHIASFGLPIEDLDLTVRSYNCLKREGVHTVGELVGRTESDLLDIRNFGQKSIDEVKVKL 301 Query: 311 GTMGLFLGMNLPDWPPESI 329 ++GL L + + P ++ Sbjct: 302 HSLGLALKDSPASFDPTTV 320 >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 = 358 bits (918), Expect = 1e-96, Method: Composition-based stats. Identities = 122/310 (39%), Positives = 189/310 (60%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 ENR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV Sbjct: 11 EETVAENRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVK 70 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+TDIILN+KG+ + D + + K+GPGVVTAGDI + V NPD I L+ Sbjct: 71 EDVTDIILNLKGLVVSSDDDEPVTMYLRKQGPGVVTAGDIVPPAGVTVHNPDMHIATLND 130 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+D Sbjct: 131 KGKLEVELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFD 190 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + ++T SI+ D++A A L + G+ + ++ + + Sbjct: 191 KLIIDVETKNSISPRDALASAGGTLVELFGLARELNADSEHIEIGPSPAEADHIASFALP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL L Sbjct: 251 IDDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGLSLKD 310 Query: 320 NLPDWPPESI 329 + + P + Sbjct: 311 SPATFDPSEV 320 >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 = 358 bits (918), Expect = 1e-96, Method: Composition-based stats. Identities = 135/313 (43%), Positives = 203/313 (64%), Gaps = 2/313 (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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 AKLEELGLGLRKD 313 >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 = 358 bits (918), Expect = 1e-96, Method: Composition-based stats. Identities = 139/311 (44%), Positives = 204/311 (65%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE V+ E+ + EPL RG+ TLGN+LRR+L+SSL G A+T+++IDG Sbjct: 3 EIEKP-KIE-CVISSEDNTYGKFVVEPLERGYGITLGNSLRRILLSSLPGIAVTSIKIDG 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|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 (918), Expect = 1e-96, Method: Composition-based stats. Identities = 123/319 (38%), Positives = 196/319 (61%), Gaps = 4/319 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E ++ +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLTEEVI----ADNRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TDIILN+KG+ + D + + K+GPG VTAGDI + V NP Sbjct: 62 EFTTVPGVKEDVTDIILNLKGLVVNSEEDEPVTMYVRKQGPGAVTAGDIVPPAGVTVNNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLHIATLNDKGKLEIELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T SIT D++A A + L + G+ + ++ + Sbjct: 182 RVEQRTDFDRLVLDVETKNSITARDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + +E+L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L Sbjct: 242 DHIASFGLPIEDLDLTVRSYNCLKREGVHTVGELVGRTESDLLDIRNFGQKSIDEVKVKL 301 Query: 311 GTMGLFLGMNLPDWPPESI 329 ++GL L + + P ++ Sbjct: 302 HSLGLSLKDSPASFDPTTV 320 >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 = 358 bits (918), Expect = 1e-96, Method: Composition-based stats. Identities = 123/308 (39%), Positives = 186/308 (60%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 E R+ + EPL GF +TLGN++RR L+SS+ GAA+T+++IDGVLHE +++ GV Sbjct: 11 EEAVSETRSRFVIEPLEPGFGYTLGNSIRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVK 70 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+TDIILN+K + + D + + K+GPG VTAGDI + V NPD I L+ Sbjct: 71 EDVTDIILNLKELVVSSEEDEPVTMYLRKQGPGAVTAGDIVPPAGVTVHNPDLHIATLNG 130 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+D Sbjct: 131 KGKLEIELVVERGRGYVPAVQNKQAGAEIGRIPVDSIYSPVMKVTYKVEATRVEQRTDFD 190 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + +++ SIT D+VA A + L + G+ + ++ + A Sbjct: 191 KLILDVESKPSITPRDAVASAGKTLVELFGLARELNVDAEGIEIGPSPAEADTIAAFAMP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L +GL L Sbjct: 251 IEDLDLTVRSYNCLKREGIHTVGELVSRSEADLLDIRNFGAKSIDEVKMKLVGLGLALKD 310 Query: 320 NLPDWPPE 327 + P + P Sbjct: 311 SPPGFDPS 318 >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 = 357 bits (917), Expect = 1e-96, Method: Composition-based stats. Identities = 124/319 (38%), Positives = 193/319 (60%), Gaps = 4/319 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V ENR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLSEEVV----AENRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TDIILN+KG+ + D + + K+GPG VTAGDI + V NP Sbjct: 62 EFTTVPGVKEDVTDIILNLKGLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DMHIATLNDKGKLEVELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T SI+ D++A A + L + G+ + ++ + Sbjct: 182 RVEQRTDFDKLILDVETKNSISPRDALASAGKTLVELFGLARELNIEAEGIEIGPSPAEA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L Sbjct: 242 DQAAHFALPIDDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKL 301 Query: 311 GTMGLFLGMNLPDWPPESI 329 +GL L + + P + Sbjct: 302 HQLGLSLKDSPASFDPSEV 320 >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 = 357 bits (917), Expect = 1e-96, 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|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 = 357 bits (917), Expect = 1e-96, Method: Composition-based stats. Identities = 179/337 (53%), Positives = 248/337 (73%), 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 +++ Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGGLLPEMAVGLAARILQEQLQLFISFEEHEEDK 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFGRK Sbjct: 243 Q--VKTDTLPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >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 = 357 bits (917), Expect = 1e-96, Method: Composition-based stats. Identities = 119/306 (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 AIILNLKSLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPELHIATLNDKGKL 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 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 DLTVRSYNCLKREGVHTVGELVSRTESDLLDIRNFGQKSIDEVKVKLHQLGLSLKDSPPS 314 Query: 324 WPPESI 329 + P + Sbjct: 315 FDPSQV 320 >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 = 357 bits (917), Expect = 1e-96, Method: Composition-based stats. Identities = 181/337 (53%), Positives = 248/337 (73%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y E N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNKVAYENF-PETNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 +++ Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDLLPEMAVGLAARILQEQLRLFISFEEQEEDK 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFGRK Sbjct: 243 Q--VKTDALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >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 = 357 bits (917), Expect = 1e-96, Method: Composition-based stats. Identities = 134/313 (42%), Positives = 202/313 (64%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + ++ + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEIS-DDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 AKLEELGLGLRKD 313 >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 = 357 bits (917), Expect = 1e-96, Method: Composition-based stats. Identities = 156/333 (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---LLKPKAINVDPLGGH---RAKVTLEPFERGFGHTLGNALRRVLLSSMVGYAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYS 178 +D+E++NPDHVI +L + M++ V KG GYVP R ++P G 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|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 = 357 bits (917), Expect = 1e-96, Method: Composition-based stats. Identities = 150/330 (45%), Positives = 210/330 (63%), Gaps = 7/330 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 + Q +KP +IE +G N ++ EP RG+ HTLGNALRR+L+SS+ G A T V Sbjct: 1 MSTQGFLKPRSIEVEPVG---PNHAKIVMEPFERGYGHTLGNALRRILLSSMTGYAPTEV 57 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 Q+ GV+HE S+I GV ED+ DI+LN+KG+ K+ + + K G G+V A DI+ + Sbjct: 58 QMTGVVHEYSTIPGVREDVVDILLNLKGVVFKLHNRDEVTLILRKNGSGLVLASDIELPH 117 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPI 180 D+E++NP+H ICNL + M++ V KG GYVP D IG I +DA +SP+ Sbjct: 118 DVEIVNPEHPICNLTDAGKLEMQIKVEKGRGYVPGNVRALSEDRTHTIGRIILDASFSPV 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++VSY VESAR Q D DKL + I+T+G I+ E++V ++RIL DQ+ +F E Sbjct: 178 RRVSYAVESARVEQRTDLDKLVLDIETNGVISPEEAVRQSARILMDQISVFAALEGAGDS 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GR Sbjct: 238 YEAPV-RGTPQIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 KSL EIK VL GL LGM L +WPP +E Sbjct: 297 KSLNEIKEVLAARGLTLGMKLENWPPLGLE 326 >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 = 357 bits (916), Expect = 1e-96, Method: Composition-based stats. Identities = 182/337 (54%), Positives = 247/337 (73%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y E N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNKVAYENF-PETNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 +++ Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDVLPEMAVGLAARILQEQLQLFISFEEQEEDK 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +LPF P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFGRK Sbjct: 243 Q--VKTDALPFAPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >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 = 357 bits (916), Expect = 1e-96, 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|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 = 357 bits (916), Expect = 1e-96, Method: Composition-based stats. Identities = 154/336 (45%), Positives = 225/336 (66%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ + + P +I+ + NR + EPL RGF HTLGNALRR+L+SS+ GAAIT Sbjct: 1 MQRSANDFLTPRHIDVQEVN---ANRAKITLEPLERGFGHTLGNALRRILLSSMPGAAIT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 + +EV NPDHVI +L A V M L V+ G GYVPA+ +E D PIG + +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 EAVQE---KEEDKIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L WPP S++ K Sbjct: 295 GKKSLTEIKDVLASKGLSLGMVLEAWPPASLKNDDK 330 >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 = 357 bits (916), Expect = 2e-96, Method: Composition-based stats. Identities = 124/307 (40%), Positives = 186/307 (60%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV Sbjct: 11 EETVNETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVK 70 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+TDIILN+K + + D + + K+GPG VTA DI + V NPD I +L+ Sbjct: 71 EDVTDIILNLKELVVSSEEDEPVTMYLRKQGPGEVTAADIVPPAGVTVHNPDLHIASLNG 130 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+D Sbjct: 131 KGKLEIELVVERGRGYVPALQNKQAGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFD 190 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + ++T SIT D+VA A + L + G+ + ++ + + A Sbjct: 191 KLILDVETKPSITPRDAVASAGKTLVELFGLARELNVDAEGIEIGPSPQEADTIAAYAMP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L +GL L Sbjct: 251 IEDLDLTVRSYNCLKREGIHTVGELVSRSEADLLDIRNFGAKSIDEVKLKLVGLGLALKD 310 Query: 320 NLPDWPP 326 + P + P Sbjct: 311 SPPGFDP 317 >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 = 357 bits (916), Expect = 2e-96, Method: Composition-based stats. Identities = 123/319 (38%), Positives = 196/319 (61%), Gaps = 4/319 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E ++ +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLTEEVI----ADNRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TDIILN+KG+ + D + + K+GPG VTAGDI + V NP Sbjct: 62 EFTTVPGVKEDVTDIILNLKGLVVSSEEDEPVTMYVRKQGPGAVTAGDIVPPAGVTVNNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLHIATLNDKGKLEIELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T SIT D++A A + L + G+ + ++ + Sbjct: 182 RVEQRTDFDRLVLDVETKNSITARDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + +E+L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L Sbjct: 242 DHIASFGLPIEDLDLTVRSYNCLKREGVHTVGELVGRTESDLLDIRNFGQKSIDEVKVKL 301 Query: 311 GTMGLFLGMNLPDWPPESI 329 ++GL L + + P ++ Sbjct: 302 HSLGLALKDSPASFDPTTV 320 >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 = 357 bits (916), Expect = 2e-96, 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|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 = 357 bits (916), Expect = 2e-96, Method: Composition-based stats. Identities = 151/330 (45%), Positives = 209/330 (63%), Gaps = 7/330 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 + Q +KP +IE +G ++ EP RG+ HTLGNALRR+L+SS+ G A T V Sbjct: 1 MSTQGFLKPRSIEVEPVGAH---HAKIVMEPFERGYGHTLGNALRRILLSSMTGYAPTEV 57 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 Q+ GV+HE S+I GV ED+ DI+LN+KG+ K+ + + K G G V A DI+ + Sbjct: 58 QMTGVVHEYSTIAGVREDVVDILLNLKGVVFKLHNRDEVTLVLRKNGAGAVVASDIELPH 117 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPI 180 D+E++NPDH+ICNL + M++ V KG GYVP D IG I +DA +SP+ Sbjct: 118 DVEIINPDHLICNLTDAGKIEMQVKVEKGRGYVPGNVRALSEDRTHTIGRIVLDASFSPV 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++VSY VESAR Q D DKL + I+T+G I+ E++V A+RIL DQ+ +F E Sbjct: 178 RRVSYAVESARVEQRTDLDKLVLDIETNGVISPEEAVRQAARILMDQISVFAALEGAGDA 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GR Sbjct: 238 YEPPV-RGTPQIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 KSL EIK VL GL LGM L +WPP +E Sbjct: 297 KSLNEIKEVLAARGLTLGMKLENWPPLGLE 326 >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 = 356 bits (915), Expect = 2e-96, Method: Composition-based stats. Identities = 181/337 (53%), Positives = 248/337 (73%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y E N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNKVAYENF-PETNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 +++ Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDLLPEMAVGLAARILQEQLQLFISFEEQEEDK 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFGRK Sbjct: 243 Q--VKTDALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+I+EL+ +YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENIQELSNRYED 337 >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 = 356 bits (915), Expect = 2e-96, Method: Composition-based stats. Identities = 151/336 (44%), Positives = 222/336 (66%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +DIE+ NPDH+I L+ + M LT+ +G GYVPA +++++ IG + +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 PVHRVAYVVESARVEQRTDLDKLVLDLETNGTIDPEEAIRRAATILQQQLSVFVDL---E 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|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 = 356 bits (915), Expect = 2e-96, 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|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 = 356 bits (915), Expect = 2e-96, 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|327438303|dbj|BAK14668.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Solibacillus silvestris StLB046] Length = 314 Score = 356 bits (915), Expect = 2e-96, 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-KIETVEIS-EDAKYGKFVVEPLERGYGNTLGNSLRRILLSSLPGAAVTSIQIDG 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|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 = 356 bits (915), Expect = 2e-96, Method: Composition-based stats. Identities = 182/337 (54%), Positives = 248/337 (73%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y E N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNKVAYENF-PETNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 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 +++ Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDVLPEMAVGLAARILQEQLQLFISFEEQEEDK 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +L F+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFGRK Sbjct: 243 Q--VKTDALLFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >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 = 356 bits (915), Expect = 2e-96, Method: Composition-based stats. Identities = 158/336 (47%), Positives = 231/336 (68%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ EL+ P NIE G+ R+ + +PL RGF HTLGNALRR+L+SS+ G AI Sbjct: 1 MQRSVSELLTPRNIEVQEAGK---TRSKVTLQPLERGFGHTLGNALRRILLSSMPGCAIV 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|326905303|gb|EGE52236.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis W-148] Length = 348 Score = 356 bits (914), Expect = 3e-96, 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|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 = 356 bits (914), Expect = 3e-96, Method: Composition-based stats. Identities = 120/306 (39%), Positives = 189/306 (61%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T Sbjct: 15 TDNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVAGVKEDVT 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 IILN+KG+ + D + + K+GPG VTAGDI + V NP+ I L+ + Sbjct: 75 AIILNLKGLVVSSEEDEPVTMYLRKQGPGAVTAGDIVPPAGVTVHNPEMHIATLNDKGKL 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 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 DLTVRSYNCLKREGVHTVGELVSRTESDLLDIRNFGQKSIDEVKVKLHQLGLSLKDSPPS 314 Query: 324 WPPESI 329 + P + Sbjct: 315 FDPSQV 320 >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 = 356 bits (914), Expect = 3e-96, Method: Composition-based stats. Identities = 163/337 (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---LLKPKTINVEQLG---HNRAKVVLEPFERGYGHTLGNALRRVLLSSMVGYAAT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYS 178 +D+E++NPDHVI NL + M++ V KG GYVP R ++ G 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 KEVKEDINVK----SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 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|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 (914), Expect = 3e-96, Method: Composition-based stats. Identities = 135/311 (43%), Positives = 199/311 (63%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+I+P IE IV E+ + EPL RG+ TLGN+LRRVL+SS+ GAA +V+IDG Sbjct: 3 EIIEP-KIE-IVEQSEDGRYGKFVVEPLERGYGITLGNSLRRVLLSSIPGAAPKSVKIDG 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 GVLGTMGLFLG 318 L +GL L Sbjct: 301 QKLAALGLSLK 311 >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 = 356 bits (913), Expect = 3e-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-KIETVELS-DNATFGKFVVEPLERGFGTTLGNSLRRILLSSLPGAAVTAVQIDG 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|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 = 356 bits (913), Expect = 4e-96, Method: Composition-based stats. Identities = 147/336 (43%), Positives = 226/336 (67%), Gaps = 10/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ E ++P +I+ + N ++ EP RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQRSVTEFLRPRDIKVEEIN---ANHAKIVLEPFERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQ 120 +I+GVLHE S+I+GV ED+ +I+LN+K + +KM G+ + + K+GP VVTAGDI Sbjct: 58 EAEIEGVLHEYSAIEGVQEDVIEILLNLKDVAVKMHGNRDEVVLALSKQGPSVVTAGDIA 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALY 177 +D+E++NPDHVI +L+ ++M+L V +G GY PA +E D G + +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 KEQE---VEEEEDQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELA 333 G+KSL EIK VL GL LGM L +WPP S+++ Sbjct: 295 LGKKSLNEIKDVLAARGLSLGMRLENWPPASLKDDK 330 >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 = 355 bits (912), Expect = 4e-96, Method: Composition-based stats. Identities = 160/333 (48%), 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 MQNSTAEFLKPRQIDVNTFS---ATRAKVSMQPFERGFGHTLGNALRRILLSSMNGFAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 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 PISRVSFEVEPARVEQRTDLDKLVLDIETDGSIDPEEAVRSAARILIDQMSIFANL---Q 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 GRKSLNEIKEVLASKGLTLGSKLEAWPPAGLEK 327 >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 = 355 bits (912), Expect = 4e-96, Method: Composition-based stats. Identities = 148/337 (43%), Positives = 217/337 (64%), Gaps = 1/337 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW EL+KP+ I + + EPL RG+ T+GNA+RRVL++SL+GAA AV Sbjct: 13 RNWSELVKPDQI-SRASESADTMYGKFVCEPLERGYGTTIGNAMRRVLLASLQGAAFVAV 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 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 EI+ VLG M L GM + + + E L +K +++ Sbjct: 312 DEIRRVLGEMSLDFGMKVDGFEKKYQEWLKRKQQNEA 348 >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 = 355 bits (912), Expect = 4e-96, Method: Composition-based stats. Identities = 138/313 (44%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDG Sbjct: 3 EFEKPR----IAKIDEEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 AKLHDLGLGLRKD 311 >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 = 355 bits (912), Expect = 4e-96, Method: Composition-based stats. Identities = 121/305 (39%), Positives = 188/305 (61%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ENR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+TD Sbjct: 16 ENRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+K + + D + + K+GPG VTAGDI + V NPD I L+ + Sbjct: 76 IILNLKSLVVSSEEDEPVTMYLRKQGPGAVTAGDIVPPAGVTVHNPDMHIATLNDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+DKL + Sbjct: 136 IELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYNVEATRVEQRTDFDKLVLD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 ++T SI+ D++A A + L + G+ + ++ + + +E+L+ Sbjct: 196 VETKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALPIEDLD 255 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL L + + Sbjct: 256 LTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGLSLKDSPTSF 315 Query: 325 PPESI 329 P + Sbjct: 316 DPSEV 320 >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 = 355 bits (912), Expect = 4e-96, 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|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 = 355 bits (912), Expect = 5e-96, Method: Composition-based stats. Identities = 155/337 (45%), Positives = 228/337 (67%), Gaps = 9/337 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q EL+KP +IE + + + ++ EPL RGF HTLGNALRR+L+SS+ GAA+ Sbjct: 1 MQTKVNELLKPRHIEVTSVS---DRQAKVVLEPLERGFGHTLGNALRRILLSSIPGAAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +I+GVLHE +SI+GV ED+ DI+LN+KGI L+M +T+ K+GPGVVTAGDI Sbjct: 58 EAEIEGVLHEYTSIEGVQEDVVDILLNLKGIALRMHNRDEATLTLKKKGPGVVTAGDITL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYS 178 +D+E++NP+HVI +L + + M L + +G GY P R +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+ + + Sbjct: 178 PIRRVAYKVESARVEQRTDMDRLVIELETNGTVEADDAIRQAAGILQSQLAAFVELQGDE 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 V E K + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 STVTES---KQMEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 G+KSL EIK VL + GL +GM L +WPP +++ KK Sbjct: 295 GKKSLTEIKDVLASHGLSMGMRLENWPPPGLKDQDKK 331 >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 = 355 bits (912), Expect = 5e-96, Method: Composition-based stats. Identities = 127/308 (41%), Positives = 185/308 (60%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 Q +E R+ I EPL GF +T+GN+LRR L+SS+ GAA+T+++I+GVLHE S+I GV Sbjct: 10 TEEQIDEYRSRFIIEPLEPGFGYTIGNSLRRTLLSSIPGAAVTSIRIEGVLHEFSTIPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+TDIILN+K + + D + + K+GPG VTA DI +EV NPD I L+ Sbjct: 70 KEDVTDIILNLKELVVSSEHDEPVVMYLRKQGPGQVTAADIAPPAGVEVHNPDLHIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 A + MELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ R Q D+ Sbjct: 130 SKAKLEMELTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSPVLKVTYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 D+L + ++T ++ D+VA A + L + G+ + + + L Sbjct: 190 DRLILDVETKPAMLPRDAVASAGKTLVELFGLARELNVEAEGIDMGPSPTDAALAADLAL 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +EEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L MGL L Sbjct: 250 PIEELNLTVRSYNCLKREGIHTVGELVARSEQDLLDIRNFGAKSIEEVKQKLADMGLSLK 309 Query: 319 MNLPDWPP 326 + P + P Sbjct: 310 DSPPGFDP 317 >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 = 355 bits (912), Expect = 5e-96, Method: Composition-based stats. Identities = 136/313 (43%), Positives = 204/313 (65%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE IV E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+V+I+G Sbjct: 3 EIEKP-KIE-IVEQSEDNTYGKFVVEPLERGYGITLGNSLRRILLSSLPGAAVTSVKIEG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 NKLAELGLSLRKD 313 >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 = 355 bits (912), Expect = 5e-96, Method: Composition-based stats. Identities = 124/319 (38%), Positives = 194/319 (60%), Gaps = 4/319 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E ++ ENR+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLTEEVI----AENRSKFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TDIILN+KG+ + D + + K+GPG VTAGDI + V NP Sbjct: 62 EFTTVPGVKEDVTDIILNLKGLVVSSEEDEPVTMYVRKQGPGTVTAGDIVPPAGVVVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DMHIATLNDKGKLEIELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T SI+ D++A A + L + G+ + ++ + Sbjct: 182 RVEQRTDFDRLILDVETKNSISARDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + +E+L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L Sbjct: 242 DHIASFGLPIEDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKVKL 301 Query: 311 GTMGLFLGMNLPDWPPESI 329 +GL L + + P S+ Sbjct: 302 HALGLSLKDSPASFDPSSV 320 >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 = 355 bits (911), Expect = 5e-96, Method: Composition-based stats. Identities = 164/324 (50%), Positives = 226/324 (69%), Gaps = 2/324 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +++NW+ELIKP+ ++ I EPL RGF HT+GNALRR+L+SSL+GAA+T Sbjct: 1 MERNWRELIKPSRLQ-IDEEIHTSRYGKFSCEPLERGFGHTIGNALRRILISSLQGAAVT 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 KVSYVVTQARVGQITDYDKLTLEVHTNGAVRPEDAVAYAAKILKEQLQIFINFPEEPEPT 239 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + N L + V+ELELSVRS NCL+ +I Y+G+L+QR+EA+ML+ NFGRK Sbjct: 240 HEEEREEPR-LNENLFRTVDELELSVRSANCLKNADIKYIGELVQRSEAEMLKTKNFGRK 298 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL EIK +L MGL LGM L +P Sbjct: 299 SLNEIKEMLTDMGLSLGMKLDGFP 322 >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 = 355 bits (911), Expect = 5e-96, Method: Composition-based stats. Identities = 163/335 (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---LLKPKTINVEQLG---HNRAKVALEPFERGYGHTLGNAIRRVLLSSMVGYAAT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYS 178 +D+E++NPDHVI +L + M++ V KG GYVP R ++ G I +DA +S Sbjct: 115 PHDVEIVNPDHVIAHLSQGGKLDMQIKVEKGRGYVPGNLRRYADESTKSIGRIVLDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--E 236 P+K+VSYTVESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F E E Sbjct: 175 PVKRVSYTVESARVEQRTDLDKLVVEIETNGAITAEDAVRASAKILVEQLAVFAQLEGGE 234 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 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|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 = 136/311 (43%), Positives = 197/311 (63%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+I+P IE IV E+ + EPL RG+ TLGN+LRRVL+SSL GAA +V+IDG Sbjct: 3 EMIEP-KIE-IVEQSEDGTYGKFVVEPLERGYGITLGNSLRRVLLSSLPGAAPKSVKIDG 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 GVLGTMGLFLG 318 L +GL L Sbjct: 301 QKLEALGLSLK 311 >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 = 355 bits (911), Expect = 5e-96, 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|254819221|ref|ZP_05224222.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium intracellulare ATCC 13950] Length = 347 Score = 355 bits (911), Expect = 6e-96, Method: Composition-based stats. Identities = 118/306 (38%), Positives = 186/306 (60%) 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 NPD I L+ + Sbjct: 75 AIILNLKSLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPDLHIATLNDKGKL 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 DVETKSSINPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALPIDDL 254 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL L + Sbjct: 255 DLTVRSYNCLKREGVHTVGELVSRTESDLLDIRNFGQKSIDEVKVKLHQLGLSLKDSPAS 314 Query: 324 WPPESI 329 + P + Sbjct: 315 FDPSQV 320 >gi|240167783|ref|ZP_04746442.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium kansasii ATCC 12478] Length = 347 Score = 355 bits (911), Expect = 6e-96, 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|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 = 355 bits (911), Expect = 6e-96, Method: Composition-based stats. Identities = 149/330 (45%), Positives = 207/330 (62%), Gaps = 7/330 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 + Q +KP +IE +G ++ EP RG+ HTLGNALRR+L+SS+ G A T V Sbjct: 1 MSTQGFLKPRSIEVEPVGTH---HAKIVMEPFERGYGHTLGNALRRILLSSMTGYAPTEV 57 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 Q+ GV+HE S+I GV ED+ DI+LN+KG+ K+ + + K G G V A DI+ + Sbjct: 58 QMTGVVHEYSTIPGVREDVVDILLNLKGVVFKLHNRDEVTLVLRKTGAGTVLASDIELPH 117 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPI 180 D+E++NP H ICNL + M++ V KG GYVP D IG I +DA +SP+ Sbjct: 118 DVEIINPGHAICNLTDAGKLEMQIKVEKGRGYVPGNVRALSEDRTHTIGRIVLDASFSPV 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++VSY VESAR Q D DKL + I+T+G I+ E++V ++RIL DQ+ +F E Sbjct: 178 RRVSYAVESARVEQRTDLDKLVLDIETNGVISPEEAVRQSARILMDQISVFAALEGAGDS 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GR Sbjct: 238 YEAPV-RGTPQIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 KSL EIK VL GL LGM L +WPP +E Sbjct: 297 KSLNEIKEVLAARGLTLGMKLENWPPLGLE 326 >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 = 355 bits (911), Expect = 7e-96, Method: Composition-based stats. Identities = 181/338 (53%), Positives = 248/338 (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-PETNNKSKIIVEPLERGFGLTLGNAMRRVLLSSLQGAAVT 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 +++ Sbjct: 183 KSVTYKVENTRIGQVTDYDKLIMFVETNGDILPEMAVGLAARILQEQLQLFISFEEQEED 242 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTEADMLR NFGR Sbjct: 243 KQ--VKTDALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTEADMLRTPNFGR 300 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK +L L GM++PDWPPE+I EL+K+YED Sbjct: 301 KSLNEIKEILAKFSLRFGMDVPDWPPENIHELSKRYED 338 >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 = 355 bits (910), Expect = 7e-96, Method: Composition-based stats. Identities = 162/334 (48%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N L+KP +I LG NR + EP RG+ HTLGNALRRVL+SS+ G A T Sbjct: 1 MQNN---LLKPKSISVEQLG---PNRAKVALEPFERGYGHTLGNALRRVLLSSMPGFAAT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE SSI GV ED+ +I+LN+KG+ K+ +++ K GVVTA DIQT Sbjct: 55 EVTIAGVLHEYSSIDGVQEDVVNILLNLKGVVFKLHNREEVTLSLRKDTEGVVTAADIQT 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYS 178 +D+E++NP+HVI NL + M++ V KG GYVP R ++P G 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|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 = 355 bits (910), Expect = 7e-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: 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|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 = 355 bits (910), Expect = 7e-96, Method: Composition-based stats. Identities = 151/326 (46%), Positives = 213/326 (65%), Gaps = 7/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVEPLGDH---HAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKVSY 185 NP+HVI +L + M++ V +G GYVP + ++ IG 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 + E Sbjct: 182 AVESARVEQRTDLDKLVMNIETDGVISPEEAIRQSARILVDQLSVFAALEG-TESAAEAA 240 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 241 SSRTPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 300 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +E+ Sbjct: 301 IKEVLASRGLTLGMKLENWPPAGLEK 326 >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 = 355 bits (910), Expect = 7e-96, Method: Composition-based stats. Identities = 154/340 (45%), Positives = 228/340 (67%), 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 KEDINVKSLPF-NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 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|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 = 355 bits (910), Expect = 7e-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 DLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGLSLKDSPPS 314 Query: 324 WPPESI 329 + P + Sbjct: 315 FDPSEV 320 >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 = 355 bits (910), Expect = 8e-96, Method: Composition-based stats. Identities = 123/319 (38%), Positives = 192/319 (60%), Gaps = 4/319 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E I+ +NR+ + EPL GF +TLGN+LRR L+SS+ GAAIT+++IDGVLH Sbjct: 6 RPTLTEEIL----ADNRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAITSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TDIILN+KG+ + D + + K+GPG VT DI + V NP Sbjct: 62 EFTTVPGVKEDVTDIILNLKGLVVSSEEDEPVTMYVRKQGPGTVTGADIVPPAGVTVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLHIATLNDKGKLEIELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T SI+ D++A A + L + G+ + ++ + Sbjct: 182 RVEQRTDFDRLVLDVETKNSISARDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + +E+LEL+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L Sbjct: 242 DHIASFSLPIEDLELTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKVKL 301 Query: 311 GTMGLFLGMNLPDWPPESI 329 +GL L + + P + Sbjct: 302 HALGLSLKDSPASFDPSQV 320 >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 = 355 bits (910), Expect = 8e-96, Method: Composition-based stats. Identities = 155/337 (45%), Positives = 224/337 (66%), Gaps = 2/337 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW EL+KP +E + + EPL RGF TLGNALRRVL+SSL+GAAI A Sbjct: 13 RNWTELVKPEKLEKDP--GATDTFGRFVCEPLERGFGTTLGNALRRVLLSSLQGAAIVAA 70 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+GV HE S+I GV ED+T+IILN+K + L M+ + +R+T+F G V A IQ Sbjct: 71 RIEGVQHEFSTIPGVIEDVTEIILNLKQVRLAMTTEDPQRLTLFANQKGEVLASAIQGNQ 130 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 ++ VL+ D +I L D R++L V G GYVPA H + IGLI +D+ +SP+KKV Sbjct: 131 NVTVLSDDVLIATLSEDRDFRIDLEVRMGKGYVPADMHEGLDSEIGLILLDSSFSPVKKV 190 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +YT+E AR GQ+ +YDKL + + TDGSI+ +D+++ +++IL+DQL +FINF+E + E + Sbjct: 191 AYTIEQARVGQMTNYDKLVLEVGTDGSISPDDAISYSAKILKDQLTVFINFDEKESEADK 250 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + NP+L K ++ELELSVR+TNCL+ NI +G+L+Q+TE +ML+ NFG+KSL Sbjct: 251 ARRRDDIELNPSLFKSIDELELSVRATNCLKSANIQTVGELMQKTENEMLKTKNFGKKSL 310 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 EI+ VL MGL GM + ++ + E L +K D+ Sbjct: 311 EEIRRVLEDMGLEFGMRIENFEQKYQEWLKRKQVDET 347 >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 = 355 bits (910), Expect = 8e-96, 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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 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|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 = 355 bits (910), Expect = 8e-96, Method: Composition-based stats. Identities = 181/338 (53%), Positives = 248/338 (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 +++ Sbjct: 183 KSVTYKVENTRIGQVTDYDKLIMFVETNGDILPEMAVGLAARILQEQLQLFISFEEQEED 242 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTEADMLR NFGR Sbjct: 243 KQ--VKTDALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTEADMLRTPNFGR 300 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK +L L GM++PDWPPE+I EL+K+YED Sbjct: 301 KSLNEIKEILAKFSLRFGMDVPDWPPENIHELSKRYED 338 >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 = 355 bits (910), Expect = 8e-96, Method: Composition-based stats. Identities = 119/310 (38%), Positives = 188/310 (60%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV Sbjct: 11 EETVADNRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVK 70 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+TDIILN+K + + D + + K+GPG VTAGDI + V NP+ I L+ Sbjct: 71 EDVTDIILNLKSLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPEMHIATLND 130 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+D Sbjct: 131 KGKLEVELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFD 190 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + ++T SIT D++A A + L + G+ + ++ + + Sbjct: 191 KLILDVETKNSITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL L Sbjct: 251 IDDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGLSLKD 310 Query: 320 NLPDWPPESI 329 + + P + Sbjct: 311 SPATFDPSEV 320 >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 = 355 bits (910), Expect = 8e-96, Method: Composition-based stats. Identities = 138/311 (44%), Positives = 203/311 (65%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE V+ E+ + EPL RG+ TLGN+LRR+L+SSL G A+T+++IDG Sbjct: 3 EIEKP-KIE-CVVCSEDNRYGKFVVEPLERGYGITLGNSLRRILLSSLPGVAVTSIKIDG 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|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 = 354 bits (909), Expect = 9e-96, Method: Composition-based stats. Identities = 162/340 (47%), Positives = 227/340 (66%), 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 KEDINVKSLPFNPALLK-KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 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|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 = 354 bits (909), Expect = 9e-96, Method: Composition-based stats. Identities = 156/337 (46%), Positives = 224/337 (66%), Gaps = 2/337 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW EL+KP ++ E + EPL RGF TLGNALRRVL+SSL+GAAI A Sbjct: 13 RNWTELVKPEVLDKDP--SSTETFGRFVCEPLERGFGTTLGNALRRVLLSSLQGAAIVAA 70 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+GV HE S+I GV ED+T+IILN+K + L M+ D +R+T+ + G V A IQ + Sbjct: 71 RIEGVQHEFSTIPGVIEDVTEIILNLKQVRLAMATDEPQRLTLLAKEKGEVRASAIQGNH 130 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 ++ VL+ D +I L D R++L V G GYVPA H IGLI +DA +SP+KKV Sbjct: 131 NVSVLSEDVLIATLSEDRDFRIDLEVRMGKGYVPADMHEGLESEIGLILLDASFSPVKKV 190 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +YT+E AR GQ+ +YDKL + + TDGSI ED+++ +++IL+DQL +FINF+E + E ++ Sbjct: 191 AYTIEQARVGQMTNYDKLVLEVTTDGSIAPEDAISYSAKILKDQLTVFINFDEKESEAEK 250 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + NP+L K ++ELELSVR+TNCL+ NI +G+L+Q+TE +ML+ NFG+KS Sbjct: 251 NRRRDDIELNPSLFKSIDELELSVRATNCLKSANIQTVGELMQKTEHEMLKTKNFGKKSF 310 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 EI+ VL MGL GM + ++ + E L +K D+ Sbjct: 311 EEIRRVLEDMGLEFGMRIENFDQKYQEWLKRKQTDEA 347 >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 = 354 bits (909), Expect = 1e-95, Method: Composition-based stats. Identities = 162/335 (48%), Positives = 218/335 (65%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NP+HVI L + M++ V KG GYVP R ++ IG I +DA +S Sbjct: 115 PHDVEIVNPEHVIATLSAGGKLDMQIKVEKGRGYVPGNLRRYADEATKSIGRIVLDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--E 236 P+K+VSYTVESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F E E Sbjct: 175 PVKRVSYTVESARVEQRTDLDKLVVEIETNGAITAEDAVRASAKILVEQLAVFAQLEGGE 234 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 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|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 = 354 bits (909), Expect = 1e-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-KIECVETS-EDGNYGKFVVEPLERGYGTTLGNALRRILLSSLPGVAASHVKIDG 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|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 = 354 bits (909), Expect = 1e-95, Method: Composition-based stats. Identities = 141/313 (45%), Positives = 201/313 (64%), Gaps = 4/313 (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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 NKLAELGLSLRQD 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 = 354 bits (909), Expect = 1e-95, 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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 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|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 = 354 bits (909), Expect = 1e-95, Method: Composition-based stats. Identities = 156/336 (46%), Positives = 224/336 (66%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYS 178 +D+E+ NPDHVICN+ + V ++L VS+G GY PA E D G + +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 PIRRVAYVVESARVEQRTDLDKLVLDLETNGTIDPEEAIRRAATILQQQLAVFVDLE--- 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E + + V+ +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N Sbjct: 235 SEGEAEAVVEEDEVDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S++ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKNDDR 330 >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 = 354 bits (908), Expect = 1e-95, Method: Composition-based stats. Identities = 122/320 (38%), Positives = 194/320 (60%), Gaps = 4/320 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E ++ + R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLSEEVI----SDARSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TDIILN+KG+ + D + + K+GPG VTAGDI + V NP Sbjct: 62 EFTTVPGVKEDVTDIILNLKGLVVSSEDDEPVTMYVRKQGPGAVTAGDIVPPASVTVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLHIATLNDKGKLEIELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T S+T D++A A + L + G+ + ++ + Sbjct: 182 RVEQRTDFDRLILDVETKNSMTARDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 A +E+L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L Sbjct: 242 DHIAAFSLPIEDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKVKL 301 Query: 311 GTMGLFLGMNLPDWPPESIE 330 +GL L + + P ++ Sbjct: 302 HALGLALKDSPASFDPSQVD 321 >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 = 354 bits (908), Expect = 1e-95, Method: Composition-based stats. Identities = 137/313 (43%), Positives = 200/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E+++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDG Sbjct: 3 EFEKPR----IAKIDEDKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLHDLGLGLRKD 311 >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 = 354 bits (908), Expect = 1e-95, Method: Composition-based stats. Identities = 152/327 (46%), Positives = 216/327 (66%), Gaps = 9/327 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 L+KP +E + N ++ EP RG+ HTLGNALRRVL+SS+ G A T V I G Sbjct: 5 SLLKPRIVEVETV---APNSAKVVMEPFERGYGHTLGNALRRVLLSSMIGYAPTEVSIAG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE S++ GV ED+ D++LN+KGI K+ VT+ + GVVTAGDI+ +D+E+ Sbjct: 62 VVHEYSTLDGVQEDVVDLLLNLKGIVFKLESRDVVTVTLKREVEGVVTAGDIELPHDVEI 121 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVS 184 +NPDHVI +L + M++ V KG GYVP R ++P G I +DA +SP+K+VS Sbjct: 122 INPDHVIAHLSQGGKLDMQIKVEKGRGYVPGSVRRFPDEPSKAIGRIVLDASFSPVKRVS 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VESAR Q D D+L M+I+T+G ++ E+S+ LA+RIL +QL +F E + + Sbjct: 182 YAVESARVEQRTDLDRLVMSIETNGVLSPEESIRLAARILVEQLSVFAALEN---TAEPE 238 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 ++ ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 239 VSQRAPQVDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLN 298 Query: 305 EIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL GL LGM L +WPP +++ Sbjct: 299 EIKEVLAARGLTLGMKLENWPPAGLDK 325 >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 = 354 bits (908), Expect = 1e-95, Method: Composition-based stats. Identities = 140/314 (44%), Positives = 203/314 (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 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKV 183 ++LNPD I + A M +T KG GYV A ++T + 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|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 = 354 bits (908), Expect = 1e-95, Method: Composition-based stats. Identities = 138/313 (44%), Positives = 202/313 (64%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP IE I E + + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDG Sbjct: 3 EFEKPR-IEKI---DENRDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 LKLHDLGLGLRKD 311 >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 = 140/313 (44%), Positives = 201/313 (64%), Gaps = 4/313 (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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 NKLAELGLSLRQD 311 >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 = 354 bits (908), Expect = 1e-95, Method: Composition-based stats. Identities = 163/335 (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---LLKPKAINVEQLG---HNRAKVALEPFERGYGHTLGNAIRRVLLSSMVGYAAT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYS 178 +D+E++NPDHVI NL + M++ V KG GYVP R ++ G I +DA +S Sbjct: 115 PHDVEIVNPDHVIANLSAGGKLDMQIKVEKGRGYVPGNLRRYADESTKSIGRIVLDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--E 236 P+K+VSYTVESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F E E Sbjct: 175 PVKRVSYTVESARVEQRTDLDKLVVEIETNGAITAEDAVRASAKILVEQLAVFAQLEGGE 234 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 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|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 = 354 bits (908), Expect = 1e-95, Method: Composition-based stats. Identities = 140/324 (43%), Positives = 205/324 (63%), Gaps = 4/324 (1%) 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 D P+ EE Sbjct: 301 QKLHSLGLSLKK--SDSTPKEEEE 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 = 354 bits (908), Expect = 1e-95, Method: Composition-based stats. Identities = 141/313 (45%), Positives = 201/313 (64%), Gaps = 4/313 (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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 NKLADLGLSLRQD 311 >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 (908), Expect = 1e-95, Method: Composition-based stats. Identities = 134/311 (43%), Positives = 197/311 (63%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+I+P IE I+ E+ + EPL RG+ TLGN+LRRVL+SSL GAA +V+IDG Sbjct: 3 EMIEP-KIE-IIEQSEDGTYGKFVVEPLERGYGITLGNSLRRVLLSSLPGAAPKSVKIDG 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 GVLGTMGLFLG 318 L +GL L Sbjct: 301 QKLEALGLSLK 311 >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 = 353 bits (907), Expect = 2e-95, 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|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 = 353 bits (907), Expect = 2e-95, Method: Composition-based stats. Identities = 129/313 (41%), Positives = 203/313 (64%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP ++ I L E+ + EPL RG+ T+GNALRR+L+SSL G A+ AV+I+G Sbjct: 3 EIEKP-KVDIIELS-EDFRYGKFVVEPLERGYGITIGNALRRILLSSLPGVAVNAVKIEG 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 GVLGTMGLFLGMN 320 L +GL L N Sbjct: 301 QKLDELGLGLKPN 313 >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 = 353 bits (907), Expect = 2e-95, Method: Composition-based stats. Identities = 138/315 (43%), Positives = 207/315 (65%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E ++ + EPL RG+ TLGN+LRRVL++SL GAAIT++QIDG Sbjct: 3 EFEKPN----IHKVEETDSYGKFVVEPLERGYGTTLGNSLRRVLLASLPGAAITSIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T IILN+K ++LK+ + K + I +GP VTAGDIQ ++EV Sbjct: 59 VLHEFSTVEGVTEDVTQIILNLKKVSLKLDSEEQKDLEIDVKGPAEVTAGDIQGDGEVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 185 LNPD I + A + +++T KG GY+ A ++ ++ 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 IKGVLGTMGLFLGMN 320 IK L +G+ + Sbjct: 299 IKLKLNDLGVSFRQD 313 >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 = 353 bits (907), Expect = 2e-95, 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---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 VP---EQKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 327 >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 = 353 bits (907), Expect = 2e-95, Method: Composition-based stats. Identities = 151/333 (45%), Positives = 217/333 (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--SLLKPRIIDVQSVSPVQ---ARVTMEPFERGFGHTLGNALRRILLSSLPGYAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSP 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 VVEQSA---AQTIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTETELLKTPNLG 292 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEEL 332 RKSL EIK VL + GL LGM L +WPP +E+L Sbjct: 293 RKSLNEIKEVLASRGLTLGMKLENWPPAGLEKL 325 >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 = 353 bits (907), Expect = 2e-95, Method: Composition-based stats. Identities = 155/333 (46%), Positives = 214/333 (64%), Gaps = 11/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + L+KP IE VLG ++ EP RG+ HTLGNALRRVL+SS+ G A T Sbjct: 1 MQNS---LLKPRIIEVEVLG---AGHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYS 178 +D+E++NPDHVI +L + M++ V KG GYVP R N IG 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|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 = 353 bits (907), Expect = 2e-95, Method: Composition-based stats. Identities = 153/336 (45%), Positives = 219/336 (65%), Gaps = 9/336 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+EV NPDHVIC L D + + L +G GY PA D IG + +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 QTTATEQEDE---VDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S++ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLKNDER 330 >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 = 353 bits (907), Expect = 2e-95, Method: Composition-based stats. Identities = 142/324 (43%), Positives = 210/324 (64%), Gaps = 4/324 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP I L Q ++ + EPL RG+ T+GNALRR L+SSL GAA+TAV+IDG Sbjct: 3 EIQKPT-IRCEELSQ-DQKYGRYVIEPLERGYGITIGNALRRTLLSSLPGAAVTAVKIDG 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 GVLGTMGLFLGMNLPDWPPESIEE 331 L ++GL L D P+ EE Sbjct: 301 QKLHSLGLSLKK--SDSTPKGEEE 322 >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 = 353 bits (907), Expect = 2e-95, Method: Composition-based stats. Identities = 156/337 (46%), Positives = 224/337 (66%), Gaps = 2/337 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW EL+KP +E + + EPL RGF TLGNALRRVL+SSL+GAAI A Sbjct: 13 RNWTELVKPETLERD--SASTDTHGRFVCEPLERGFGTTLGNALRRVLLSSLQGAAIVAA 70 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+GV HE S+I GV ED+T++ILN+K + L M+ + +R+T+F G V A IQ Sbjct: 71 RIEGVQHEFSTIPGVIEDVTEVILNLKQVRLAMATEDPQRLTLFANKKGEVLASAIQGNQ 130 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 ++ VL+ D +I L D R+EL V G GYV A H + IGLI +D+ +SP+KKV Sbjct: 131 NVTVLSEDVLIATLSEDRDFRIELEVRMGKGYVTADMHEGLDSEIGLILLDSSFSPVKKV 190 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +YT+E AR GQ+ +YDKL + +DTDGSI+ ED+++ +++IL+DQL +FINF+E + E + Sbjct: 191 AYTIEQARVGQMTNYDKLVLEVDTDGSISPEDAISYSAKILKDQLTVFINFDEKESEADK 250 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + NP+L K ++ELELSVR+TNCL+ NI +G+L+Q+TE +ML+ NFG+KSL Sbjct: 251 ARRRDDIELNPSLFKSIDELELSVRATNCLKSANIQTVGELMQKTENEMLKTKNFGKKSL 310 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 EI+ VL MGL GM + ++ + E L +K D+ Sbjct: 311 EEIRRVLEDMGLEFGMRIENFEQKYQEWLKRKQVDET 347 >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 = 353 bits (907), Expect = 2e-95, Method: Composition-based stats. Identities = 158/336 (47%), Positives = 224/336 (66%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 178 +DIE+ NPDH+IC L+ + V M+LTV++G GY PA E IG + +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 QAVTSDAEDE---VDPVLLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L WPP S+ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLESWPPASLRNDEK 330 >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 = 353 bits (906), Expect = 2e-95, Method: Composition-based stats. Identities = 141/324 (43%), Positives = 205/324 (63%), Gaps = 4/324 (1%) 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 D P+ EE Sbjct: 301 QKLHSLGLSLKK--SDSTPKEEEE 322 >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 = 353 bits (906), Expect = 2e-95, Method: Composition-based stats. Identities = 154/333 (46%), Positives = 214/333 (64%), Gaps = 11/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + L+KP IE VLG ++ EP RG+ HTLGNALRRVL+SS+ G A T Sbjct: 1 MQNS---LLKPRIIEVEVLG---AGHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYS 178 +D+E++NPDHVI +L + M++ V KG GYVP R N IG 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|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 = 353 bits (906), Expect = 2e-95, 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---IEQVNSTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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+ + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFVELRDV- 236 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 ++ + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 237 --TEQAVVEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 327 >gi|307694123|ref|ZP_07636360.1| DNA-directed RNA polymerase subunit alpha [Ruminococcaceae bacterium D16] Length = 316 Score = 353 bits (906), Expect = 2e-95, Method: Composition-based stats. Identities = 132/313 (42%), Positives = 194/313 (61%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP V + + + EPL RG+ TLGN+LRR+L+SSL G A+T+++I G Sbjct: 3 EIEKPRI--DCVENPGDASYGKYVVEPLERGYGTTLGNSLRRILLSSLPGTAVTSIKIAG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE S+I G+ ED+T+I+LNIK I K+ + +K V I G VTAGDI+ D+E+ Sbjct: 61 VQHEFSTIPGIKEDVTEIVLNIKSIIAKLHCEENKTVHIEASGECEVTAGDIKCDADVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I L DA + MELT+S G GYVPA ++ IGLI +D++Y+P++KV+YTV Sbjct: 121 LNPELHIATLGPDATLSMELTLSHGRGYVPADRNKPAQTIIGLIPVDSIYTPVRKVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R G DYDKL++ + TDG+I D+V+L +RIL D +F + E + Sbjct: 181 ENTRVGDATDYDKLTLEVWTDGTIDARDAVSLGARILCDHFALFTDLSETMGSRSTVVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + +++++LSVRS NCL+ NI + DLI +TE +M+++ N GRKSL E+ Sbjct: 241 AETQRDKVMEMTIDDMDLSVRSYNCLKRANINTVEDLISKTEEEMMKVRNLGRKSLEEVI 300 Query: 308 GVLGTMGLFLGMN 320 L MGL L + Sbjct: 301 NKLAMMGLSLASD 313 >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 = 353 bits (906), Expect = 2e-95, 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-KIETIEIS-DDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 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|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 = 353 bits (906), Expect = 2e-95, Method: Composition-based stats. Identities = 124/308 (40%), Positives = 186/308 (60%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV Sbjct: 11 EETVNETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVK 70 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+TDIILN+K + + D + + K+GPG VTA DI + V NPD I +L+ Sbjct: 71 EDVTDIILNLKELVVSSEEDEPVTMYLRKQGPGEVTAADIVPPAGVTVHNPDLHIASLNG 130 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+D Sbjct: 131 KGKLEIELVVERGRGYVPALQNKQAGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFD 190 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + ++T SIT D+VA A + L + G+ + ++ + + A Sbjct: 191 KLILDVETKPSITARDAVASAGKTLVELFGLARELNVDAEGIEIGPSPQEADTIAAYAMP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L +GL L Sbjct: 251 IEDLDLTVRSYNCLKREGIHTVGELVSRSEADLLDIRNFGAKSIDEVKLKLVGLGLALKD 310 Query: 320 NLPDWPPE 327 + P + P Sbjct: 311 SPPGFDPS 318 >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 = 353 bits (906), Expect = 2e-95, 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 MQSNA--LLKPRIIDVQSISPVQ---ARVTMEPFERGFGHTLGNALRRILLSSLPGHAPT 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|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 = 353 bits (906), Expect = 2e-95, Method: Composition-based stats. Identities = 124/307 (40%), Positives = 186/307 (60%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVLHE S++ GV Sbjct: 37 EDPISEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVLHEFSTVPGVK 96 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+TD+ILN+K + + D + + K+GPG VTA DI +EV NPD + L+ Sbjct: 97 EDVTDLILNLKELVVSSDNDEPTVMYLRKQGPGEVTAADIAPPAGVEVHNPDLHLATLND 156 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + +ELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ R Q D+D Sbjct: 157 KGKLEIELTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSPVLKVTYKVEATRVEQRTDFD 216 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 +L + ++T SI+ D++A A + L G+ + V + L Sbjct: 217 RLIVDVETKQSISPRDAMASAGKTLVGLFGLAQELNAEAEGVDIGPSAADAALAADLALP 276 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +EE++L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K LG MGL L Sbjct: 277 IEEMDLTVRSYNCLKREGIHTIGELVSRSEADLLDIRNFGQKSIDEVKTKLGAMGLQLKD 336 Query: 320 NLPDWPP 326 + P + P Sbjct: 337 SPPGFDP 343 >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 = 353 bits (906), Expect = 2e-95, Method: Composition-based stats. Identities = 138/311 (44%), Positives = 197/311 (63%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+I+P IE IV E+ + EPL RG+ TLGN+LRRVL+SSL GAA +V+IDG Sbjct: 3 EIIEP-KIE-IVEQAEDGTYGKFVVEPLERGYGITLGNSLRRVLLSSLPGAAPKSVKIDG 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 GVLGTMGLFLG 318 L +GL L Sbjct: 301 QKLQALGLSLK 311 >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 = 353 bits (906), Expect = 2e-95, Method: Composition-based stats. Identities = 137/313 (43%), Positives = 208/313 (66%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + ++ + EPL RG+ TLGN+LRR+L+SSL GAA+T+V+IDG Sbjct: 3 EIEKP-KIEIVEMS-DDNTYGKFVVEPLERGYGITLGNSLRRILLSSLPGAAVTSVKIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 NKLHELGLSLRKD 313 >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 = 353 bits (906), Expect = 2e-95, Method: Composition-based stats. Identities = 119/306 (38%), Positives = 189/306 (61%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 ++R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T Sbjct: 15 TDSRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVT 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 DIILN+K + + D + + K+GPG VTAGDI + V NP+ I L+ + Sbjct: 75 DIILNLKALVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPNMRIATLNDKGKL 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 SIT D++A A + L + G+ + ++ + + +++L Sbjct: 195 DVETKNSITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALPIDDL 254 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL L + P Sbjct: 255 DLTVRSYNCLKREGVHTVGELVSRTESDLLDIRNFGQKSIDEVKVKLHQLGLSLKDSPPS 314 Query: 324 WPPESI 329 + P + Sbjct: 315 FDPSEV 320 >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 = 353 bits (906), Expect = 3e-95, 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-KIETIEIS-DDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 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|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 = 353 bits (906), Expect = 3e-95, Method: Composition-based stats. Identities = 128/334 (38%), Positives = 201/334 (60%), Gaps = 9/334 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLTEEVV----ADNRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+T+IILNIK I + D + + K+GPGVVTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTEIILNIKNIVVSSENDEPVVMYLRKQGPGVVTAADITPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I ++ + +ELTV +G GYV A+ ++ + IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLHIATVNGKGKLEVELTVERGRGYVSAQQNKAYDTEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + +++ +I+ D+VA A + L + G+ + ++ + Sbjct: 182 RVEQRTDFDKLIVDVESKPAISPRDAVASAGKTLVELFGLARELNTAAEGIEIGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +E+L+L++RS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEDLDLTIRSYNCLKREGIHQVGELVARSEADLLDIRNFGAKSITEVKEKL 301 Query: 311 GTMGLFLGMNLPDWPPESIE-----ELAKKYEDK 339 +GL L + D+ P + +L Y D+ Sbjct: 302 AALGLSLKDSPADFDPSLVTDAYDGDLDADYADE 335 >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 = 353 bits (906), Expect = 3e-95, Method: Composition-based stats. Identities = 137/311 (44%), Positives = 203/311 (65%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE V+ E+ + EPL RG+ TLGN+LRR+L+SSL G A+T+++IDG Sbjct: 3 EIEKP-KIE-CVVCSEDNRYGKFVVEPLERGYGITLGNSLRRILLSSLPGVAVTSIKIDG 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|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 = 353 bits (906), Expect = 3e-95, Method: Composition-based stats. Identities = 161/340 (47%), Positives = 227/340 (66%), 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 KEDINVKSLPFNPALLK-KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 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|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 = 353 bits (905), Expect = 3e-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-KIECVETS-EDGNYGKFVVEPLERGYGITLGNALRRILLSSLPGVAANHIKIDG 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|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 = 353 bits (905), Expect = 3e-95, Method: Composition-based stats. Identities = 140/324 (43%), Positives = 205/324 (63%), Gaps = 4/324 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP + + EPL RG+ T+GNALRR L+SSL GAA+TAV+IDG Sbjct: 3 EFQKPAI--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 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 D P+ EE Sbjct: 301 QKLHSLGLSLKK--SDSTPKEEEE 322 >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 = 353 bits (905), Expect = 3e-95, Method: Composition-based stats. Identities = 136/313 (43%), Positives = 200/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E+++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDG Sbjct: 3 EFEKPR----IAKIDEDKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLHDLGLGLRKD 311 >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 = 353 bits (905), Expect = 3e-95, Method: Composition-based stats. Identities = 160/334 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYS 178 +D+E++NPDHVI +L + M++ V KG GYVP R ++P G 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 KEVKEDINV-KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 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|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 = 352 bits (904), Expect = 3e-95, 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-KIETIEIS-DDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 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|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 = 352 bits (904), Expect = 3e-95, Method: Composition-based stats. Identities = 133/313 (42%), Positives = 203/313 (64%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE V E+ + + EPL RG+ TLGN+LRR+L+SSL G A +V+I+G Sbjct: 3 EIEKP-KIE-CVESTEDGSYGRFVVEPLERGYGITLGNSLRRILLSSLPGVAANSVRIEG 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|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 = 352 bits (904), Expect = 4e-95, Method: Composition-based stats. Identities = 138/313 (44%), Positives = 201/313 (64%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP IE I E + + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDG Sbjct: 3 EFEKPR-IEKI---DENRDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 LKLHDLGLGLRKD 311 >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 = 352 bits (904), Expect = 4e-95, Method: Composition-based stats. Identities = 152/333 (45%), Positives = 213/333 (63%), Gaps = 11/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + L+KP IE LG ++ EP RG+ HTLGNALRRVL+SS+ G A T Sbjct: 1 MQNS---LLKPRIIEVETLG---AGHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYS 178 +D+E++NPDHVI +L + M++ V KG GYVP R N IG 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 + S+ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N Sbjct: 235 AAAEAPSRAPSV--DPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRSENELLKTPNL 292 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LGM L +WPP +E+ Sbjct: 293 GRKSLNEIKEVLASRGLTLGMKLENWPPAGLEK 325 >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 = 352 bits (904), Expect = 4e-95, Method: Composition-based stats. Identities = 139/324 (42%), Positives = 205/324 (63%), Gaps = 4/324 (1%) 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 D P+ EE Sbjct: 301 QKLHSLGLSLKK--SDSTPKEEEE 322 >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 = 352 bits (904), Expect = 4e-95, Method: Composition-based stats. Identities = 151/334 (45%), Positives = 224/334 (67%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVN---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 RQPV---VKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 352 bits (904), Expect = 4e-95, Method: Composition-based stats. Identities = 136/310 (43%), Positives = 208/310 (67%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE IV ++ + EPL RG+ TLGN+LRR+L+SSL GAA ++IDG Sbjct: 4 EIEKP-KIE-IVEQSNDDTYAKFVIEPLERGYGITLGNSLRRMLLSSLPGAAAKTIKIDG 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|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 = 352 bits (904), Expect = 4e-95, Method: Composition-based stats. Identities = 158/336 (47%), Positives = 218/336 (64%), 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---LLKPKAINVEQLG---HNRAKVELEPFERGYGHTLGNAIRRVLLSSMVGYAAT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYS 178 +D+E++NPDHVI L + M++ V KG GYVP R ++ G I +DA +S Sbjct: 115 PHDVEIVNPDHVIATLSAGGKLDMQIKVEKGRGYVPGNLRRFADESTKSIGRIVLDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+K+VSYTVESAR Q D DKL + I+T+G+I+ E++V +++IL +QL +F + + Sbjct: 175 PVKRVSYTVESARVEQRTDLDKLVLEIETNGAISAEEAVRASAKILVEQLAVFAQLDGGE 234 Query: 239 KEVKEDINVKSLP---FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 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|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 = 352 bits (904), Expect = 4e-95, Method: Composition-based stats. Identities = 136/313 (43%), Positives = 200/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E+++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDG Sbjct: 3 EFEKPR----IAKIDEDKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLHDLGLGLRKD 311 >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 = 352 bits (904), Expect = 4e-95, Method: Composition-based stats. Identities = 139/324 (42%), Positives = 204/324 (62%), Gaps = 4/324 (1%) 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 D P+ EE Sbjct: 301 QKLHSLGLSLKK--SDSTPKEEEE 322 >gi|313606573|gb|EFR83374.1| DNA-directed RNA polymerase, alpha subunit [Listeria monocytogenes FSL F2-208] Length = 314 Score = 352 bits (904), Expect = 4e-95, 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-KIETIEIS-DDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 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|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 = 352 bits (903), Expect = 4e-95, Method: Composition-based stats. Identities = 157/334 (47%), Positives = 217/334 (64%), Gaps = 9/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ V+ R + EP+ RGF +TLGNALRRVL+SS+ G AIT Sbjct: 1 MQNSPTEYLKPRVVDVDVISPV---RARVTLEPMERGFGYTLGNALRRVLLSSIPGFAIT 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 SEVEV---KQAPQVDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKAPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEEL 332 GRKSL EIK VL + GL LGM L +WPP +E++ Sbjct: 295 GRKSLNEIKDVLASKGLTLGMKLENWPPAGLEKV 328 >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 = 352 bits (903), Expect = 4e-95, Method: Composition-based stats. Identities = 159/333 (47%), Positives = 214/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ R + +P RGF HTLGNALRR+L+SS+ G A T Sbjct: 1 MQNSTTEFLKPRQIDVNTFS---ATRAKVSMQPFERGFGHTLGNALRRILLSSMNGFAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 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 PISRVSFEVEPARVEQRTDLDKLVLDIETDGSIDPEEAVRSAARILIDQMSIFADL---Q 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|149675708|dbj|BAF64734.1| DNA-directed RNA polymerase alpha subunit [Shewanella livingstonensis] Length = 329 Score = 352 bits (903), Expect = 5e-95, Method: Composition-based stats. Identities = 143/333 (42%), 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---IEQVNSTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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+ + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFVELRDV- 236 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 ++ + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 237 --TEQAVVEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL +IK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTDIKDVLASRGLSLGMRLENWPPASLAD 327 >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 = 352 bits (903), Expect = 5e-95, Method: Composition-based stats. Identities = 161/340 (47%), Positives = 227/340 (66%), 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 KEDINVKSLPFNPALLK-KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 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|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 = 352 bits (903), Expect = 5e-95, Method: Composition-based stats. Identities = 140/313 (44%), Positives = 201/313 (64%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDG Sbjct: 3 EFEKPR----IAKIDEEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLHDLGLGLRKD 311 >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 = 140/313 (44%), Positives = 201/313 (64%), Gaps = 4/313 (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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 NKLTDLGLSLRQD 311 >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 = 352 bits (903), Expect = 5e-95, 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---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 ETAPVE---EKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 327 >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 = 352 bits (903), Expect = 5e-95, 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|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 = 352 bits (903), Expect = 5e-95, Method: Composition-based stats. Identities = 142/316 (44%), Positives = 205/316 (64%), Gaps = 1/316 (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 IKGVLGTMGLFLGMNL 321 IK +L MGL LGM + Sbjct: 301 IKEILANMGLSLGMRI 316 >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 = 352 bits (903), Expect = 5e-95, Method: Composition-based stats. Identities = 154/335 (45%), Positives = 215/335 (64%), Gaps = 1/335 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW +L++P I + EPL RG+ T+GNALRRVL+SSL+GAA AV Sbjct: 13 RNWAKLVRPEQI-VCDSDPNDTMYGKFTYEPLERGYGVTIGNALRRVLLSSLQGAAFVAV 71 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I GV HE ++I GV ED+TD+ILNIK + L M+ D + +T+ G VTA DI T Sbjct: 72 KISGVQHEFTTIPGVLEDITDVILNIKQVRLGMTTDEPQHLTLSVSKKGPVTAADIMTNA 131 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 ++EVLNP+ I L D + ME V G GYVPA H D IGLI +DA +SP++KV Sbjct: 132 NVEVLNPELHIATLTEDMELSMEFEVRMGKGYVPADMHEGLPDTIGLIKLDASFSPVRKV 191 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +YTVE AR GQ+ +YDKL + + TDGS+ ED++A +++I++DQ+ +FI+F+E Sbjct: 192 AYTVEQARVGQMTNYDKLILEVWTDGSVLPEDAIAYSAKIIKDQISVFISFDERISGESG 251 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 S N L K ++ELELSVR+TNCLR NI +G+L+QR EA+ML+ NFG+KSL Sbjct: 252 GEGGGSADINDNLFKGIDELELSVRATNCLRSANIATVGELVQRPEAEMLKTKNFGKKSL 311 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 EIK VL +MGL GM + ++ + E K++ + Sbjct: 312 DEIKAVLESMGLDFGMKIDNFEKKYQEWKRKQHHE 346 >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 = 352 bits (903), Expect = 5e-95, Method: Composition-based stats. Identities = 153/333 (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 MQSNA--LLKPRIIDVQSTSPVQ---ARVTMEPFERGFGHTLGNALRRILLSSLPGHAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSP 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 ER---VEAASPTIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTETELLKTPNLG 292 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEEL 332 RKSL EIK VL + GL LGM L +WPP +E+L Sbjct: 293 RKSLNEIKEVLASRGLTLGMKLENWPPAGLEKL 325 >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 = 352 bits (903), Expect = 5e-95, Method: Composition-based stats. Identities = 145/333 (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---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 EAAPVE---EKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 327 >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 = 352 bits (903), Expect = 6e-95, Method: Composition-based stats. Identities = 122/319 (38%), Positives = 193/319 (60%), Gaps = 4/319 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E ++ ENR+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLSEEVI----AENRSKFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+T+IILN+KG+ + D + + K+GPG VT DI + V NP Sbjct: 62 EFTTVPGVKEDVTNIILNLKGLVVSSEEDEPVTMYVRKQGPGAVTGADIVPPAGVTVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLHIATLNDKGKLEIELVVERGRGYVPAVQNKATGAEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T S+T D++A A + L + G+ + ++ + + Sbjct: 182 RVEQRTDFDRLVLDVETKNSMTARDALASAGKTLVELFGLARELNVEAEGIEIGPSPQEA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 A +E+LEL+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L Sbjct: 242 DHIAAFSLPIEDLELTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKVKL 301 Query: 311 GTMGLFLGMNLPDWPPESI 329 ++GL L + + P + Sbjct: 302 HSLGLALKDSPASFDPSQV 320 >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 = 351 bits (902), Expect = 6e-95, Method: Composition-based stats. Identities = 137/310 (44%), Positives = 207/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE IV ++ + EPL RG+ TLGN+LRR+L+SSL GAA ++IDG Sbjct: 4 EIEKP-KIE-IVEQSNDDTYAKFVIEPLERGYGITLGNSLRRMLLSSLPGAAAKTIKIDG 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|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 = 351 bits (902), Expect = 7e-95, Method: Composition-based stats. Identities = 157/333 (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 MQNSTTEFLKPRQIDVNTFS---ATRAKVSMQPFERGFGHTLGNALRRILLSSMNGFAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 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 PISRVSFEVEPARVEQRTDLDKLVLDIETDGSIDPEEAVRSAARILIDQMSIFADL---Q 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|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 = 351 bits (902), Expect = 7e-95, Method: Composition-based stats. Identities = 155/335 (46%), Positives = 218/335 (65%), Gaps = 8/335 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEE-ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 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 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALY 177 T +D+E++NPDHVI +L + M++ V KG GYVP R ++P G 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 KKEVKEDINVK-SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 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|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 = 351 bits (901), Expect = 7e-95, 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---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 ETAPVE---EKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 327 >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 = 351 bits (901), Expect = 8e-95, Method: Composition-based stats. Identities = 132/313 (42%), Positives = 207/313 (66%), Gaps = 2/313 (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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 NKLTELGLSLKDS 313 >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 = 351 bits (901), Expect = 8e-95, Method: Composition-based stats. Identities = 157/328 (47%), Positives = 212/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I LG EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPKIIAVESLG---ENHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIA 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKV 183 V+NPDHVI +L + +++ V KG GYVP R D IG 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 E Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETTGVITPEEAIRQSARILVDQLSVFAALE--GTETAA 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 238 EAPSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >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 = 351 bits (901), Expect = 8e-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|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 = 351 bits (901), Expect = 8e-95, Method: Composition-based stats. Identities = 150/334 (44%), Positives = 224/334 (67%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTQAKVVLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 ++ +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|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 = 351 bits (901), Expect = 8e-95, Method: Composition-based stats. Identities = 138/313 (44%), Positives = 202/313 (64%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP IE I E + + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDG Sbjct: 3 EFEKPR-IEKI---DENRDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 LNLHDLGLGLRKD 311 >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 = 351 bits (901), Expect = 8e-95, Method: Composition-based stats. Identities = 149/334 (44%), Positives = 223/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVN---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALY 177 D+E++NPDHVIC+L D +A + M + V +G GYVPA + ++ 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|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 = 351 bits (901), Expect = 8e-95, Method: Composition-based stats. Identities = 155/331 (46%), Positives = 216/331 (65%), Gaps = 9/331 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSP 179 +DIEVLNPDHVI +L + ME+ + G GY PA + 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 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 RKSL EIK VL + GL LGM L +WPP +E Sbjct: 294 RKSLNEIKDVLASKGLSLGMKLENWPPAGLE 324 >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 = 351 bits (901), Expect = 8e-95, Method: Composition-based stats. Identities = 143/337 (42%), Positives = 218/337 (64%), Gaps = 2/337 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW EL++P +E + + + EPL RGF T+GNALRRVL+SSL+GAA +V Sbjct: 14 RNWAELVRPEQLEKDP--KCNDMYGRFVCEPLERGFGTTIGNALRRVLLSSLQGAAPVSV 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 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 +I+ VL +MGL G+ + ++ + L + ED+ Sbjct: 312 EDIRRVLESMGLDFGIRVDNFDELYQDWLKRNEEDEA 348 >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 = 351 bits (900), Expect = 1e-94, Method: Composition-based stats. Identities = 156/333 (46%), Positives = 215/333 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 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 PISRVSFEVEPARVEQRTDLDKLVLDIETNGSIDPEEAVRSAARILIDQMSIFADL---Q 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|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 (900), Expect = 1e-94, 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-KIETVEIS-EDATFGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTAVQIDG 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|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 = 351 bits (900), Expect = 1e-94, Method: Composition-based stats. Identities = 158/333 (47%), 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 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 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 PISRVSFEVEPARVEQRTDLDKLVLDIETDGSLDPEEAVRSAARILIDQMSIFADL---Q 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|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 = 351 bits (900), Expect = 1e-94, Method: Composition-based stats. Identities = 155/333 (46%), Positives = 215/333 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 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 PISRVSFEVEPARVEQRTDLDKLVLDIETNGSIDPEEAVRSAARILIDQMSIFADL---Q 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|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 = 351 bits (900), Expect = 1e-94, 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----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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 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|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 = 351 bits (900), Expect = 1e-94, Method: Composition-based stats. Identities = 152/328 (46%), Positives = 213/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I LG +N ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPKIIAVDSLG---DNHAKVVMEPFERGYGHTLGNALRRVLLSSMIGYAPTEVTIA 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKV 183 V+NP+HVI +L + +++ V KG GYVP R ++ IG 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 E Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALE--GTETTA 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 238 EAPSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >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 = 351 bits (900), Expect = 1e-94, Method: Composition-based stats. Identities = 137/313 (43%), Positives = 195/313 (62%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE V + + + EPL RG+ TLGN+LRR+L+SSL G A+T+++I G Sbjct: 3 EIEKPR-IE-CVENPGDGSYGKYVVEPLERGYGTTLGNSLRRILLSSLPGTAVTSIKIAG 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|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 = 351 bits (900), Expect = 1e-94, Method: Composition-based stats. Identities = 139/310 (44%), Positives = 199/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDG Sbjct: 3 EFEKPR----IAKIDEEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDG 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|301628933|ref|XP_002943603.1| PREDICTED: DNA-directed RNA polymerase subunit alpha-like [Xenopus (Silurana) tropicalis] Length = 332 Score = 351 bits (900), Expect = 1e-94, Method: Composition-based stats. Identities = 163/337 (48%), Positives = 220/337 (65%), 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---LLKPKTIQVEQLG---HNRAKVELEPFERGYGHTLGNALRRVLLSSMVGYAAT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYS 178 +D+E++NPDHVI +L A + M++ V KG GYVP R ++P G 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|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 = 350 bits (899), Expect = 1e-94, Method: Composition-based stats. Identities = 161/335 (48%), Positives = 216/335 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYS 178 +D+E++NPDHVI NL + M++ V G GYVP R ++ G 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|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 = 350 bits (899), Expect = 1e-94, 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|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 = 350 bits (899), Expect = 1e-94, Method: Composition-based stats. Identities = 156/333 (46%), Positives = 215/333 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 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 PISRVSFEVEPARVEQRTDLDKLVLDIETNGSIDPEEAVRSAARILIDQMSIFADL---Q 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|221133740|ref|ZP_03560045.1| DNA-directed RNA polymerase subunit alpha [Glaciecola sp. HTCC2999] Length = 326 Score = 350 bits (899), Expect = 1e-94, Method: Composition-based stats. Identities = 146/331 (44%), Positives = 223/331 (67%), Gaps = 9/331 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 + E +KP ++ + R ++ EPL RGF HTLGNALRR+L+SS+ G A+T V Sbjct: 2 GSVTEFLKPRLVDIENVS---PTRAKVVLEPLERGFGHTLGNALRRILLSSMPGVAVTEV 58 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G + +T+ K G G V AGDIQ Sbjct: 59 EIDGVLHEYSTKEGVQEDVIEILLNLKGLAVRLEGKTEATLTLVKSGAGAVVAGDIQHDG 118 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPI 180 D+E++NP+HVIC L +A V M + V G GYVPA R+ ++ PIG + +DA +SP+ Sbjct: 119 DVEIINPEHVICTLTGEAEVSMRIKVETGRGYVPASVRRSSEEDDRPIGRLLVDASFSPV 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++++Y+VESAR Q D DKL + ++T+G++ E+++ ++ IL +QL F++ + + Sbjct: 179 ERIAYSVESARVEQRTDLDKLIIDMETNGTLDPEEAIRRSATILAEQLDAFVDLRDVSQP 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + F+P LL+ V++LEL+VRS NCL+ E + Y+GDL+QRTE ++L+ N G+ Sbjct: 239 ---EAKEEKPEFDPILLRPVDDLELTVRSANCLKAEAVQYIGDLVQRTEVELLKTPNLGK 295 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 KSL EIK VL + GL LGM L +WPPESI + Sbjct: 296 KSLTEIKDVLASRGLSLGMRLENWPPESIAD 326 >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 = 350 bits (899), Expect = 1e-94, Method: Composition-based stats. Identities = 156/328 (47%), Positives = 214/328 (65%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I LG EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPKIIAVESLG---ENHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIA 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKV 183 V+NP+HVI +L + +++ V KG GYVP R ++ IG 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 E Sbjct: 180 SYTVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALE--GTETAA 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 238 EAPSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >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 = 350 bits (899), Expect = 2e-94, Method: Composition-based stats. Identities = 147/331 (44%), Positives = 219/331 (66%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ E + P IE + Q + EPL RGF HTLG+ALRR+L+SS+ G A+ Sbjct: 1 MQRSLNEFLTPRTIE---VNQINATHAKVTLEPLERGFGHTLGSALRRILLSSMPGCAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYS 178 +D+E+ NPD VICNL+ + V+M+L V++G GY PA + +D G + +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 + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EPE---KVEEQEEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASI 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 = 350 bits (899), Expect = 2e-94, Method: Composition-based stats. Identities = 151/325 (46%), Positives = 209/325 (64%), Gaps = 7/325 (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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSY 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 EVENARVGQRTDQDKLILDIETNGVLTPEDAVRQAARILMDQISVFASLEG-SPNMYEAP 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 IKGVLGTMGLFLGMNLPDWPPESIE 330 IK VL GL LGM L +WPP ++ Sbjct: 301 IKDVLTARGLSLGMKLENWPPIGLD 325 >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 = 350 bits (899), Expect = 2e-94, Method: Composition-based stats. Identities = 140/311 (45%), Positives = 209/311 (67%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+V+IDG Sbjct: 3 EIEKP-KIECVELS-EDNTYGKFVVEPLERGYGITLGNSLRRILLSSLPGAAVTSVKIDG 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 GVLGTMGLFLG 318 L +GL L Sbjct: 301 NKLAELGLSLK 311 >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 = 350 bits (898), Expect = 2e-94, Method: Composition-based stats. Identities = 123/307 (40%), Positives = 187/307 (60%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 E R+ + EPL GF +TLGN+LRR L+SS+ GA++T+++IDGVLHE S++ GV Sbjct: 11 EEPIAEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRIDGVLHEFSTVPGVK 70 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+TD+ILN+K + + D + + K+GPG VTA DI +EV NP+ + ++ Sbjct: 71 EDVTDVILNLKELVVSSDNDEPTVMYLRKQGPGEVTAADIAPPAGVEVHNPELHLATIND 130 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + +ELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ R Q D+D Sbjct: 131 KGKLEIELTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSPVLKVTYKVEATRVEQRTDFD 190 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + ++T SI+ D++A A + L G+ + V + + L Sbjct: 191 KLIVDVETKPSISPRDAMASAGKTLVGLFGLAQELNAEAEGVDIGPSAQDAQLAADLALP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +EE++L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K LG MGL L Sbjct: 251 IEEMDLTVRSYNCLKREGIHTIGELVSRSEADLLDIRNFGQKSIDEVKTKLGAMGLQLKD 310 Query: 320 NLPDWPP 326 + P + P Sbjct: 311 SPPGFDP 317 >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 = 350 bits (898), Expect = 2e-94, Method: Composition-based stats. Identities = 150/334 (44%), Positives = 222/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 350 bits (898), Expect = 2e-94, Method: Composition-based stats. Identities = 146/329 (44%), Positives = 218/329 (66%), 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 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPI 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 + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G+ Sbjct: 238 ---EPEKEEPEIDPILLRPVDDLELTVRSANCLKTENIHYIGDLVQRTEVELLKTPNLGK 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 KSL EIK VL + GL LGM L +WPP SI Sbjct: 295 KSLTEIKDVLASRGLSLGMRLENWPPSSI 323 >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 = 350 bits (898), Expect = 2e-94, Method: Composition-based stats. Identities = 122/328 (37%), Positives = 194/328 (59%), Gaps = 4/328 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V +NR+ I EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLSEEVV----SDNRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+T+IILNIK +++ D + K+GPGVVTA DI +E NP Sbjct: 62 EFTTVPGVKEDVTEIILNIKNLSVSSEHDEPVVAYLRKQGPGVVTAADIAPPAGVEFHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ +ELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ Sbjct: 122 DLHIATLNSKGKFELELTIERGRGYVSAAQNKSGDAEIGRIPVDSIYSPVLKVTFRVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T +I D+VA A L + G+ + ++ + Sbjct: 182 RVEQRTDFDRLIVDVETKQAIAPRDAVASAGTTLVELFGLARELNTAAEGIEIGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + +E+L+L+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L Sbjct: 242 ALAADMALPIEDLDLTVRSYNCLKREGIHTVGELVARSEADLMDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYED 338 +GL L + P + + + +D Sbjct: 302 VELGLSLKDSPPGFDLAARAAAIDESDD 329 >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 = 350 bits (898), Expect = 2e-94, Method: Composition-based stats. Identities = 128/311 (41%), Positives = 200/311 (64%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP ++ + L E+ + EPL RG+ T+GNALRR+L+SSL G A+ A++IDG Sbjct: 3 EIEKP-KVDIVELS-EDYRYGKFVIEPLERGYGITIGNALRRILLSSLPGVAVNAIKIDG 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 GVLGTMGLFLG 318 L +GL L Sbjct: 301 QKLEELGLGLK 311 >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 = 350 bits (898), Expect = 2e-94, 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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|326692212|ref|ZP_08229217.1| DNA-directed RNA polymerase subunit alpha [Leuconostoc argentinum KCTC 3773] Length = 314 Score = 350 bits (898), Expect = 2e-94, 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|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 = 350 bits (898), Expect = 2e-94, Method: Composition-based stats. Identities = 119/329 (36%), Positives = 193/329 (58%), Gaps = 4/329 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V ENR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLTEEVV----SENRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+T++ILNIK + + D + + + G VTA DI +E+ NP Sbjct: 62 EFSTVPGVKEDITEVILNIKNLVVSSENDEPVVMYLRREEAGRVTAADITPPAGVEIHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ + +EL V +G GYV A ++ + IG + +D++YSP+ KV+Y VE+ Sbjct: 122 DLHIATLNEKGRLEIELIVERGRGYVSAAQNKGVDGEIGRVPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T +I+ D+VA A + L + G+ + + ++ + Sbjct: 182 RVEQRTDFDKLIVDVETKPAISPRDAVASAGKTLVELFGLAHELNQEAEGIEIGPSPTDQ 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L + +L L+VRS NCL E + +G+L R+EAD+L + NFG+KS+ E+K L Sbjct: 242 ALAADLALPINDLNLTVRSYNCLMREGVHTVGELTARSEADLLDIRNFGQKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYEDK 339 +GL L + + P +++ + + D+ Sbjct: 302 ADLGLSLKDSPAGFDPSALDSYSDDFGDQ 330 >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 = 350 bits (898), Expect = 2e-94, 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-KIEIVEIS-EDNRYGKIVWEPLERGFGITLGNSLRRVLLSSLPGAAVTSVKIDG 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED--- 244 R G V DYDKL++ + TDGS+ E++V+ A+ IL L +F N E + Sbjct: 181 TDTRVGNVTDYDKLTLEVWTDGSMRPEEAVSKAAGILVAHLKLFQNITGTPAEDEAGDGP 240 Query: 245 -INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 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|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 = 350 bits (898), Expect = 2e-94, Method: Composition-based stats. Identities = 155/328 (47%), Positives = 213/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I LG EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPKIIAVESLG---ENHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIA 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKV 183 V+NP+HVI +L + +++ V KG GYVP R ++ IG 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 E Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALE--GTETAA 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 238 EAPSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >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 = 350 bits (898), Expect = 2e-94, Method: Composition-based stats. Identities = 155/336 (46%), Positives = 224/336 (66%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 178 +DIE+ NP+H+IC L+ + V M+LT+++G GY PA E IG + +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 QAVTSDAEDE---VDPVLLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L WPP S+ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLESWPPASLRNDEK 330 >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 = 350 bits (898), Expect = 2e-94, 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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 350 bits (897), Expect = 2e-94, Method: Composition-based stats. Identities = 151/337 (44%), Positives = 214/337 (63%), Gaps = 2/337 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW L+ P +E EN EPL RGF TLGNALRRVL+SSL+GAAI AV Sbjct: 13 RNWSTLVHPETLERD--EDSTENYGKFSCEPLERGFGTTLGNALRRVLLSSLQGAAIVAV 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 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 +I+ V+ +GL GM L + + + + +D+ Sbjct: 311 EDIRKVIHELGLDFGMKLDGFEEQYKKWRERNQQDEA 347 >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 = 350 bits (897), Expect = 2e-94, 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-KIETVEIS-ENATFGKFVVEPLERGYGATLGNSLRRILLSSLPGAAVTTVQIDG 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|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 = 350 bits (897), Expect = 2e-94, Method: Composition-based stats. Identities = 133/316 (42%), Positives = 197/316 (62%), Gaps = 6/316 (1%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 + E P I+L +E+ N + EPL RG+ TLGN+LRRVL+SSL GAAI +V Sbjct: 16 NSMLEFENPK----IMLVEEDSNYGKFVVEPLERGYGTTLGNSLRRVLLSSLPGAAINSV 71 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 QIDGVLHE S+++GV ED+T IILN+K +++++ D K + + GP VTAGDI + Sbjct: 72 QIDGVLHEFSTVEGVVEDVTQIILNLKKVSMRIDSDDEKTLEVNVTGPADVTAGDIAGDS 131 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIK 181 D+E+LN D I + A + M LT +G GYV ++ + PIG++ ID++++PI+ Sbjct: 132 DVEILNGDLHIATVAAGATLHMTLTAVRGRGYVSGDQNKELHDEMPIGVLAIDSIFTPIE 191 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +V+Y VE+ R GQ D+DKL++ + TDGS+T ++V+LA+RI+ D L FI+ E Sbjct: 192 RVNYQVENTRVGQRDDFDKLTLDVWTDGSLTATEAVSLAARIMSDHLNAFIDMSERAITA 251 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + + P +EEL+LSVRS NCL+ I + +L +RTE M+ + N GRK Sbjct: 252 QVMADKEEEPTTKHADTPIEELDLSVRSYNCLKRAGINSVQELTERTETQMMSVRNLGRK 311 Query: 302 SLVEIKGVLGTMGLFL 317 SL EI+ L +GL Sbjct: 312 SLDEIQDKLKLLGLGF 327 >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 = 350 bits (897), Expect = 2e-94, Method: Composition-based stats. Identities = 155/328 (47%), Positives = 212/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I LG EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPKIIAVESLG---ENHARVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIA 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKV 183 V+NP+HVI +L + +++ + KG GYVP R D IG 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 E Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALE--GTETAA 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 238 EAPSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >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 = 350 bits (897), Expect = 3e-94, 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 + + EP RG+ HTLGNA+RRVL+SS+ G A T Sbjct: 1 MQTN---LLKPKAINVEQLG---HHHAKVALEPFERGYGHTLGNAIRRVLLSSMVGYAAT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 +D+E++NPDHVI NL + M++ V KG GY+P R ++ IG I +DA +S Sbjct: 115 PHDVEIVNPDHVIANLSQGGKLDMQIKVEKGRGYMPGNLRRYADEVTKSIGRIVLDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--E 236 P+++VSYTVESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F E E Sbjct: 175 PVRRVSYTVESARVEQRTDLDKLVVEIETNGAITAEDAVRASAKILVEQLAVFAQLEGGE 234 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 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|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 = 350 bits (897), Expect = 3e-94, 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|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 = 350 bits (897), Expect = 3e-94, Method: Composition-based stats. Identities = 151/326 (46%), Positives = 215/326 (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 LLRPKSIQVESLG---HNRSKVVLEPFERGYGHTLGNALRRVMLSSLVGYAPTEVSINGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S + G+ ED+ ++LN+KG+ LK+ +++ K G GVVTA DIQT +D+E++ Sbjct: 62 LHEYSVVDGLQEDVIGVLLNLKGVVLKLHNRDEVTLSLRKEGEGVVTAADIQTPHDVEIV 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSY 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|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 = 350 bits (897), Expect = 3e-94, Method: Composition-based stats. Identities = 141/335 (42%), Positives = 218/335 (65%), Gaps = 8/335 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI--GLITIDALYSP 179 ++++N H+I NL + M + V +G GY PA+ ++ G + +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 PEPVEEREE---IDPILLRPVDDLELTVRSANCLKAENVYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 +KSL EIK VL + GL LGM L +WPP S+++ + Sbjct: 295 KKSLTEIKDVLASKGLSLGMRLENWPPASLKDDDR 329 >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 = 350 bits (897), Expect = 3e-94, Method: Composition-based stats. Identities = 157/320 (49%), Positives = 214/320 (66%), Gaps = 2/320 (0%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +IKP E ++ I PL RGF TLGN+LRR+L+SS+ G+AITAV+ +GV Sbjct: 1 MIKPKGFEVDRDSLRDD-YAKFIIRPLERGFGVTLGNSLRRILLSSMMGSAITAVKFEGV 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 NPDLPIATLGANANFNAEIVVSFGRGYVPVE-NRETDLPVGFIGVDALYSPIRKVNYNVS 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|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 = 350 bits (897), Expect = 3e-94, 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|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 = 349 bits (896), Expect = 3e-94, Method: Composition-based stats. Identities = 149/334 (44%), Positives = 225/334 (67%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP +E + R+ ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVEIDAVS---PTRSKVVLEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALY 177 D+ + NPDHVIC+L ++ + M + V +G GYVPA + + +D 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 TEPVAKE---EKPEFDPILLRPVDDLELTVRSANCLKAEQIQYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASLAE 328 >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 = 349 bits (896), Expect = 3e-94, 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 MQNSPTEYLKPRVVDVEVLSPL---RARVTLEPMERGFGYTLGNALRRVLLSSIPGFAIT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYS 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|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 = 349 bits (896), Expect = 3e-94, Method: Composition-based stats. Identities = 134/313 (42%), Positives = 203/313 (64%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T+++IDG Sbjct: 3 EFEKPT----ITKIDENKDYGRFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSIKIDG 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|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 = 349 bits (896), Expect = 3e-94, Method: Composition-based stats. Identities = 123/315 (39%), Positives = 190/315 (60%), Gaps = 4/315 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V ENR+ I EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLSEEVV----SENRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+T+IILNIK +++ D + K+GPGVVTA DI +E NP Sbjct: 62 EFTTVPGVKEDVTEIILNIKSLSVSSEHDEPVVAYLRKQGPGVVTAADIAPPAGVEFHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ +ELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ Sbjct: 122 DLHIATLNSKGKFELELTIERGRGYVSAAQNKSGDAEIGRIPVDSIYSPVLKVTFRVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T +I D+VA A L + G+ + ++ + Sbjct: 182 RVEQRTDFDKLIVDVETKQAIAPRDAVASAGTTLVELFGLARELNTAAEGIEIGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + +E+L+L+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L Sbjct: 242 ALAADMALPIEDLDLTVRSYNCLKREGIHTVGELVARSEADLMDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWP 325 +GL L + P + Sbjct: 302 VELGLSLKDSPPGFD 316 >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 = 349 bits (896), Expect = 3e-94, Method: Composition-based stats. Identities = 148/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 349 bits (896), Expect = 3e-94, Method: Composition-based stats. Identities = 160/334 (47%), Positives = 214/334 (64%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYS 178 +D+E++NP+HVI NL + M++ V G GYVP R ++ G 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|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 = 349 bits (896), Expect = 3e-94, Method: Composition-based stats. Identities = 148/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 349 bits (896), Expect = 3e-94, Method: Composition-based stats. Identities = 154/333 (46%), Positives = 211/333 (63%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYS 178 +D+E++NPDHVI NL + M++ V KG GYVP R N IG 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 PVRRVSYAVESARVEQRTDLDKLVMNIETNGVITPEEAIRQSARVLVDQLNVFAALE--G 232 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N Sbjct: 233 TEATAEAPSRAPQVDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRSENELLKTPNL 292 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LGM L +WPP +E+ Sbjct: 293 GRKSLNEIKEVLASRGLTLGMKLENWPPAGLEK 325 >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 = 349 bits (896), Expect = 3e-94, Method: Composition-based stats. Identities = 154/328 (46%), Positives = 213/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I LG E+ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPKIIAVESLG---ESHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIA 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKV 183 V+NPDHVI +L + +++ V KG GYVP R + IG 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 E Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALE--GTEAAA 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 238 EAPSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >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 = 349 bits (896), Expect = 3e-94, Method: Composition-based stats. Identities = 155/328 (47%), Positives = 212/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I LG EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPKIIAVESLG---ENHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIA 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKV 183 V+NP+HVI +L + +++ + KG GYVP R D IG 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 E Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALE--GTETAA 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 238 EAPSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >gi|260907114|ref|ZP_05915436.1| DNA-directed RNA polymerase subunit alpha [Brevibacterium linens BL2] Length = 332 Score = 349 bits (896), Expect = 4e-94, Method: Composition-based stats. Identities = 122/329 (37%), Positives = 195/329 (59%), Gaps = 4/329 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V ENR+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLTEEVV----SENRSRFAIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+T+ ILN+K + + D + K+GPG VTA D+ +E+ NP Sbjct: 62 EFSTVPGVKEDVTEFILNLKSLVVSSEFDEPVVAYLRKQGPGTVTAADVSAPAGVEIHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ + + MELT+ +G GYV + ++ + IG + +D++YSP+ KV+Y VE+ Sbjct: 122 DLHIATLNGEGRLDMELTIERGRGYVSSAQNKNADAEIGRVPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + I+T S+T D++A A + L + G+ + ++ + Sbjct: 182 RVEQRTDFDRLVLDIETKPSMTPRDAIASAGKTLVELFGLARELNVEAEGIEIGPSPVDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +E+L+L+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L Sbjct: 242 ALAADLALAIEDLDLTVRSYNCLKREGIHTVGELVARSEADLMDIRNFGSKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYEDK 339 +GL L + + ++E ED+ Sbjct: 302 NELGLSLKDSPAGFEAGLVDEDQSYVEDE 330 >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 = 349 bits (896), Expect = 4e-94, 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|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 = 349 bits (895), Expect = 4e-94, Method: Composition-based stats. Identities = 153/334 (45%), Positives = 220/334 (65%), 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 L---FGEDGPQFDPLLLHPVDDLELTVRSANCLKAENIFYIGDLIQRSEADLLKTPNLGK 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 KSL EIK VL T GL LGM L +WPPE +++L + Sbjct: 295 KSLTEIKDVLATKGLSLGMRLENWPPEGLKKLNQ 328 >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 = 349 bits (895), Expect = 4e-94, 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|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 = 349 bits (895), Expect = 4e-94, Method: Composition-based stats. Identities = 150/334 (44%), Positives = 224/334 (67%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTQAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 349 bits (895), Expect = 4e-94, Method: Composition-based stats. Identities = 134/313 (42%), Positives = 203/313 (64%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T+++IDG Sbjct: 3 EFEKPT----ITKIDENKDYGRFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSIKIDG 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|110812362|gb|ABG91718.1| DNA-directed RNA polymerase, alpha subunit [Shewanella putrefaciens 200] Length = 336 Score = 349 bits (895), Expect = 4e-94, Method: Composition-based stats. Identities = 143/333 (42%), 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: 8 MQGSVTEFLKPRLVD---IEQVNSTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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+ + Sbjct: 185 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFVELRDVT 244 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 245 EPE---LKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 301 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 302 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 334 >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 = 349 bits (895), Expect = 4e-94, Method: Composition-based stats. Identities = 125/316 (39%), Positives = 190/316 (60%), Gaps = 4/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P +E E R+ + EPL GF +TLGN+LRR L+SS+ GA++T++++DGVLH Sbjct: 6 RPTLVE----DPITEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRVDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+TD+ILN+K + + D + + K+GPG VTA DI +EV NP Sbjct: 62 EFSTVPGVKEDVTDLILNLKELVVSSDNDEPTVMYLRKQGPGDVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D + L+ + +ELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ Sbjct: 122 DLHLATLNDKGKLEIELTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T SI+ D++A A + L G+ + V + Sbjct: 182 RVEQRTDFDRLIVDVETKQSISPRDAMASAGKTLVGLFGLAQELNAEAEGVDIGPSAADA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EE++L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K L Sbjct: 242 ALAADLALPIEEMDLTVRSYNCLKREGIHTIGELVSRSEADLLDIRNFGQKSIDEVKTKL 301 Query: 311 GTMGLFLGMNLPDWPP 326 G MGL L + P + P Sbjct: 302 GAMGLQLKDSPPGFDP 317 >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 = 349 bits (895), Expect = 4e-94, 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|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 = 349 bits (895), Expect = 4e-94, Method: Composition-based stats. Identities = 149/334 (44%), Positives = 221/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALY 177 D+E++NP+HVIC+L D +A + M + V +G GYVPA + 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|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 = 349 bits (895), Expect = 5e-94, Method: Composition-based stats. Identities = 147/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 349 bits (895), Expect = 5e-94, Method: Composition-based stats. Identities = 130/319 (40%), Positives = 198/319 (62%), Gaps = 6/319 (1%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 ++ KP IE + E+ I EPL G+ T GN+LRR+L+SSL GAA+T++QI Sbjct: 1 MTDIEKP-KIEIAEIS-EDGRYGRFICEPLEPGYGTTFGNSLRRMLLSSLDGAAVTSIQI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGVLHE S+I GV +D+T I+L +K + ++M + + I G VTA DI+ +DI Sbjct: 59 DGVLHEFSTIPGVRDDVTSIVLALKQLCIRMQDSEPRTIRIDAAGACEVTAADIECGSDI 118 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E+LNPD I L +++++TV +G GYVPA ++ +D IG+I ID+++SP+++V+Y Sbjct: 119 EILNPDLHIATLGDTGKLKIDMTVERGRGYVPADRNKKPDDVIGVIPIDSIFSPVQRVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVE R G V DYD+L + + T+GSI E++V+ A+ IL L +F N + E +E++ Sbjct: 179 TVEDTRVGNVTDYDRLILDVWTNGSIRPEEAVSKAAAILVMHLRLFQNMDGSAAEEEEEV 238 Query: 246 ----NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + L +++L+LSVRS NCL+ I + DL Q+TE DM+++ N GRK Sbjct: 239 PNFPPEEVDDSAKVLEMTIDDLDLSVRSFNCLKRAGINTVADLAQKTEDDMMKVRNLGRK 298 Query: 302 SLVEIKGVLGTMGLFLGMN 320 SL E+K L +GL L + Sbjct: 299 SLDEVKKKLEELGLSLRQD 317 >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 = 349 bits (895), Expect = 5e-94, Method: Composition-based stats. Identities = 151/326 (46%), Positives = 215/326 (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 LLRPKSIQVESLG---HNRSKVVLEPFERGYGHTLGNALRRVMLSSLVGYAPTEVSINGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S + G+ ED+ ++LN+KG+ LK+ +++ K G GVVTA DIQT +D+E++ Sbjct: 62 LHEYSVVDGLQEDVIGVLLNLKGVVLKLHNRDEVTLSLRKEGEGVVTAADIQTPHDVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSY 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|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 = 349 bits (895), Expect = 5e-94, Method: Composition-based stats. Identities = 137/313 (43%), Positives = 200/313 (63%), Gaps = 2/313 (0%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E+ KP IE + + E+ ++ EPL RG+ TLGN+LRRVL+SSL GAAIT+V+I Sbjct: 1 MTEIEKPR-IELVEIS-EDNTYGKIVIEPLERGYGTTLGNSLRRVLLSSLPGAAITSVKI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGV HE S+I GV ED +II+NIKG+ +KM D K + I +G G VTA DI D+ Sbjct: 59 DGVQHEFSTIPGVLEDTVEIIMNIKGLAIKMHSDEPKLLRIEAQGEGEVTAKDIICDADV 118 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++N DH I LD D + ELT+ KG GYV A+ ++ PIG+I ID++++P+ K +Y Sbjct: 119 EIINKDHHIATLDKDGRLFAELTLEKGKGYVTAEKNKKPGQPIGIIPIDSIFTPVIKANY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVE R GQV DYDKL++ + T+G+I +++V+ A++IL D +F K+V+ + Sbjct: 179 TVEHTRVGQVTDYDKLTLEVWTNGTIKPDEAVSAAAKILIDYFNLFTGLTTAVKKVEAPV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L +EEL+LSVRS NCL+ I +G+LIQ+T +M+++ N G+KSL E Sbjct: 239 EKEKDERERILEMPIEELDLSVRSYNCLKRAGINTIGELIQKTPEEMMKVRNLGKKSLEE 298 Query: 306 IKGVLGTMGLFLG 318 ++ L + L L Sbjct: 299 VEEKLAALNLSLK 311 >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 = 349 bits (895), Expect = 5e-94, Method: Composition-based stats. Identities = 154/328 (46%), Positives = 212/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I LG EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPKIIAVESLG---ENHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIA 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKV 183 V+NPDHVI +L + +++ + KG GYVP R + IG 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 E Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALE--GTETAA 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 238 EAPSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 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 = 348 bits (894), Expect = 5e-94, Method: Composition-based stats. Identities = 147/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 348 bits (894), Expect = 5e-94, Method: Composition-based stats. Identities = 138/315 (43%), Positives = 206/315 (65%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E +N + EPL RG+ TLGN+LRRVL++SL GAAIT +QIDG Sbjct: 3 EFEKPN----IHKVEETDNYGKFVVEPLERGYGTTLGNSLRRVLIASLPGAAITTMQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++KGV ED+T IILN+K ++LK++ + K + + +GP VTAGDIQ +++ V Sbjct: 59 VLHEFSTVKGVTEDVTQIILNLKKVSLKINSEDQKDLELDVKGPAEVTAGDIQGDSEVSV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 185 LNPD I + A + +++T KG GY+ A ++ 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 IKGVLGTMGLFLGMN 320 IK L +G+ + Sbjct: 299 IKLKLNDLGVSFRQD 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 = 348 bits (894), Expect = 5e-94, Method: Composition-based stats. Identities = 123/315 (39%), Positives = 190/315 (60%), Gaps = 4/315 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V ENR+ I EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLSEEVV----SENRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+T+IILNIK +++ D + K+GPGVVTA DI +E NP Sbjct: 62 EFTTVPGVKEDVTEIILNIKNLSVSSEHDEPVVAYLRKQGPGVVTAADIAPPAGVEFHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ +ELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ Sbjct: 122 DLHIATLNSKGKFELELTIERGRGYVSAAQNKSGDSEIGRIPVDSIYSPVLKVTFRVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T +I D+VA A L + G+ + ++ + Sbjct: 182 RVEQRTDFDKLIVDVETKQAIAPRDAVASAGTTLVELFGLARELNTAAEGIEIGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + +E+L+L+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L Sbjct: 242 ALAADMALPIEDLDLTVRSYNCLKREGIHTVGELVARSEADLMDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWP 325 +GL L + P + Sbjct: 302 VELGLSLKDSPPGFD 316 >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 = 348 bits (894), Expect = 5e-94, 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|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 = 348 bits (894), Expect = 5e-94, Method: Composition-based stats. Identities = 143/333 (42%), 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---IEQVNSTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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+ + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFVELRDVT 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 EPE---LKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 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 = 348 bits (894), Expect = 5e-94, Method: Composition-based stats. Identities = 143/333 (42%), 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---IEQVNSTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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+ + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFVELRDVT 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 EPE---MKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 327 >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 = 348 bits (894), Expect = 5e-94, Method: Composition-based stats. Identities = 121/312 (38%), Positives = 183/312 (58%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 R+ I EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ G+ Sbjct: 10 TEESLNPQRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTTLPGI 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+I+LNIKGI L D + + K G G TAGDI + + NPD I L Sbjct: 70 EEDVTEILLNIKGIVLTSEYDEPVVMYLRKAGSGEATAGDITPPAGVTIANPDLHIATLA 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + +E TV +G GYVPA+ ++ + D IG I +D++YSP+ KVSY VE+ R Q D+ Sbjct: 130 EDGELEIEFTVERGRGYVPAQMNKQDGDEIGRIPVDSIYSPVLKVSYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T +I+ D+VA A L + G+ + V+ + +P + Sbjct: 190 DKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNTQAEGVEIGPAPVAEQADPGMSV 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L ++GL L Sbjct: 250 PIEDLNLTQRSYNCLKREGIHTVGELVNHTEQDLLDIRNFGMKSIDEVKEKLQSLGLSLK 309 Query: 319 MNLPDWPPESIE 330 + + ++E Sbjct: 310 SSPLGFDTNNLE 321 >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 = 348 bits (894), Expect = 5e-94, Method: Composition-based stats. Identities = 147/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 348 bits (894), Expect = 5e-94, Method: Composition-based stats. Identities = 122/321 (38%), Positives = 188/321 (58%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + R+ + EPL GF +T+GN+LRR L+SS+ GAA+T+++I+GV HE +++ GV Sbjct: 10 TEEASSDLRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGAAVTSIRIEGVEHEFTTVPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T++ILN+KG+ + D + + K+GPGVVTA DI +EV NPD I L+ Sbjct: 70 KEDVTEMILNLKGLVVSSEHDEPVLMYLRKQGPGVVTAADIAPPAGVEVHNPDLHIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + MELTV +G GYV A ++ IG I ID++YSP+ +V+Y VE+ R Q D+ Sbjct: 130 GKGKLEMELTVERGRGYVSATQNKQAGQEIGRIPIDSIYSPVLRVTYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 D+L + I+T +I D+VA A + L + G+ + + + L Sbjct: 190 DRLIVDIETKPAIRPRDAVASAGKTLVELFGLARELNVDAEGIDMGPSPTDAALAADLAL 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L MGL L Sbjct: 250 PIEDLNLTVRSYNCLKREGIHSVGELVARSEQDLLDIRNFGAKSIDEVKQKLVDMGLSLK 309 Query: 319 MNLPDWPPESIEELAKKYEDK 339 + P + P S + +D+ Sbjct: 310 DSPPGFDPSSAADSYSSEDDE 330 >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 = 348 bits (894), Expect = 6e-94, 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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 348 bits (894), Expect = 6e-94, Method: Composition-based stats. Identities = 147/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 348 bits (894), Expect = 6e-94, Method: Composition-based stats. Identities = 153/328 (46%), Positives = 212/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I LG E+ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPKIIAVESLG---ESHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIA 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKV 183 V+NPDHVI +L + +++ V KG GYVP R + G 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 E Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALE--GTEAAA 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 238 ETPSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >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 = 348 bits (894), Expect = 6e-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-KIECVEVN-EDGSYGKFVVEPLERGYGITLGNALRRILLSSLPGVAANHIKIDG 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|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 = 348 bits (894), Expect = 6e-94, Method: Composition-based stats. Identities = 147/336 (43%), Positives = 219/336 (65%), Gaps = 9/336 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 178 +D+++ NPDHVIC+L D + M + V +G GY PA E IG + +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 QATAQEADDE---VDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLRNDER 330 >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 = 348 bits (894), Expect = 6e-94, Method: Composition-based stats. Identities = 123/315 (39%), Positives = 190/315 (60%), Gaps = 4/315 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V ENR+ I EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLSEEVV----SENRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+T+IILNIK +++ D + K+GPGVVTA DI +E NP Sbjct: 62 EFTTVPGVKEDVTEIILNIKNLSVSSEHDEPVVAYLRKQGPGVVTAADIAPPAGVEFHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ +ELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ Sbjct: 122 DLHIATLNSKGKFELELTIERGRGYVSAAQNKSGDSEIGRIPVDSIYSPVMKVTFRVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T +I D+VA A L + G+ + ++ + Sbjct: 182 RVEQRTDFDKLIVDVETKQAIAPRDAVASAGTTLVELFGLARELNTAAEGIEIGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + +E+L+L+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L Sbjct: 242 ALAADMALPIEDLDLTVRSYNCLKREGIHTVGELVARSEADLMDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWP 325 +GL L + P + Sbjct: 302 VELGLSLKDSPPGFD 316 >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 = 348 bits (894), Expect = 6e-94, Method: Composition-based stats. Identities = 124/312 (39%), Positives = 184/312 (58%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ GV Sbjct: 10 TEESINPQRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTTLPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+I+LNIKGI L D + + K G G VTAGDI + + NPD I L Sbjct: 70 VEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGNGEVTAGDITPPAGVTIANPDQHIATLA 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + +E TV +G GYVPA+ ++ + D IG I +D++YSP+ KVSY VE+ R Q D+ Sbjct: 130 DDGELEIEFTVERGRGYVPAQMNKQDTDEIGRIPVDSIYSPVLKVSYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T +I+ D+VA A L + G+ + V+ + NP + Sbjct: 190 DKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNVQAEGVEVGPAPVAEETNPEMAV 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L +MGL L Sbjct: 250 PIEDLNLTQRSYNCLKREGIHTIGELVAHTEQDLLDIRNFGMKSIDEVKDKLQSMGLSLK 309 Query: 319 MNLPDWPPESIE 330 + + ++E Sbjct: 310 SSPLGFDTNNLE 321 >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 = 348 bits (894), Expect = 6e-94, Method: Composition-based stats. Identities = 143/333 (42%), 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 + + 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+ + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFVELRDVT 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 EPE---QKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 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 = 348 bits (894), Expect = 6e-94, Method: Composition-based stats. Identities = 144/331 (43%), Positives = 213/331 (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+ + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFVELRDVT 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 EPE---QKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASL 325 >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 = 348 bits (893), Expect = 6e-94, Method: Composition-based stats. Identities = 149/334 (44%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALY 177 D+E++NP+HVIC+L D A + M + V +G GYVPA + 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|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 = 348 bits (893), Expect = 6e-94, Method: Composition-based stats. Identities = 119/309 (38%), Positives = 183/309 (59%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 +NR+ I EPL GF +TLGN+LRR L+SS+ GA++T++++DGVLHE +++ GV Sbjct: 10 TEEPVADNRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRVDGVLHEFTTVPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T++ILN+K + + D + + K+GPG VTA DI + V N D + L Sbjct: 70 KEDITELILNLKELVVSSEDDEPVTMYLRKQGPGDVTAADIAPPAGVTVHNSDLKLATLT 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+ Sbjct: 130 KKGKLEIELVVERGRGYVPASPNKVVGAEIGRIPVDSIYSPVLKVTYRVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T SIT D++A A L + G+ + ++ + A Sbjct: 190 DKLVLDVETKPSITPRDALASAGTTLVELFGLARELNVDAEGIEIGPSPAEADHIAAFGL 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +EE++L+VRS NCL+ E I +G+L+ RTEAD+L + NFG+KS+ E+K L MGL L Sbjct: 250 PIEEMDLTVRSYNCLKREGIHTVGELVSRTEADLLDIRNFGQKSIDEVKIKLAGMGLALK 309 Query: 319 MNLPDWPPE 327 + + P Sbjct: 310 DSPAGFDPA 318 >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 = 348 bits (893), Expect = 6e-94, Method: Composition-based stats. Identities = 147/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 348 bits (893), Expect = 6e-94, Method: Composition-based stats. Identities = 147/334 (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---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 348 bits (893), Expect = 7e-94, Method: Composition-based stats. Identities = 147/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 348 bits (893), Expect = 7e-94, 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|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 = 348 bits (893), Expect = 7e-94, Method: Composition-based stats. Identities = 145/334 (43%), 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---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 348 bits (893), Expect = 7e-94, Method: Composition-based stats. Identities = 150/335 (44%), Positives = 218/335 (65%), Gaps = 1/335 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW +L++P + + EPL RG+ T+GNALRRVL+SSL+GAA +V Sbjct: 13 RNWAKLVRPEAV-INNMESNTTTYGRFEYEPLERGYGITIGNALRRVLLSSLQGAAFVSV 71 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I GV HE ++I G+ ED+TDIILN+K + L M D + +++F G+VTA DIQT Sbjct: 72 KILGVQHEFTTIPGILEDVTDIILNLKQVRLAMDTDEPQHLSLFVSKKGIVTAADIQTNQ 131 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 +EVLNP+ I L D +RME V G GYVPA+ H ++ IGLI +D+ +SPI+ V Sbjct: 132 HVEVLNPEQHIATLTEDIELRMEFEVRMGKGYVPAEMHEDLHEEIGLIKLDSSFSPIRNV 191 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE AR GQ+ +YDKL + + TDGS++ ED++A +++I++DQ+ +FINF+E Sbjct: 192 TYVVEQARVGQMTNYDKLVLEVWTDGSVSPEDAIAYSAKIIKDQISVFINFDERISGSGG 251 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + S N L K ++ELELSVR+TNCLR NI +G+L+Q+ EADML+ NFG+KSL Sbjct: 252 NEGSGSSDLNDNLFKGIDELELSVRATNCLRSANISTVGELVQKAEADMLKTKNFGKKSL 311 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 EIK +L +MGL GM + + + E K++ + Sbjct: 312 DEIKALLTSMGLDFGMKIDGFEKKYQEWKRKQHHE 346 >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 = 348 bits (893), Expect = 7e-94, Method: Composition-based stats. Identities = 150/334 (44%), Positives = 224/334 (67%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVN---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|167587746|ref|ZP_02380134.1| DNA-directed RNA polymerase subunit alpha [Burkholderia ubonensis Bu] Length = 325 Score = 348 bits (893), Expect = 7e-94, Method: Composition-based stats. Identities = 154/328 (46%), Positives = 211/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I LG EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPKIIAVESLG---ENHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIA 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKV 183 V+NP+HVI +L + +++ + KG GYVP R D IG 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 E Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALE--GTETAA 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 238 EAPSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >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 = 348 bits (893), Expect = 7e-94, Method: Composition-based stats. Identities = 133/313 (42%), Positives = 202/313 (64%), Gaps = 2/313 (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 GVLGTMGLFLGMN 320 L + L L + Sbjct: 301 FKLAELDLNLRQD 313 >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 = 348 bits (893), Expect = 7e-94, 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-KIECVEMD-PEGTYGKFVVDPLERGYGITLGNSLRRVLLASLPGAAVTAVKIDG 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|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 = 348 bits (893), Expect = 8e-94, Method: Composition-based stats. Identities = 142/333 (42%), 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---IEQVNSTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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+ + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFVELRDVT 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 EPE---LKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 327 >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 = 348 bits (893), Expect = 8e-94, Method: Composition-based stats. Identities = 150/326 (46%), Positives = 211/326 (64%), Gaps = 7/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVEPLGDH---HAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSY 185 NP HVI +L + M++ V +G GYVP + ++ G 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 AVESARVEQRTDLDKLVMNIETDGVISPEEAIRQSARILVDQLSVFAALEG-TESAAEAA 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|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 = 348 bits (893), Expect = 8e-94, 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 MQNSPTEYLKPRVVDVEVLSPL---RARVTLEPMERGFGYTLGNALRRVLLSSIPGFAIT 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|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 = 348 bits (893), Expect = 8e-94, Method: Composition-based stats. Identities = 147/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 348 bits (893), Expect = 8e-94, Method: Composition-based stats. Identities = 151/333 (45%), Positives = 223/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYS 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|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 = 348 bits (893), Expect = 8e-94, Method: Composition-based stats. Identities = 155/335 (46%), Positives = 224/335 (66%), Gaps = 9/335 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + N E +KP ++ L + R ++ EPL RGF HTLGNALRR+L+SS+ GAA+T Sbjct: 1 MSGNVNEFLKPRLVDVQQLS---DTRAKVVLEPLERGFGHTLGNALRRILLSSMPGAAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 VQIDGVLHE ++I+GV ED+ +I+LN+K + + ++ + +++ K+G G V AGDIQ Sbjct: 58 EVQIDGVLHEYTTIEGVQEDVLEILLNLKNLAIVLNAKNEAVLSLSKKGKGPVKAGDIQA 117 Query: 122 VNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAKHHRT--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 VSEEED---DASDIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELA 333 G+KSL EIK VL GL LGM L +WPP SI + A Sbjct: 295 GKKSLTEIKDVLAQHGLSLGMRLENWPPASIAKEA 329 >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 = 348 bits (893), Expect = 8e-94, Method: Composition-based stats. Identities = 147/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 348 bits (893), Expect = 8e-94, Method: Composition-based stats. Identities = 151/333 (45%), Positives = 223/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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--KHHRTENDPIGLITIDALYS 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|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 = 348 bits (893), Expect = 8e-94, Method: Composition-based stats. Identities = 147/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 348 bits (893), Expect = 8e-94, Method: Composition-based stats. Identities = 146/331 (44%), Positives = 220/331 (66%), Gaps = 6/331 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q +++ +KP ++ G E R ++ EPL RGF HTLGNALRRVL+SS+ G+A+ Sbjct: 1 MQGTFRDFLKPRTVDIQEQG---ERRAKIVLEPLERGFGHTLGNALRRVLLSSMPGSAVV 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 + E Sbjct: 178 KRVAYTVESARVEQRTNLDKLVLDVETNGVLEPEEAVRFAAGLLRDQLSVFVDLEGGEFE 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +++ + +P LL+ ++ELEL+VRS NCL+ E+I Y+GDL+QRTE ++L+ N G+ Sbjct: 238 AEQEEQEPDV--DPILLRPIDELELTVRSANCLKAESIHYVGDLVQRTEVELLKTPNLGK 295 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 KSL EIK L + GL LGM L +WPP + E Sbjct: 296 KSLTEIKETLASHGLSLGMRLENWPPAGLGE 326 >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 = 348 bits (892), Expect = 8e-94, Method: Composition-based stats. Identities = 147/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 348 bits (892), Expect = 8e-94, Method: Composition-based stats. Identities = 147/331 (44%), Positives = 211/331 (63%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + L+KP I+ + + ++ EP RG+ HTLGNALRR+L+SS+ G A T Sbjct: 1 MQSS--GLLKPRIIDVQSVSPVQ---AKVVMEPFERGYGHTLGNALRRILLSSMVGYAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK-HHRTENDPIGLITIDALYSPI 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|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 = 348 bits (892), Expect = 8e-94, Method: Composition-based stats. Identities = 147/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 348 bits (892), Expect = 8e-94, Method: Composition-based stats. Identities = 147/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 348 bits (892), Expect = 8e-94, Method: Composition-based stats. Identities = 136/313 (43%), Positives = 200/313 (63%), Gaps = 2/313 (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 GVLGTMGLFLGMN 320 L + L L N Sbjct: 301 HKLEELQLNLRDN 313 >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 = 348 bits (892), Expect = 9e-94, Method: Composition-based stats. Identities = 126/311 (40%), Positives = 202/311 (64%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP ++ + L E+ + EPL RG+ T+GNALRR+L+SSL G A+ +++IDG Sbjct: 3 EIEKP-KVDIVELS-EDYRYGKFVVEPLERGYGITIGNALRRILLSSLPGVAVNSIKIDG 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 GVLGTMGLFLG 318 L +GL L Sbjct: 301 QKLEELGLGLK 311 >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 = 348 bits (892), Expect = 9e-94, Method: Composition-based stats. Identities = 147/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 348 bits (892), Expect = 9e-94, Method: Composition-based stats. Identities = 129/330 (39%), Positives = 192/330 (58%), Gaps = 6/330 (1%) Query: 2 IQKNWQELI--KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 +Q LI +P +E EE R+ I EPL GF +T+GN+LRR L+SS+ GAA Sbjct: 1 MQGETHMLIAQRPTLLE----ESLEETRSKFIIEPLEPGFGYTIGNSLRRTLLSSIPGAA 56 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T+++I+GVLHE S++ GV ED+TDIILN+K + + D + + K+GPG VTA DI Sbjct: 57 VTSIRIEGVLHEFSTVPGVKEDVTDIILNLKELVVSSEHDEPVVMYLRKQGPGEVTAADI 116 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 +EV NP+ I L+ A + MELTV +G GYV A ++ IG I ID++YSP Sbjct: 117 APPAGVEVHNPELRIATLNGKAKLEMELTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSP 176 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + KV+Y VE+ R Q D+D+L + ++T + D+VA A + L + G+ + Sbjct: 177 VLKVTYKVEATRVEQRTDFDRLILDVETKPCMKPRDAVASAGKTLVELFGLARELNVEAE 236 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + + L +EEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG Sbjct: 237 GIDIGPSPTDAALAADLALPIEELNLTVRSYNCLKREGIHTVGELVARSEQDLLDIRNFG 296 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 KS+ E+K L M L L + P + P ++ Sbjct: 297 AKSIEEVKQKLHEMTLALKDSPPGFDPSAV 326 >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 = 348 bits (892), Expect = 9e-94, Method: Composition-based stats. Identities = 147/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 348 bits (892), Expect = 9e-94, Method: Composition-based stats. Identities = 154/328 (46%), Positives = 213/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I LG E+ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPKIIAVESLG---ESHAKVVMEPFERGYGHTLGNALRRVLLSSMIGYAPTEVTIA 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKV 183 V+NPDHVI +L + +++ V KG GYVP R + IG 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 E Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALE--GTEATA 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 238 EAPSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >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 = 348 bits (892), Expect = 9e-94, Method: Composition-based stats. Identities = 154/328 (46%), Positives = 212/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I LG EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPKIIAVESLG---ENHAKVVMEPFERGYGHTLGNALRRVLLSSMIGYAPTEVTIA 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKV 183 V+NPDHVI +L + +++ + KG GYVP R + IG 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 E Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALE--GTETAA 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 238 EAPSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >gi|330722390|gb|EGH00238.1| DNA-directed RNA polymerase alpha subunit [gamma proteobacterium IMCC2047] Length = 335 Score = 348 bits (892), Expect = 9e-94, Method: Composition-based stats. Identities = 151/335 (45%), Positives = 211/335 (62%), Gaps = 8/335 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + E + P +I+ +G N ++ EP RGF HTLGN+LRR+L+SS+ GAAI Sbjct: 1 MSRPVTEFLTPKHIQVEEVGV---NHAKVVLEPFERGFGHTLGNSLRRILLSSMPGAAIV 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 PE---QQEDEDEVDPILLRPVDDLELTVRSANCLKAENLYYIGDLIQRTEVDLLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 +KSL EIK VL + GL LGM L WPP S++ + Sbjct: 295 KKSLTEIKDVLASKGLSLGMRLEKWPPASLKNDDR 329 >gi|27262232|gb|AAN87397.1| DNA-directed RNA polymerase alpha chain [Heliobacillus mobilis] Length = 315 Score = 348 bits (892), Expect = 9e-94, 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-KIECVDRS-EDATYGKFVVEPLERGYGVTLGNSLRRILLSSLPGAAVTSVKIEG 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|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 = 348 bits (892), Expect = 9e-94, Method: Composition-based stats. Identities = 143/333 (42%), Positives = 214/333 (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+ + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFVELRDVT 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 EPE---QKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 327 >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 = 348 bits (892), Expect = 1e-93, Method: Composition-based stats. Identities = 147/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 348 bits (892), Expect = 1e-93, Method: Composition-based stats. Identities = 152/334 (45%), Positives = 224/334 (67%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVN---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 348 bits (892), Expect = 1e-93, Method: Composition-based stats. Identities = 128/311 (41%), Positives = 200/311 (64%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP ++ + L E+ + EPL RG+ T+GNALRR+L+SSL G A+ A++IDG Sbjct: 3 EIEKP-KVDIVELS-EDYRYGKFVIEPLERGYGITIGNALRRILLSSLPGVAVNAIKIDG 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 GVLGTMGLFLG 318 L +GL L Sbjct: 301 QKLEELGLGLK 311 >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 = 348 bits (892), Expect = 1e-93, 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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 348 bits (892), Expect = 1e-93, 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|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 = 348 bits (892), Expect = 1e-93, Method: Composition-based stats. Identities = 130/311 (41%), Positives = 202/311 (64%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE V E+ + EPL RG+ TLGN+LRR+L+SSL G A +++IDG Sbjct: 3 EIEKP-KIE-CVEASEDGTYGKFVIEPLERGYGITLGNSLRRILLSSLPGVAANSIKIDG 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 GVLGTMGLFLG 318 L +GL L Sbjct: 301 EKLAALGLGLK 311 >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 = 347 bits (891), Expect = 1e-93, 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|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 = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 223/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVN---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 146/334 (43%), 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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQGSVTEFLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVI 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|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 = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 147/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 137/312 (43%), Positives = 203/312 (65%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E +N + EPL RG+ TLGN+LRRV+++SL GAAIT++QIDG Sbjct: 3 EFEKPN----IHKVEETDNYGKFVVEPLERGYGTTLGNSLRRVMLASLPGAAITSIQIDG 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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 185 LN D I + A + +++T KG GY A ++T 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|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 = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 134/313 (42%), Positives = 203/313 (64%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T+++IDG Sbjct: 3 EFEKPT----ITKIDENKDYGRFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSIKIDG 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|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 = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 148/326 (45%), Positives = 212/326 (65%), Gaps = 7/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVEPLGDH---HAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSY 185 NP+HVI +L + M++ V +G GYVP + ++ G 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 AVESARVEQRTDLDKLVMNIETDGVISPEEAIRQSARILVDQLSVFAALEG-TESAAEAA 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|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 = 347 bits (891), Expect = 1e-93, 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|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 = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 165/345 (47%), Positives = 223/345 (64%), Gaps = 9/345 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +NW LI+P IE I + +PL RGF TLGNALRRVL+SS++GAAI Sbjct: 1 MVRNWCSLIRPRRIE-IDESTHTRFYGEFVCQPLERGFGITLGNALRRVLLSSIQGAAIV 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 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF------E 235 KV+YTV AR GQ+ DYDKLS+ + TDG++ ED+VA A++IL+ QL +F+ E Sbjct: 180 KVNYTVTHARVGQIADYDKLSLEVWTDGNVLPEDAVAFAAKILKKQLQVFVGLHTVIGTE 239 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 E ++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|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 = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 151/333 (45%), Positives = 223/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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--KHHRTENDPIGLITIDALYS 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|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 = 347 bits (891), Expect = 1e-93, 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|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 = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 157/327 (48%), Positives = 214/327 (65%), Gaps = 7/327 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I+ L N+ + EP RG+ HTLGNALRRVL+SS+ G + T V I GV Sbjct: 5 LLKPKTIQVEQL---AANKAKVTLEPFERGYGHTLGNALRRVLLSSMVGYSATEVTIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSY 185 NPDHVI +L + M++ V KG GYVP R ++P G I +DA +SP+K+VSY Sbjct: 122 NPDHVIAHLSQGGKLDMQIKVEKGRGYVPGTMRRYADEPTKSIGRIVLDASFSPVKRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F E + + Sbjct: 182 TVESARVEQRTDLDKLLVEIETNGAITAEDAVRASAKILVEQLAVFAQLEGGELAAFDAP 241 Query: 246 NVKS-LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 +S 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|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 = 130/311 (41%), Positives = 201/311 (64%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE V E+ + EPL RG+ TLGN+LRR+L+SSL G A +++IDG Sbjct: 3 EIEKP-KIE-CVEASEDGTYGKFVIEPLERGYGITLGNSLRRILLSSLPGGAANSIKIDG 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 GVLGTMGLFLG 318 L +GL L Sbjct: 301 EKLAALGLGLK 311 >gi|237747390|ref|ZP_04577870.1| RNA polymerase [Oxalobacter formigenes HOxBLS] gi|229378741|gb|EEO28832.1| RNA polymerase [Oxalobacter formigenes HOxBLS] Length = 325 Score = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 156/333 (46%), Positives = 215/333 (64%), Gaps = 11/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N +KP I LG R+++ EP RG+ HTLGNALRRVL+SS+ G A T Sbjct: 1 MQNN---FLKPRIINVESLG---GGRSIVEMEPFERGYGHTLGNALRRVLLSSMTGYAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYS 178 +D+E++NPDHVI NL + + M++ V KG GYVP R N IG 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|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 = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 148/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 143/333 (42%), Positives = 214/333 (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+ + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFVELRDVT 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 EPE---LKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 327 >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 = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 140/312 (44%), 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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSY 185 LNPD IC + LT G GY A ++ + 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|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 = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 126/317 (39%), Positives = 191/317 (60%), Gaps = 4/317 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E ++ ENRT EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLTEEVI----SENRTRFAIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+T+IILNIK + + D + + K+G G VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTEIILNIKNLVVSSENDEPVVMYLRKQGAGAVTAADIVPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ + +ELTV +G GYV A +++ + IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLHIATLNDKGKLEIELTVERGRGYVSAAQNKSLDAEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T +IT D++A A + L + G+ + ++ + Sbjct: 182 RVEQRTDFDKLIVDVETKPAITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPTDS 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EEL L++RS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEELNLTIRSYNCLKREGIHQVGELVARSEADLLDIRNFGAKSINEVKEKL 301 Query: 311 GTMGLFLGMNLPDWPPE 327 +GL L + D+ P Sbjct: 302 AELGLALKDSPLDFDPS 318 >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 = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 149/334 (44%), Positives = 223/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVN---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 131/311 (42%), Positives = 202/311 (64%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE V E+ + EPL RG+ TLGN+LRR+L+SSL G A +++IDG Sbjct: 3 EIEKP-KIE-CVEASEDGTYGKFVIEPLERGYGITLGNSLRRILLSSLPGVAANSIKIDG 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 GVLGTMGLFLG 318 L +GL L Sbjct: 301 EKLAALGLGLK 311 >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 = 347 bits (891), Expect = 1e-93, 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|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 = 347 bits (890), Expect = 1e-93, 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|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 = 347 bits (890), Expect = 1e-93, Method: Composition-based stats. Identities = 126/316 (39%), Positives = 190/316 (60%), Gaps = 4/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P IE E R+ + EPL GF +TLGN+LRR L+SS+ GA++T+++IDGVLH Sbjct: 6 RPTLIE----DPISEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+TD+ILN+K + + D + + K+GPG VTA DI +EV NP Sbjct: 62 EFSTVPGVKEDVTDLILNLKELVVSSDNDEPTVMYLRKQGPGEVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 + + L+ + +ELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ Sbjct: 122 ELRLATLNDKGKLEIELTVERGRGYVSAAQNKQAGQEIGRIPIDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T SI+ D++A A + L G+ + V + Sbjct: 182 RVEQRTDFDRLIVDVETKPSISPRDAMASAGKTLVGLFGLAQELNAEAEGVDIGPSAADA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EE++L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K L Sbjct: 242 ALAADLALPIEEMDLTVRSYNCLKREGIHTIGELVSRSEADLLDIRNFGQKSIDEVKTKL 301 Query: 311 GTMGLFLGMNLPDWPP 326 G MGL L + P + P Sbjct: 302 GAMGLQLKDSPPGFDP 317 >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 = 347 bits (890), Expect = 1e-93, Method: Composition-based stats. Identities = 151/333 (45%), Positives = 222/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYS 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|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 = 347 bits (890), Expect = 1e-93, 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|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 = 347 bits (890), Expect = 2e-93, Method: Composition-based stats. Identities = 146/334 (43%), 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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 347 bits (890), Expect = 2e-93, Method: Composition-based stats. Identities = 150/331 (45%), Positives = 220/331 (66%), Gaps = 9/331 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 + E +KP +E + R + EPL RGF HTLGNALRR+L+SS+ G A+T V Sbjct: 2 GSVTEFLKPRLVEIENVS---PTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEV 58 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G + +T+ K G G V AGDIQ Sbjct: 59 EIDGVLHEYSTKEGVQEDVIEILLNLKGLAVRLEGKTEATLTLVKSGAGPVVAGDIQHDG 118 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPI 180 D+E+ NPDHVIC L +A + M + V G GYVPA R+ ++ PIG + +DA YSP+ Sbjct: 119 DVEITNPDHVICTLTGEAEISMRIKVEMGRGYVPASTRRSSEEDDRPIGRLLVDASYSPV 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++++Y+VESAR Q D DKL + ++T+G++ E+++ ++ IL +QL F++ + + Sbjct: 179 ERIAYSVESARVEQRTDLDKLIIDMETNGTLDPEEAIRRSATILAEQLDAFVDLRDVSEP 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+ Sbjct: 239 E---AKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIQYIGDLVQRTEVELLKTPNLGK 295 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 KSL EIK VL + GL LGM L +WPPESI E Sbjct: 296 KSLTEIKDVLASRGLSLGMRLENWPPESIAE 326 >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 = 347 bits (890), Expect = 2e-93, 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 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK--KE 240 V AR GQ DYDKL++ I TDGSI ED++A A++IL++Q+ +FINF+E Sbjct: 188 VRVITSQARVGQQTDYDKLTLEITTDGSILPEDALAYAAKILKEQMQVFINFDESAVVPV 247 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 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|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 = 347 bits (890), Expect = 2e-93, Method: Composition-based stats. Identities = 125/313 (39%), Positives = 182/313 (58%), Gaps = 1/313 (0%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ GV Sbjct: 10 TEESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTTLPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+I+LNIKGI L D + + K G G TAGDI + + NPD I L Sbjct: 70 QEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIANPDKHIATLA 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + +E TV +G GYVPA ++ + D IG I +D++YSP+ KVSY VE+ R Q D+ Sbjct: 130 EDGELEIEFTVERGRGYVPASMNKQDADEIGRIPVDSIYSPVLKVSYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T +I+ D+VA A L + G+ + V+ NP Sbjct: 190 DKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNVQAEGVEVGSAPVVEEANPEHAV 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L ++GL L Sbjct: 250 PIEDLNLTQRSYNCLKREGIHTIGELVSHTEQDLLDIRNFGMKSIDEVKEKLQSLGLSLK 309 Query: 319 MN-LPDWPPESIE 330 + L D+ P ++E Sbjct: 310 ASPLGDFDPNNLE 322 >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 = 347 bits (890), Expect = 2e-93, Method: Composition-based stats. Identities = 148/326 (45%), Positives = 210/326 (64%), Gaps = 7/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVEPLGDH---HAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSY 185 NP HVI +L + M++ V +G GYVP + ++ G 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 AVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALEG-TESAAEAA 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|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 = 347 bits (890), Expect = 2e-93, Method: Composition-based stats. Identities = 140/312 (44%), 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----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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSY 185 LNPD IC + LT G GY A ++ + 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|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 = 347 bits (890), Expect = 2e-93, 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|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 = 347 bits (890), Expect = 2e-93, 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 MQNSPTEYLKPRVVDVEVISPV---RARVTLEPMERGFGYTLGNALRRVLLSSIPGFAIT 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|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 = 347 bits (890), Expect = 2e-93, Method: Composition-based stats. Identities = 149/334 (44%), Positives = 222/334 (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-DVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALY 177 D+E++NP+HVIC+L D +A + M + V +G GYVPA + 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|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 = 347 bits (890), Expect = 2e-93, Method: Composition-based stats. Identities = 148/333 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 178 +D+E++NP+HVIC+L +A + M + + G GYVPA + 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 EPVAKE---EKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ E Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLSE 327 >gi|42799|emb|CAA26395.1| unnamed protein product [Escherichia coli] Length = 329 Score = 347 bits (890), Expect = 2e-93, Method: Composition-based stats. Identities = 147/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 347 bits (890), Expect = 2e-93, 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-KVEVVEIN-AENTYGKFTVEPLERGYGTTLGNSLRRIMLSSLPGAAVTSVKIDG 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|323465848|gb|ADX69535.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus helveticus H10] Length = 312 Score = 346 bits (889), Expect = 2e-93, 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|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 = 346 bits (889), Expect = 2e-93, Method: Composition-based stats. Identities = 148/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 346 bits (889), Expect = 2e-93, Method: Composition-based stats. Identities = 120/308 (38%), Positives = 180/308 (58%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 E R+ I EPL GF +T+GN+LRR L+SS+ GAA+T+++I+GV HE +++ GV Sbjct: 10 TEEPISEFRSKFILEPLEPGFGYTIGNSLRRTLLSSIPGAAVTSIRIEGVEHEFTTVPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+IILN+KG+ + D + + K+GPGVVTA DI +EV NP+ I L+ Sbjct: 70 KEDVTEIILNLKGLVVSSEHDEPVLMYLRKQGPGVVTAADIAPPAGVEVHNPEMHIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + ME+TV +G GYV A ++ IG I ID++YSP+ +V+Y VE+ R Q D+ Sbjct: 130 SKGKLEMEMTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSPVMRVTYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 D+L + + T +I D+VA A + L + G+ + + + L Sbjct: 190 DRLILDVWTKPAIRPRDAVASAGKTLVELFGLARELNVDAEGIDMGPSPTDAALAADLAL 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L L+VRS NCL+ E I +G+L+ RTE D+L + NFG KS+ E+K L MGL L Sbjct: 250 PIEDLNLTVRSYNCLKREGIHTVGELVARTEQDLLDIRNFGAKSIEEVKQKLSDMGLALK 309 Query: 319 MNLPDWPP 326 + P Sbjct: 310 DAQGGFDP 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 = 346 bits (889), Expect = 2e-93, Method: Composition-based stats. Identities = 133/310 (42%), Positives = 204/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE IV E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+V+I+G Sbjct: 3 EIEKP-KIE-IVEQSEDNTYGKFVVEPLERGYGITLGNSLRRILLSSLPGAAVTSVKIEG 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|329298509|ref|ZP_08255845.1| DNA-directed RNA polymerase subunit alpha [Plautia stali symbiont] Length = 329 Score = 346 bits (889), Expect = 2e-93, 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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 346 bits (889), Expect = 2e-93, Method: Composition-based stats. Identities = 147/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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---EVKEEKPEFVPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >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 = 346 bits (889), Expect = 2e-93, Method: Composition-based stats. Identities = 133/313 (42%), Positives = 201/313 (64%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E +N + + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKNYGIFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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|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 = 346 bits (889), Expect = 2e-93, Method: Composition-based stats. Identities = 146/334 (43%), 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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 346 bits (889), Expect = 2e-93, Method: Composition-based stats. Identities = 142/333 (42%), Positives = 219/333 (65%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF +TLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISPTHAKVTLEPLERGFGYTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ + + G +T+ K G G VTAGD Sbjct: 58 EVEIDGVLHEYSSKEGVQEDVIEVLLNLKGLAVSVEGKDEATLTLNKSGAGPVTAGDFTH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 178 D+E++NP+HVIC+L D + M + V +G GYVPA ++ +D 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+ + Sbjct: 178 PVERIAYSVDAARVEQRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLDAFVELRDIS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 EPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIQYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLID 327 >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 = 346 bits (889), Expect = 2e-93, Method: Composition-based stats. Identities = 150/333 (45%), Positives = 223/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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--KHHRTENDPIGLITIDALYS 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|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 = 346 bits (889), Expect = 2e-93, 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYS 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 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 EPV---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIQYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPPESI E Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPESIAE 327 >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 = 346 bits (889), Expect = 2e-93, Method: Composition-based stats. Identities = 121/312 (38%), Positives = 183/312 (58%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ GV Sbjct: 10 TEESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTTLPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+I+LNIKGI L D + + K G G TAGDI + + + NP+ I L Sbjct: 70 QEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPSGVTIANPEQHIATLA 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + +E TV +G GYVPA+ ++ + D IG I +D++YSP+ KVSY VE+ R Q D+ Sbjct: 130 EDGELEIEFTVERGRGYVPAQMNKQDTDEIGRIPVDSIYSPVLKVSYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T +I+ D+VA A L + G+ + V+ + NP + Sbjct: 190 DKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNAQAEGVEVGPAPVAEETNPEMAV 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L L+ RS NCL+ E + +G+L+ TE D+L + NFG KS+ E+K L T+GL L Sbjct: 250 PIEDLNLTQRSYNCLKREGVHTIGELVSHTEQDLLDIRNFGMKSIDEVKEKLQTLGLSLK 309 Query: 319 MNLPDWPPESIE 330 + + ++E Sbjct: 310 SSPMAFDTNNLE 321 >gi|322659535|gb|EFY55779.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 19N] Length = 329 Score = 346 bits (888), Expect = 2e-93, Method: Composition-based stats. Identities = 147/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|330432099|gb|AEC17158.1| DNA-directed RNA polymerase subunit alpha [Gallibacterium anatis UMN179] Length = 327 Score = 346 bits (888), Expect = 2e-93, Method: Composition-based stats. Identities = 146/332 (43%), Positives = 220/332 (66%), Gaps = 8/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVD---IEQISPTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DVDAVVRMELTVSKGHGYVPAKHH-RTENDPIGLITIDALYSP 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|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 = 346 bits (888), Expect = 2e-93, Method: Composition-based stats. Identities = 150/333 (45%), Positives = 222/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYS 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|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 = 346 bits (888), Expect = 2e-93, Method: Composition-based stats. Identities = 130/321 (40%), Positives = 195/321 (60%), Gaps = 4/321 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPGVVTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGVVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNAKGKLEMELTVERGRGYVSAVQNKQAGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNVDAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPPESIEE 331 MGL L + P + P S + Sbjct: 302 AGMGLALKDSPPGFDPTSAAD 322 >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 = 346 bits (888), Expect = 2e-93, 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|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 = 346 bits (888), Expect = 3e-93, Method: Composition-based stats. Identities = 153/337 (45%), Positives = 224/337 (66%), Gaps = 3/337 (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 +++ S+ NP L K ++ELELSVR+TNCL+ NI +G+L+QRTE ML+ NFGRKSL Sbjct: 251 EVD-SSIDLNPNLFKSIDELELSVRATNCLKAANIQLVGELVQRTEQAMLKTKNFGRKSL 309 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 EI+ VL +M L GM + D+ + E L +K +++ Sbjct: 310 DEIRRVLDSMSLKFGMGVEDFDKKYQEWLKRKEKNEA 346 >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 = 346 bits (888), Expect = 3e-93, Method: Composition-based stats. Identities = 137/310 (44%), Positives = 201/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE V ++ + + EPL RG+ TLGN+LRR+L+SSL G A+T+V+I+G Sbjct: 3 EIEKP-KIE-CVERTDDNSYAKFVVEPLERGYGITLGNSLRRILLSSLPGTAVTSVKIEG 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|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 = 346 bits (888), Expect = 3e-93, Method: Composition-based stats. Identities = 128/323 (39%), Positives = 196/323 (60%), Gaps = 3/323 (0%) 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 LGMNLPDWPPESIEELAKKYEDK 339 L + P + P + L Y D+ Sbjct: 308 LKDSPPGFDPSA---LVDNYGDE 327 >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 = 346 bits (888), Expect = 3e-93, Method: Composition-based stats. Identities = 126/322 (39%), Positives = 191/322 (59%), Gaps = 2/322 (0%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + +R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV Sbjct: 10 TEDYIDSSRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTIPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED++DIILNIKG+ L D V + + G G VTA DI+ +E+ NPDH I L+ Sbjct: 70 KEDVSDIILNIKGLVLSSEFDEPATVYLRREGAGAVTAADIECPAGVEIHNPDHHIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +E+ V +G GYVPA + IG I +D +YSP+ KVSY VE+ R Q D+ Sbjct: 130 ESGRLEIEMIVERGRGYVPATPNSGGE--IGRIPMDQIYSPVLKVSYKVEATRVEQRTDF 187 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T SIT D++A A + L + G+ E + ++ + + A Sbjct: 188 DKLIIDVETKNSITARDAMASAGKTLVELFGLARELNEAAEGIEIGPSPREAEDVAAYQT 247 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L+ S+RS NCL+ E I +G+L RTE+D+L + NFG KS+ E+K L +GL L Sbjct: 248 PIEDLDFSMRSYNCLKREEIHTVGELAARTESDLLDIRNFGDKSINEVKEKLAELGLALK 307 Query: 319 MNLPDWPPESIEELAKKYEDKC 340 + ++ P ++ +L D Sbjct: 308 DSPNNFDPAAVADLDAASGDDA 329 >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 = 346 bits (888), Expect = 3e-93, Method: Composition-based stats. Identities = 149/326 (45%), Positives = 210/326 (64%), Gaps = 7/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVEPLGDH---HAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSY 185 NP HVI NL + ++L V +G GYVP + ++ G 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 AVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALEG-TESAAEAA 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|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 = 346 bits (888), Expect = 3e-93, Method: Composition-based stats. Identities = 146/354 (41%), Positives = 207/354 (58%), Gaps = 34/354 (9%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 ++KP +E + ++ EP RG+ HTLGNALRRVL+SS+ G A T VQI GV Sbjct: 5 MLKPRLVEVQEISGPSH--ARVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVQIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI-GLITIDALYSPIKKVSYTV 187 NPDHVI L + M++ V +G GYVP + G 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 NIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 NI Y+GDLIQRTE ++L+ N GRKSL EIK VL + GL LGM L DWPP +E Sbjct: 303 NIYYIGDLIQRTENELLKTPNLGRKSLNEIKEVLASRGLTLGMRLDDWPPAGLE 356 >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 = 346 bits (887), Expect = 3e-93, Method: Composition-based stats. Identities = 151/333 (45%), Positives = 222/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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--KHHRTENDPIGLITIDALYS 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|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 = 346 bits (887), Expect = 3e-93, Method: Composition-based stats. Identities = 150/333 (45%), Positives = 222/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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--KHHRTENDPIGLITIDALYS 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|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 = 346 bits (887), Expect = 3e-93, 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|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 = 346 bits (887), Expect = 3e-93, Method: Composition-based stats. Identities = 171/342 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH----HRTENDPIGLITIDALY 177 +D +LN D +IC LD +++ V+ G GYVPA ++ + 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|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 = 346 bits (887), Expect = 3e-93, Method: Composition-based stats. Identities = 149/334 (44%), Positives = 224/334 (67%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 346 bits (887), Expect = 4e-93, Method: Composition-based stats. Identities = 145/334 (43%), Positives = 215/334 (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-DAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALY 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 SEPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 328 >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 = 346 bits (887), Expect = 4e-93, Method: Composition-based stats. Identities = 122/302 (40%), Positives = 181/302 (59%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 Q R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ GV Sbjct: 10 TEEQVTPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTTLPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+I+LNIK + L D + + K G G TA DI + + NPD I L Sbjct: 70 KEDVTEILLNIKELVLTSEYDEPVVMYLRKSGEGEATAADITPPAGVVIANPDLHIATLA 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + +E TV +G GYVPA+ ++ E D IG I +D++YSP+ KVSY VE+ R Q D+ Sbjct: 130 EDGELEIEFTVERGRGYVPAQMNKQEGDEIGRIPVDSIYSPVVKVSYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T +IT D+VA A L + G+F + V+ + +P + Sbjct: 190 DKLIVDVETKPAITPRDAVASAGSTLVELFGLFHELNNQAEGVEVGPAPVTEEVDPQMEI 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L L+ RS NCL+ E I +G+L++R+E D+L + NFG+KS+ E+K L +MGL L Sbjct: 250 PIEDLNLTQRSYNCLKREGIHTIGELVKRSEQDLLDIRNFGQKSIDEVKDKLASMGLSLK 309 Query: 319 MN 320 + Sbjct: 310 QS 311 >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 = 346 bits (887), Expect = 4e-93, Method: Composition-based stats. Identities = 153/328 (46%), Positives = 213/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I LG E+ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPKIIAVESLG---ESHAKVVMEPFERGYGHTLGNALRRVLLSSMIGYAPTEVTIA 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP---IGLITIDALYSPIKKV 183 V+NPDHVI +L + +++ V KG GYVP R + IG 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 E Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALE--GTEATA 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 238 EAPSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >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 = 346 bits (887), Expect = 4e-93, Method: Composition-based stats. Identities = 123/313 (39%), Positives = 184/313 (58%), Gaps = 1/313 (0%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I GV HE +++ GV Sbjct: 10 TEESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGVPHEFTTLPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+I+LNIKGI L D + + K G G TAGDI + + NPD I L Sbjct: 70 EEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIANPDMHIATLA 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + +E TV +G GYVPA+ ++ +N IG I +D++YSP+ KVSY VE+ R Q D+ Sbjct: 130 EDGELEIEFTVERGRGYVPAQMNKQDNAEIGRIPVDSIYSPVLKVSYRVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T +I+ D+VA A L + G+ + V+ + NP + Sbjct: 190 DKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNTQAEGVEVGPAPVAEETNPEMAV 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L ++GL L Sbjct: 250 PIEDLNLTQRSYNCLKREGIHTIGELVAHTEQDLLDIRNFGMKSIDEVKEKLQSLGLALK 309 Query: 319 MN-LPDWPPESIE 330 + L ++ ++E Sbjct: 310 ASPLGNFDTNNLE 322 >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 = 346 bits (887), Expect = 4e-93, Method: Composition-based stats. Identities = 149/335 (44%), Positives = 222/335 (66%), Gaps = 7/335 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q EL+KP ++ VL + R ++ EPL RGF +TLGNALRR+L+SS+ G A+T Sbjct: 1 MQLGSTELLKPRLVDVQVL---DATRARVVLEPLERGFGYTLGNALRRILLSSIPGVAVT 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 RRVSYSVERARVEQRTDLDSLVLDIETNGSISAEDAIRQAAGILVDQLSVFVDL---KAE 234 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G+ Sbjct: 235 KVEPVVEQAPAVDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEIELLKTPNLGK 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 KSL EIK VL GL LG L +WPP + LA+ Sbjct: 295 KSLTEIKDVLAKQGLSLGQRLENWPPAELLNLAES 329 >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 = 346 bits (887), Expect = 4e-93, Method: Composition-based stats. Identities = 156/328 (47%), Positives = 224/328 (68%), Gaps = 2/328 (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 K-EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + + + NP L K VE+LELSVRS NCL+ +I ++GDL+QRT+ +ML+ NFGR Sbjct: 250 EKKAVETEEKQENPYLDKPVEDLELSVRSANCLKNADINFIGDLVQRTDQEMLKTKNFGR 309 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPES 328 KSL EIK +L M L LG+ L W S Sbjct: 310 KSLNEIKTLLQDMDLTLGVKLEGWNAPS 337 >gi|332175074|gb|AEE24328.1| DNA-directed RNA polymerase, alpha subunit [Glaciecola agarilytica 4H-3-7+YE-5] Length = 329 Score = 346 bits (887), Expect = 4e-93, Method: Composition-based stats. Identities = 151/333 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYS 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 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 EPV---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIQYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPPESI E Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPESIAE 327 >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 = 346 bits (887), Expect = 4e-93, Method: Composition-based stats. Identities = 136/311 (43%), Positives = 205/311 (65%), Gaps = 5/311 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E +N + EPL RG+ TLGN+LRRV+++SL GAAIT++ IDG Sbjct: 3 EFEKPN----IHKVEETDNYGKFVVEPLERGYGTTLGNSLRRVMLASLPGAAITSINIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T IILN+K ++L++ + K + + +GP VTAGDIQ D+ V Sbjct: 59 VLHEFSTVEGVTEDVTQIILNLKKVSLRIDSEDQKNLELDVKGPAEVTAGDIQGDGDVTV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSPIKKVSYT 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|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 = 346 bits (887), Expect = 4e-93, Method: Composition-based stats. Identities = 136/315 (43%), Positives = 206/315 (65%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E +N + EPL RG+ TLGN+LRRVL++SL G+AIT +QIDG Sbjct: 3 EFEKPN----IHKVEETDNYGKFVVEPLERGYGTTLGNSLRRVLIASLPGSAITTMQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++KGV ED+T IILN+K ++LK++ + K + + +GP VTAGDIQ +++ V Sbjct: 59 VLHEFSTVKGVTEDVTQIILNLKKVSLKINSEDQKDLELDVKGPAKVTAGDIQGDSEVSV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 185 LNPD I + A + +++T KG GY+ A ++ 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 IKGVLGTMGLFLGMN 320 IK L +G+ + Sbjct: 299 IKLKLNDLGVSFRQD 313 >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 = 346 bits (887), Expect = 4e-93, Method: Composition-based stats. Identities = 122/312 (39%), Positives = 182/312 (58%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I GV HE +++ GV Sbjct: 10 TEESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGVPHEFTTLPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+I+LNIKGI L D + + K G G TAGDI + + NPD I +L Sbjct: 70 EEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIANPDMHIASLA 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + +E TV +G GYVPA+ ++ +N IG I +D++YSP+ KVSY VE+ R Q D+ Sbjct: 130 DDGELEIEFTVERGRGYVPAQMNKQDNAEIGRIPVDSIYSPVLKVSYRVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T +I+ D+VA A L + G+ + V+ + NP + Sbjct: 190 DKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNTQAEGVEVGPAPVAEETNPEMAV 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L +GL L Sbjct: 250 PIEDLNLTQRSYNCLKREGIHTIGELVAHTEQDLLDIRNFGMKSIDEVKEKLQALGLALK 309 Query: 319 MNLPDWPPESIE 330 + + ++E Sbjct: 310 ASPLGFDANNLE 321 >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 = 346 bits (887), Expect = 4e-93, Method: Composition-based stats. Identities = 147/326 (45%), Positives = 210/326 (64%), Gaps = 7/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVEPLGDH---HAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSY 185 NP HVI +L + M++ V +G GYVP + ++ G + +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 AVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALEG-TESAAEAA 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|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 = 346 bits (887), Expect = 4e-93, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ L + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQLSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 346 bits (887), Expect = 4e-93, Method: Composition-based stats. Identities = 150/334 (44%), Positives = 222/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGYAVT 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|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 = 345 bits (886), Expect = 4e-93, Method: Composition-based stats. Identities = 147/334 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 345 bits (886), Expect = 4e-93, 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|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 = 345 bits (886), Expect = 4e-93, 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|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 = 345 bits (886), Expect = 5e-93, Method: Composition-based stats. Identities = 149/334 (44%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ L + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQLSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 345 bits (886), Expect = 5e-93, Method: Composition-based stats. Identities = 123/313 (39%), Positives = 184/313 (58%), Gaps = 1/313 (0%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I GV HE +++ GV Sbjct: 10 TEESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGVPHEFTTLPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+I+LNIKGI L D + + K G G TAGDI + + NPD I L Sbjct: 70 EEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIANPDMHIATLA 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + +E TV +G GYVPA+ ++ +N IG I +D++YSP+ KVSY VE+ R Q D+ Sbjct: 130 EDGELEIEFTVERGRGYVPAQMNKQDNAEIGRIPVDSIYSPVLKVSYRVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T +I+ D+VA A L + G+ + V+ + NP + Sbjct: 190 DKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNTQAEGVEVGPAPVAEETNPEMNI 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L ++GL L Sbjct: 250 PIEDLNLTQRSYNCLKREGIHTIGELVAHTEQDLLDIRNFGMKSIDEVKEKLQSLGLALK 309 Query: 319 MN-LPDWPPESIE 330 + L ++ ++E Sbjct: 310 ASPLGNFDANNLE 322 >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 = 345 bits (886), Expect = 5e-93, 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|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 = 345 bits (886), Expect = 5e-93, Method: Composition-based stats. Identities = 149/333 (44%), Positives = 218/333 (65%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E ++P ++ + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLRPRLVD---IEQISSTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 PVSRIAYNVEAARVEQRTNLDKLVIDMETDGTLDPEEAIRRAATILAEQLDAFVDLRDVT 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 EPE---QKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 327 >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 = 345 bits (886), Expect = 5e-93, Method: Composition-based stats. Identities = 160/335 (47%), Positives = 220/335 (65%), Gaps = 1/335 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW+ELIKP IE + EPL RGF T+GNALRR+L+SSL+GAAI +V Sbjct: 7 RNWRELIKPKRIEIDQ-ETNTSTYGKFVCEPLERGFGITIGNALRRILLSSLQGAAIVSV 65 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 + + V+HE SS+ GV ED+TDIILN+K I LK + + + G G+VTAGDI+T Sbjct: 66 KFEDVVHEFSSMPGVLEDVTDIILNLKEIKLKTLDVEEAVIKVNREGEGIVTAGDIETDG 125 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 +EVL P I L+ + + ME+ V G GYVPA+ + EN PIG+I IDA +S +KKV Sbjct: 126 SVEVLEPVQHIATLNKEGKLNMEMVVKMGKGYVPAERLKEENTPIGVIAIDATFSCVKKV 185 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y V ++R GQV DYDKL++ + TDGS+ ED+VA A++IL++Q+ FINFEE + V+E Sbjct: 186 NYVVTNSRVGQVTDYDKLTLEVWTDGSVFPEDAVAFAAKILKEQMNPFINFEEEIEPVEE 245 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + N L + V +LELSVRS NCL+ I +G+L+Q+T+A+ML+ NFGRKSL Sbjct: 246 EEVREDQEVNENLFRPVSDLELSVRSANCLQNAKINLIGELVQKTDAEMLKTKNFGRKSL 305 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 EIK +L MGL LGM L +PP + + D Sbjct: 306 NEIKAILSDMGLSLGMKLDFFPPSQESDDEGEKTD 340 >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 = 345 bits (886), Expect = 5e-93, Method: Composition-based stats. Identities = 149/331 (45%), Positives = 213/331 (64%), Gaps = 8/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP +E ++ NR ++ EP+ RGF TLGNALRRVL+SS+ G AIT Sbjct: 1 MQNSPTEYLKPRIVEVDLIN---PNRAKVVLEPMERGFGFTLGNALRRVLLSSIPGFAIT 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 EVEV---QQAPQIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRHENDLLKAPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 RKSL EIK +L T GL LGM + +WPP+ +E Sbjct: 295 RKSLNEIKDILATKGLSLGMKVDNWPPQGVE 325 >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 = 345 bits (886), Expect = 5e-93, Method: Composition-based stats. Identities = 138/334 (41%), Positives = 221/334 (66%), Gaps = 6/334 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++ ++ +KP ++E L +NR ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MKGYLKDFLKPRSVEIEPLS---DNRAKVVLEPLERGFGHTLGNALRRLLLSSMPGTAVT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN-DPIGLITIDALYSPI 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 GGDEQEEPEI--DPVLLRPIDDLELTVRSANCLKAESIHFVGDLVQRTEVELLKTPNLGK 295 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 KSL EIK L GL LGM L +WPP S+ + A+ Sbjct: 296 KSLNEIKDTLAEHGLSLGMQLDNWPPPSLGDRAR 329 >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 = 345 bits (886), Expect = 5e-93, Method: Composition-based stats. Identities = 122/312 (39%), Positives = 182/312 (58%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ GV Sbjct: 10 TEESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTTLPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+I+LNIKGI L D + + K G G AGDI + + NP+ I L Sbjct: 70 QEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGKGEAVAGDITPPAGVTIANPEQHIATLA 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + +E TV +G GYVPA+ ++ +ND IG I +D++YSP+ KVSY VE+ R Q D+ Sbjct: 130 DDGELEIEFTVERGRGYVPAQMNKQDNDEIGRIPVDSIYSPVLKVSYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T +I+ D+VA A L + G+ + V+ + NP + Sbjct: 190 DKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNAQAEGVEVGPAPVAEETNPEMAV 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L T+GL L Sbjct: 250 PIEDLNLTQRSYNCLKREGIHTIGELVSHTEQDLLDIRNFGMKSIDEVKEKLQTLGLSLK 309 Query: 319 MNLPDWPPESIE 330 + + ++E Sbjct: 310 SSPMAFDTNNLE 321 >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 = 345 bits (886), Expect = 5e-93, Method: Composition-based stats. Identities = 131/313 (41%), Positives = 202/313 (64%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EFEKPT----ITKIDENKDYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 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|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 = 345 bits (886), Expect = 5e-93, Method: Composition-based stats. Identities = 149/333 (44%), Positives = 222/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYS 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|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 = 345 bits (885), Expect = 5e-93, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 216/334 (64%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVST---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+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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|258591343|emb|CBE67642.1| DNA-directed RNA polymerase alpha chain [NC10 bacterium 'Dutch sediment'] Length = 342 Score = 345 bits (885), Expect = 5e-93, 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-FKGIQKPKRLE-CELESLTSTYGKFFAEPFERGFGLTIGNALRRTLLSAIEGAAV 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|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 = 345 bits (885), Expect = 5e-93, Method: Composition-based stats. Identities = 120/307 (39%), Positives = 184/307 (59%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S++ GV Sbjct: 37 TEENISEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFSTVPGV 96 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+IILNIKG+ + D + K G G VTA DI +E+ NP+ VI L+ Sbjct: 97 KEDVTEIILNIKGLVVSSEHDEPITAYLRKTGAGQVTAADISAPAGVEIHNPELVIATLN 156 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 A +ELT+ +G GYV A+ +R E G I ID++YSP+ KV+Y VE+ R G+ D+ Sbjct: 157 DKAKFEVELTIERGRGYVSAQQNRNEYSEAGQIPIDSIYSPVLKVTYRVEATRAGERTDF 216 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 D+L + ++T +I+ D++A A R L + G+ + ++ + L Sbjct: 217 DRLVVDVETKPAISPRDAIASAGRTLVELFGLARELNSAAEGIEIGPAPVDQVLSSELSM 276 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L+LSVRS NCL+ E I + +L+ +E ++ + NFG+KS+ E+K L MGL L Sbjct: 277 PIEDLDLSVRSYNCLKREGINTVSELVSLSETQLMNIRNFGQKSVDEVKDKLTEMGLSLK 336 Query: 319 MNLPDWP 325 ++P + Sbjct: 337 DSVPGFD 343 >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 = 345 bits (885), Expect = 6e-93, Method: Composition-based stats. Identities = 123/313 (39%), Positives = 184/313 (58%), Gaps = 1/313 (0%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I GV HE +++ GV Sbjct: 22 TEESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGVPHEFTTLPGV 81 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+I+LNIKGI L D + + K G G TAGDI + + NPD I L Sbjct: 82 EEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIANPDMHIATLA 141 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + +E TV +G GYVPA+ ++ +N IG I +D++YSP+ KVSY VE+ R Q D+ Sbjct: 142 EDGELEIEFTVERGRGYVPAQMNKQDNAEIGRIPVDSIYSPVLKVSYRVEATRVEQRTDF 201 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T +I+ D+VA A L + G+ + V+ + NP + Sbjct: 202 DKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNTQAEGVEVGPAPVAEETNPEMNI 261 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L ++GL L Sbjct: 262 PIEDLNLTQRSYNCLKREGIHTIGELVAHTEQDLLDIRNFGMKSIDEVKEKLQSLGLALK 321 Query: 319 MN-LPDWPPESIE 330 + L ++ ++E Sbjct: 322 ASPLGNFDANNLE 334 >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 = 345 bits (885), Expect = 6e-93, Method: Composition-based stats. Identities = 147/334 (44%), 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 MQGSVTEFLKPRLVDIEQVST---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+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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 345 bits (885), Expect = 6e-93, 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|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 = 345 bits (885), Expect = 6e-93, Method: Composition-based stats. Identities = 147/334 (44%), Positives = 216/334 (64%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVST---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 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 345 bits (885), Expect = 6e-93, 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-KIEAVELS-EDGTYGKFVVEPLERGYGTTLGNSLRRILLNSLPGSAVTSVQFNN 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|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 = 345 bits (885), Expect = 7e-93, Method: Composition-based stats. Identities = 154/332 (46%), Positives = 216/332 (65%), Gaps = 8/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ L R + +P RGF HTLGNALRR+L+SS+ G A T Sbjct: 1 MQNSTTEFLKPRQIDVDTLS---ATRAKVSMQPFERGFGHTLGNALRRILLSSMNGFAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSP 179 +D+E++NPDHV+C+L + + ME+ V +G GY R 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+ K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N G Sbjct: 238 EVEEE---KAPPIDPVLLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 RKSL EIK VL + GL LG L WPP +E+ Sbjct: 295 RKSLNEIKEVLASKGLTLGSKLEAWPPAGLEK 326 >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 = 345 bits (884), Expect = 7e-93, Method: Composition-based stats. Identities = 155/336 (46%), Positives = 224/336 (66%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 178 +DIE+ NPDHVIC+L+ + + M+LTV++G GY PA E IG + +DA ++ Sbjct: 118 DHDIEIRNPDHVICHLNGASEINMKLTVARGRGYSPADSRENPEEETRSIGRLQLDATFA 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +VSY VESAR Q D DKL + ++T+G+I E+++ A+ ILQ QL +F++ + Sbjct: 178 PVHRVSYVVESARVEQRTDLDKLVLDLETNGTIDPEEAIRRAATILQQQLAVFVDL---E 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E + + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N Sbjct: 235 SESESESVEEEDEVDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S++ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKNDDR 330 >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 = 345 bits (884), Expect = 7e-93, Method: Composition-based stats. Identities = 134/315 (42%), Positives = 205/315 (65%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E +N + EPL RG+ TLGN+LRRVL++SL GAAIT++QIDG Sbjct: 3 EFEKPN----IHKVEETDNYGKFVVEPLERGYGTTLGNSLRRVLIASLPGAAITSMQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T IILN+K ++LK+ + K + + +GP VTA DIQ N++ + Sbjct: 59 VLHEFSTVEGVTEDVTQIILNLKKVSLKLDSEDQKNLELDVKGPAEVTASDIQGDNEVTI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 185 LNPD I + A + ++LT KG GY+ A ++ ++ 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 IKGVLGTMGLFLGMN 320 IK L +G+ + Sbjct: 299 IKLKLNDLGVSFRQD 313 >gi|311896536|dbj|BAJ28944.1| putative DNA-directed RNA polymerase subunit alpha [Kitasatospora setae KM-6054] Length = 340 Score = 345 bits (884), Expect = 7e-93, Method: Composition-based stats. Identities = 127/316 (40%), Positives = 193/316 (61%), Gaps = 4/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPGVVTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGVVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 + V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 ELVLATLNGKGKLEMELTVERGRGYVSAVQNKASGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKPAMRPRDAMASAGKTLVELFGLARELNVDAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEELELTVRSYNCLKREGIHTVGELVARSEADLLDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPP 326 MGL L + P + P Sbjct: 302 AGMGLALKDSPPGFDP 317 >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 = 345 bits (884), Expect = 7e-93, Method: Composition-based stats. Identities = 132/313 (42%), Positives = 206/313 (65%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE V E+ + + EPL RG+ TLGN+LRR+L+SSL G A +++IDG Sbjct: 3 EIEKP-KIE-CVESTEDGSYGKFVIEPLERGYGITLGNSLRRILLSSLPGVAANSIKIDG 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|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 = 345 bits (884), Expect = 7e-93, Method: Composition-based stats. Identities = 129/321 (40%), Positives = 195/321 (60%), Gaps = 4/321 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPGVVTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGVVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + +ELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNAKGKLELELTVERGRGYVSAVQNKQAGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNVDAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPPESIEE 331 MGL L + P + P S + Sbjct: 302 AGMGLALKDSPPGFDPTSAAD 322 >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 = 345 bits (884), Expect = 7e-93, Method: Composition-based stats. Identities = 121/329 (36%), Positives = 194/329 (58%), Gaps = 9/329 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V NR+ EPL GF +T+GN+LRR L+SS+ GAA+T+V+IDGVLH Sbjct: 6 RPTLTEEVV----APNRSRFTIEPLEPGFGYTMGNSLRRTLLSSIPGAAVTSVRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+T+IILN+K +++ D + K+G G +TA DI+ +E+ NP Sbjct: 62 EFSTVPGVTEDVTEIILNVKKLSISSENDEPVVAYLRKQGEGELTAADIEVPAGVEIHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 + I L+ A EL + +G GYV A ++T + IG I +D++YSP+ KV+++V + Sbjct: 122 ELHIATLNAKANFNAELIIERGRGYVSAAQNKTGDAEIGRIPVDSIYSPVLKVTFSVNAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D L++ ++T +I D+VA A L + G+ + ++ + Sbjct: 182 RVEQRTDFDSLTLDVETKEAIAPRDAVASAGSTLVELFGLARELNVAAEGIEVGPSPADE 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +E+L +SVRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L Sbjct: 242 SMAADLALPIEDLNMSVRSYNCLKREGIHTVGELVTRSEADLMDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYEDK 339 +GL L + P + P +A+ Y+D+ Sbjct: 302 HELGLALKDSPPGFEP-----VARAYDDE 325 >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 = 345 bits (884), Expect = 8e-93, 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|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 = 345 bits (884), Expect = 8e-93, Method: Composition-based stats. Identities = 122/315 (38%), Positives = 193/315 (61%), Gaps = 4/315 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V ENR+ + EPL GF +TLGN+LRR L+SS+ GA++T+++IDGVLH Sbjct: 6 RPTLTEEVV----AENRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+T+++LNIK +++ D + K+GPG+VTA DI +E NP Sbjct: 62 EFTTVAGVKEDVTELVLNIKNLSVSSEHDEPVVAYLRKQGPGIVTAADITPPAGVEFHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ + MELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ Sbjct: 122 DLHIATLNANGKFDMELTIERGRGYVSAAQNKSADGEIGRIPVDSIYSPVLKVTFRVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T SIT D+VA A L + G+F + ++ + Sbjct: 182 RVEQRTDFDRLIVDVETKESITPRDAVASAGTTLVELFGLFRELNTQAEGIEIGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + +E+LEL+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L Sbjct: 242 AMAADMALPIEDLELTVRSYNCLKREGIHSVGELVTRSEADLMDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWP 325 +GL L + P + Sbjct: 302 VELGLALKDSPPGFD 316 >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 = 345 bits (884), Expect = 8e-93, Method: Composition-based stats. Identities = 152/334 (45%), Positives = 223/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVN---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 345 bits (884), Expect = 8e-93, 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 MSDHWNKLTKPSSIKVVNHGNA-LNKADLIIEPLESGFALTLGNALRRVMMSSLRGFAVY 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|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 = 345 bits (884), Expect = 8e-93, Method: Composition-based stats. Identities = 123/313 (39%), Positives = 184/313 (58%), Gaps = 1/313 (0%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I GV HE +++ GV Sbjct: 10 TEESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGVPHEFTTLPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+I+LNIKGI L D + + K G G TAGDI + + NPD I L Sbjct: 70 EEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIANPDMHIATLA 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + +E TV +G GYVPA+ ++ +N IG I +D++YSP+ KVSY VE+ R Q D+ Sbjct: 130 EDGELEIEFTVERGRGYVPAQMNKQDNAEIGRIPVDSIYSPVLKVSYRVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T +I+ D+VA A L + G+ + V+ + NP + Sbjct: 190 DKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNTQAEGVEVGPAPVAEETNPEMNI 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L ++GL L Sbjct: 250 PIEDLNLTQRSYNCLKREGIHTIGELVAHTEQDLLDIRNFGMKSIDEVKEKLQSLGLALK 309 Query: 319 MN-LPDWPPESIE 330 + L ++ ++E Sbjct: 310 ASPLGNFDTNNLE 322 >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 = 345 bits (884), Expect = 9e-93, Method: Composition-based stats. Identities = 148/326 (45%), Positives = 210/326 (64%), Gaps = 7/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I LG ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKIIAVEPLGDH---HAKVVMEPFERGYGHTLGNALRRVLLSSMVGYASTEVTIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSY 185 NP HVI +L + M++ V +G GYVP + ++ G 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 AVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALEG-TESAAEAA 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|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 = 345 bits (884), Expect = 9e-93, Method: Composition-based stats. Identities = 172/344 (50%), 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 MSDHWNKLTKPSSIKVVNHGNA-LNKADLIIEPLESGFALTLGNALRRVMMSSLRGFAVY 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND------PIGLITIDA 175 D +LN D +IC LD D +++ V+ G GYVPA ++ N 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|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 = 345 bits (884), Expect = 9e-93, 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|311693295|gb|ADP96168.1| DNA-directed RNA polymerase subunit alpha [marine bacterium HP15] Length = 319 Score = 345 bits (884), Expect = 9e-93, Method: Composition-based stats. Identities = 151/311 (48%), Positives = 215/311 (69%), Gaps = 6/311 (1%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + R + EPL RGF HTLG+ALRR+L+SS+ G A+T QIDGVLHE S+I+GV ED Sbjct: 3 ESSATRAKVTLEPLERGFGHTLGSALRRILLSSMPGCAVTEAQIDGVLHEYSAIEGVQED 62 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + +I+LN+KG+ +KM+G +T+ K+GPGVVTAGDI+ +D+E+ NP+HVIC+L + Sbjct: 63 VIEILLNLKGVAVKMNGRDDAELTLSKKGPGVVTAGDIKLDHDVEIANPEHVICHLSENG 122 Query: 142 VVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 V M L V++G GY PA E IG + +DA +SP+++V+Y VESAR Q D Sbjct: 123 EVNMRLRVARGRGYEPADQRGLDEDETRAIGRLQLDATFSPVRRVAYAVESARVEQRTDL 182 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T+G+I E+++ A+ ILQ QL +F++F+ K+ + +P LL+ Sbjct: 183 DKLVIDLETNGTIDPEEAIRRAATILQQQLAVFVDFDHEKEPE---RVEEEEEIDPILLR 239 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 240 PVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 299 Query: 319 MNLPDWPPESI 329 M L +WPP S+ Sbjct: 300 MRLDNWPPASL 310 >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 = 345 bits (884), Expect = 9e-93, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 217/334 (64%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVNSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|284006138|emb|CBA71380.1| DNA-directed RNA polymerase alpha chain [Arsenophonus nasoniae] Length = 329 Score = 345 bits (884), Expect = 9e-93, Method: Composition-based stats. Identities = 149/334 (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---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 344 bits (883), Expect = 9e-93, 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 MSDHWNKLTKPSSIKVVNHGNA-LNKADLIIEPLESGFALTLGNALRRVMMSSLRGFAVY 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|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 = 344 bits (883), Expect = 9e-93, Method: Composition-based stats. Identities = 155/333 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYS 178 +D+EV+NP+HVI + + + M LT G GY P R + 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|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 = 344 bits (883), Expect = 9e-93, 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 MQSNT--FLTPRIIDVQNISPL---HARITMEPFERGYGHTLGNALRRILLSSMPGFAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSP 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 PVEQP---KLPQIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTETELLKTPNLG 292 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 RKSL EIK VL + GL LGM L WPP ++++ K Sbjct: 293 RKSLNEIKEVLASRGLTLGMKLESWPPSNLDKGKK 327 >gi|42810|emb|CAA37839.1| unnamed protein product [Escherichia coli] Length = 329 Score = 344 bits (883), Expect = 9e-93, Method: Composition-based stats. Identities = 146/334 (43%), 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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 344 bits (883), Expect = 9e-93, Method: Composition-based stats. Identities = 124/316 (39%), Positives = 190/316 (60%), Gaps = 4/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P +E E R+ + EPL GF +TLGN+LRR L+SS+ GA++T+++IDGVLH Sbjct: 6 RPTLVE----DPISEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+TD+ILN+K + + D + + K+GPG VTA DI +EV +P Sbjct: 62 EFSTVPGVKEDVTDLILNLKELVVSSDNDEPTVMYLRKQGPGEVTAADIAPPAGVEVHSP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 + + L+ + +ELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ Sbjct: 122 ELRLATLNDKGKLEIELTVERGRGYVSAAQNKQAGQEIGRIPIDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T SI+ D++A A + L G+ + V + Sbjct: 182 RVEQRTDFDRLIVDVETKPSISPRDAMASAGKTLVGLFGLAQELNAEAEGVDIGPSAADA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EE++L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K L Sbjct: 242 ALAADLALPIEEMDLTVRSYNCLKREGIHTIGELVSRSEADLLDIRNFGQKSIDEVKTKL 301 Query: 311 GTMGLFLGMNLPDWPP 326 G MGL L + P + P Sbjct: 302 GAMGLQLKDSPPGFDP 317 >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 = 344 bits (883), Expect = 1e-92, Method: Composition-based stats. Identities = 148/330 (44%), Positives = 213/330 (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 MQNSTYEFLKPRQIDVDALS---ATRAKVFMEPFERGFGYTLGNALRRILLSSMNGFAPT 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 Sbjct: 178 RVSFEVQAARVEQRTDLDCLVLDIETNGAIDPEEAVRRAARILIDQMSVFADLEG---TP 234 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ ++ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N GRK Sbjct: 235 VEESKEEAPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPNLGRK 294 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 SL EIK VL + GL LG L WPP +++ Sbjct: 295 SLNEIKEVLASKGLTLGSKLDVWPPVGLDK 324 >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 = 344 bits (883), Expect = 1e-92, Method: Composition-based stats. Identities = 128/329 (38%), Positives = 191/329 (58%), Gaps = 7/329 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V + R+ + EPL GF +TLGN+LRR L+SS+ GA+IT+++I+G H Sbjct: 6 RPTLSEEVV----NDFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASITSIKIEGNQH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+T+IILN+KG+ L D + + K G G VTA DI +E+ NP Sbjct: 62 EFSTLPGVVEDVTEIILNLKGLVLSSEEDEPVAMYLRKSGAGEVTAADIAVPTGVEIYNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L D + MEL V +G GYV + + + IG I +D+LYSP+ VSY VE+ Sbjct: 122 DLHIATLADDGSIEMELVVERGRGYVSSTLNNNPDAEIGRIAVDSLYSPVLTVSYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R D+D+L + ++T SI D+VA A + L + G+F + V+ + Sbjct: 182 RVETRTDFDRLIVDVETKPSIRPHDAVASAGKTLVELFGLFRELNVEAEGVEMGPSPVDE 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + VE+L LSVRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L Sbjct: 242 QLAADMALPVEDLNLSVRSYNCLKREGIHTVGELVSRSEQDLLDIRNFGSKSIDEVKEKL 301 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYEDK 339 G +GL L + P + P + A ++ED+ Sbjct: 302 GDLGLTLKDSTPGFDPLAA---ADRFEDE 327 >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 = 344 bits (883), Expect = 1e-92, Method: Composition-based stats. Identities = 123/321 (38%), Positives = 194/321 (60%), Gaps = 3/321 (0%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 ENR+ + EPL GF +TLGN+LRR L+SS+ GA++T+++IDGVLHE S+++GV Sbjct: 10 TEEAVAENRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRIDGVLHEFSTVEGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T++ILNIK ++L D + K+GPG VTA DI +EV NP+ I L+ Sbjct: 70 KEDVTELILNIKKLSLSSEEDEPVTAWLRKQGPGEVTAADISAPAGVEVHNPELHIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +ELT+ +G GYV A +++ + +G I +D++YSP+ KV++ VE+ R Q D+ Sbjct: 130 SKGQLEIELTIERGRGYVSASQNKSGDAEVGRIPVDSIYSPVLKVTFRVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T +I+ D+VA A L + G+ + ++ + + Sbjct: 190 DKLILDVETKEAISPRDAVASAGTTLVELFGLARELNSSAEGIEIGPSPTDAAAAADMAL 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+LELSVRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K LG +GL L Sbjct: 250 PIEDLELSVRSYNCLKREGIHSVGELVGRSEADLMDIRNFGAKSIDEVKDKLGELGLALK 309 Query: 319 MNLPDWPPESIEELAKKYEDK 339 + P + + A ED+ Sbjct: 310 DSPPGYD---LAAHAASLEDE 327 >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 = 344 bits (883), Expect = 1e-92, 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-IETAEL-TSDGSYGRFVVEPLERGYGTTLGNSLRRVLLSSLPGVAVTQVKIDG 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|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 = 344 bits (883), Expect = 1e-92, Method: Composition-based stats. Identities = 171/342 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH----HRTENDPIGLITIDALY 177 +D +LN D +IC LD +++ V+ G GYVPA ++ + 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|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 = 344 bits (883), Expect = 1e-92, 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 SVPEKKE---DKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 328 >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 = 344 bits (883), Expect = 1e-92, Method: Composition-based stats. Identities = 132/313 (42%), Positives = 201/313 (64%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKDYGIFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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|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 = 344 bits (883), Expect = 1e-92, 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|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 = 344 bits (882), Expect = 1e-92, Method: Composition-based stats. Identities = 151/334 (45%), Positives = 221/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E +KP ++ + Q + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGAVTEFLKPRLVD---IEQISSTQAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 344 bits (882), Expect = 1e-92, Method: Composition-based stats. Identities = 151/334 (45%), Positives = 224/334 (67%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ + + Q + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQGSVIEFLKPHLVN---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVA 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|330718947|ref|ZP_08313547.1| DNA-directed RNA polymerase subunit alpha [Leuconostoc fallax KCTC 3537] Length = 314 Score = 344 bits (882), Expect = 1e-92, 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|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 = 344 bits (882), Expect = 1e-92, 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|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 = 344 bits (882), Expect = 1e-92, Method: Composition-based stats. Identities = 132/313 (42%), Positives = 196/313 (62%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKDYGKFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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|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 = 344 bits (882), Expect = 1e-92, Method: Composition-based stats. Identities = 143/314 (45%), Positives = 204/314 (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 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKV 183 VLNPD I + A M LT ++G GYV A ++ 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|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 = 344 bits (882), Expect = 1e-92, Method: Composition-based stats. Identities = 142/331 (42%), Positives = 213/331 (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+ + Sbjct: 178 PVARIAYTVEAARVEQRTDLDKLVIDMTTNGTLDPEEAIRRAATILAEQLDAFVELRDVT 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 EPE---QKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASL 325 >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 = 344 bits (882), Expect = 1e-92, Method: Composition-based stats. Identities = 121/329 (36%), Positives = 194/329 (58%), Gaps = 9/329 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V NR+ EPL GF +T+GN+LRR L+SS+ GAA+T+V+IDGVLH Sbjct: 6 RPTLTEEVV----APNRSRFTIEPLEPGFGYTMGNSLRRTLLSSIPGAAVTSVRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+T+IILN+K +++ D + K+G G +TA DI+ +E+ NP Sbjct: 62 EFSTVPGVTEDVTEIILNVKKLSISSENDEPVVAYLRKQGEGELTAADIEVPAGVEIHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 + I L+ A EL + +G GYV A ++T + IG I +D++YSP+ KV+++V + Sbjct: 122 ELHIATLNAKANFNAELIIERGRGYVSAAQNKTGDAEIGRIPVDSIYSPVLKVTFSVNAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D L++ ++T +I D+VA A L + G+ + ++ + Sbjct: 182 RVEQRTDFDSLTLDVETKEAIAPRDAVASAGSTLVELFGLARELNVAAEGIEVGPSPADE 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +E+L +SVRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L Sbjct: 242 SMAADLALPIEDLSMSVRSYNCLKREGIHTVGELVTRSEADLMDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYEDK 339 +GL L + P + P +A+ Y+D+ Sbjct: 302 HELGLALKDSPPGFEP-----VARAYDDE 325 >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 = 344 bits (882), Expect = 1e-92, Method: Composition-based stats. Identities = 143/314 (45%), Positives = 204/314 (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 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKV 183 VLNPD I + A M LT ++G GYV A ++ 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|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 = 344 bits (882), Expect = 1e-92, Method: Composition-based stats. Identities = 124/316 (39%), Positives = 188/316 (59%), Gaps = 4/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P IE E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLIE----ESISEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+TD+ILN+K + + D + + K+GPGVVTA DI +EV + Sbjct: 62 EFSTVPGVKEDVTDLILNLKELVVSSENDEPTVMYLRKQGPGVVTAADIAPPAGVEVHSL 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D + L+ + +ELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLALATLNDKGKLEIELTVERGRGYVSAAQNKQPGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T SI+ D++A A + L G+ + V + Sbjct: 182 RVEQRTDFDRLIVDVETKQSISPRDAMASAGKTLVGLFGLAQELNAEAEGVDIGPSAADA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EE++L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K L Sbjct: 242 ALAADLALPIEEMDLTVRSYNCLKREGIHTIGELVSRSEADLLDIRNFGQKSIDEVKTKL 301 Query: 311 GTMGLFLGMNLPDWPP 326 M L L + P + P Sbjct: 302 AAMALQLKDSPPGFDP 317 >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 = 344 bits (882), Expect = 1e-92, 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|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 = 344 bits (882), Expect = 1e-92, Method: Composition-based stats. Identities = 149/334 (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 MQGSVTEFLKPRLVDIEQVST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 344 bits (882), Expect = 1e-92, Method: Composition-based stats. Identities = 129/313 (41%), Positives = 207/313 (66%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP I + E+ + EPL RG+ TLGNALRR+L+SSL G A T+V+IDG Sbjct: 3 EIEKP--IIECIESNEDGTYGKYVVEPLERGYGITLGNALRRILLSSLPGVAPTSVKIDG 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|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 = 344 bits (882), Expect = 2e-92, 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|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 = 343 bits (881), Expect = 2e-92, Method: Composition-based stats. Identities = 120/307 (39%), Positives = 184/307 (59%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S++ GV Sbjct: 10 TEENISEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFSTVPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+IILNIKG+ + D + K G G VTA DI +E+ NP+ VI L+ Sbjct: 70 KEDVTEIILNIKGLVVSSEHDEPITAYLRKTGAGQVTAADISAPAGVEIHNPELVIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 A +ELT+ +G GYV A+ +R E G I ID++YSP+ KV+Y VE+ R G+ D+ Sbjct: 130 DKAKFEVELTIERGRGYVSAQQNRNEYSEAGQIPIDSIYSPVLKVTYRVEATRAGERTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 D+L + ++T +I+ D++A A R L + G+ + ++ + L Sbjct: 190 DRLVVDVETKPAISPRDAIASAGRTLVELFGLARELNSAAEGIEIGPAPVDQVLSSELSM 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L+LSVRS NCL+ E I + +L+ +E ++ + NFG+KS+ E+K L MGL L Sbjct: 250 PIEDLDLSVRSYNCLKREGINTVSELVSLSETQLMNIRNFGQKSVDEVKDKLTEMGLSLK 309 Query: 319 MNLPDWP 325 ++P + Sbjct: 310 DSVPGFD 316 >gi|42812|emb|CAA37838.1| unnamed protein product [Escherichia coli] Length = 329 Score = 343 bits (881), Expect = 2e-92, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALR +L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRCILLSSMPGCAVT 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|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 = 343 bits (881), Expect = 2e-92, Method: Composition-based stats. Identities = 145/336 (43%), Positives = 220/336 (65%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ E + P +I+ + + + EPL RGF HTLG ALRR+L+SS+ GAAI Sbjct: 1 MQRSVNEFLTPRHIQVEQVSN---TQAKVTLEPLERGFGHTLGAALRRILLSSMPGAAIV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 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 PVKRVAYGVENARVEQRTDLDKLVIDLETNGTIEPEEAIRRSATILQQQLAVFVDL---E 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E + + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 235 NEAEPEPEEQEDEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM+L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMHLENWPPASLKKDDK 330 >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 = 343 bits (881), Expect = 2e-92, Method: Composition-based stats. Identities = 135/313 (43%), Positives = 197/313 (62%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSIDIDG 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|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 = 343 bits (881), Expect = 2e-92, Method: Composition-based stats. Identities = 141/337 (41%), Positives = 215/337 (63%), Gaps = 7/337 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q +++ ++P + L + ++ EPL RGF HTLGNALRRVL+SS+ G A+ Sbjct: 1 MQGQFKDFLRPRLVGVEALS---DRHAMITLEPLERGFGHTLGNALRRVLLSSMPGYAVV 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++ E Sbjct: 178 VRRVAYNVESARVEQRTDLDKLVMDIETNGVLEPEEAVRFAAGLLRDQLSVFVDLE--GG 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|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 = 343 bits (881), Expect = 2e-92, Method: Composition-based stats. Identities = 132/313 (42%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKDYGVFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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|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 = 129/311 (41%), Positives = 201/311 (64%), Gaps = 4/311 (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 GVLGTMGLFLG 318 L +G L Sbjct: 299 QKLEELGFSLK 309 >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 = 343 bits (881), Expect = 2e-92, 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|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 = 343 bits (881), Expect = 2e-92, 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|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 = 343 bits (881), Expect = 2e-92, Method: Composition-based stats. Identities = 149/332 (44%), Positives = 219/332 (65%), Gaps = 8/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + + P NI+ + ++ EPL RGF HTLGNALRR+L+SS+ GAAI Sbjct: 1 MQNVLKSFLTPKNIQVQTIS---PCHFRILLEPLERGFGHTLGNALRRILLSSMPGAAIV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI--GLITIDALYSP 179 + ++++NPDHVI ++ D + M L + G GY P+ T + GL+ +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 IRRVTYSVENARVEKRTDLDKLIIDLETDGTLDPEEAIRFAAAVLQHQLAAFVDL---KQ 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|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 = 343 bits (881), Expect = 2e-92, 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|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 = 343 bits (881), Expect = 2e-92, Method: Composition-based stats. Identities = 141/331 (42%), Positives = 213/331 (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+ + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTLDPEEAIRRAATILAEQLDAFVELRDVT 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 EPE---QKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASL 325 >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 = 343 bits (881), Expect = 2e-92, Method: Composition-based stats. Identities = 151/333 (45%), Positives = 212/333 (63%), Gaps = 10/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N L+KP I L N+ ++ EP RG+ HTLGNALRRVL+SS+ G A T Sbjct: 1 MQTN---LLKPKIISVEAL---TANQAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GV+HE S++ GV ED+ +++LN+KGI K+ + + K GPGVVTA DI Sbjct: 55 EVAIAGVVHEYSTLDGVQEDVVNLLLNLKGIVFKLQSRDEVTINLRKEGPGVVTAKDIDL 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYS 178 +D+E++NPDHVI +L + M++ V KG GYVP + ++ G 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 PVSRVSYAVESARVEQRTDLDRLVMTIETNGVLSPEEAIRQAASILVDQLVVFAAL-ESS 233 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + +S +P L++ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 234 EVSGDLAPSRSSMVDPMLMRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNL 293 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL GL LGM L WPP ++E+ Sbjct: 294 GRKSLNEIKDVLAARGLSLGMKLESWPPANLEK 326 >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 = 343 bits (881), Expect = 2e-92, Method: Composition-based stats. Identities = 135/313 (43%), Positives = 197/313 (62%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSIDIDG 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|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 = 343 bits (881), Expect = 2e-92, Method: Composition-based stats. Identities = 132/313 (42%), Positives = 196/313 (62%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKDYGKFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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|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 = 343 bits (880), Expect = 2e-92, Method: Composition-based stats. Identities = 146/334 (43%), 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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 343 bits (880), Expect = 2e-92, 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|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 = 343 bits (880), Expect = 2e-92, Method: Composition-based stats. Identities = 147/334 (44%), Positives = 213/334 (63%), Gaps = 9/334 (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 TEVEV---QQAPQIDPVLLRPVDDLELTVRSANCLKAESIYYIGDLIQRNESDLLKAPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEEL 332 GRKSL EIK +L T GL LGM + +WPP +E++ Sbjct: 295 GRKSLNEIKDILATKGLSLGMKVENWPPAGVEKV 328 >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 = 343 bits (880), Expect = 2e-92, Method: Composition-based stats. Identities = 123/307 (40%), Positives = 183/307 (59%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + E R+ + EPL GF +T+GNALRR L+SS+ GAA+T+++IDGVLHE S+I GV Sbjct: 10 TEEKVGEFRSRFVIEPLEPGFGYTIGNALRRSLLSSIPGAAVTSIRIDGVLHEFSTIPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+IILNIK + + D + K G G VTA DI +EV NPD VI L+ Sbjct: 70 KEDVTEIILNIKQLVVSSERDEPITAYLRKTGSGEVTAADISAPAGVEVHNPDLVIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 A +ELT+ +G GYV A +R E G I ID++YSP+ KVSY VE+ R G+ D+ Sbjct: 130 DTAKFELELTIERGRGYVSATQNRNEYAEAGQIPIDSIYSPVLKVSYRVEATRAGERTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + +++ SI D+VA A R L + G+ + ++ + L Sbjct: 190 DKLVLDVESKPSIAPRDAVASAGRTLTELFGLARELNVEAEGIEIGPAPVETVLSNELSM 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L+LSVRS NCL+ E I + +L+ +E ++ + NFG+KS+ E++ L ++GL L Sbjct: 250 PIEDLDLSVRSYNCLKREGINTVSELVALSETQLMNIRNFGQKSVDEVRDKLVSLGLSLK 309 Query: 319 MNLPDWP 325 ++P + Sbjct: 310 DSVPGFD 316 >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 = 343 bits (880), Expect = 2e-92, 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 VNDFLTPRSI---AVNAINQTHAKVVLEPLERGFGHTLGTALRRILISSMPGCAITEVEI 60 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGV HE SSI+GV ED+ +I+LN+KG+ LKM + + K+GPGVVTA DIQ + + Sbjct: 61 DGVQHEYSSIEGVQEDVINILLNLKGVALKMEDSEETTLELVKKGPGVVTANDIQRDHSV 120 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKK 182 E++NPDH+IC + D +R++L V KG GYV A ++E+D G + +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 VAYVVEAARVEQRTDLDKLVIDLETDGTIEPEEAIRRAATILQQQIAVFVDLEQDAKP-- 238 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G+KS Sbjct: 239 -EPKQEREEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLGKKS 297 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 L EIK VL + GL LGM L +WPP S+ + + Sbjct: 298 LTEIKDVLASKGLSLGMRLENWPPVSLRDDDR 329 >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 = 343 bits (880), Expect = 2e-92, Method: Composition-based stats. Identities = 148/332 (44%), Positives = 213/332 (64%), Gaps = 8/332 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSP 179 + +EV+NPDHVI + + ++L + +G GY P+ +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 IHKVSYSVENARVENRTDLDKLVLELETNGTIDPEESIRRAATILQQQMAVFVNLEGETA 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 K +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N G Sbjct: 238 AE---PEEKEEEIDPILLRPVDDLELTVRSANCLKAESIYYIGDLIQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +KSL EIK VL + GL LGM L +WPP S++ Sbjct: 295 KKSLTEIKDVLASRGLSLGMRLENWPPASLKS 326 >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 = 343 bits (880), Expect = 2e-92, Method: Composition-based stats. Identities = 151/333 (45%), Positives = 212/333 (63%), Gaps = 10/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N L+KP I L N+ ++ EP RG+ HTLGNALRRVL+SS+ G A T Sbjct: 1 MQTN---LLKPKIISVEAL---TANQAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GV+HE S++ GV ED+ +++LN+KGI K+ + + K GPGVVTA DI Sbjct: 55 EVAIAGVVHEYSTLDGVQEDVVNLLLNLKGIVFKLQSRDEVIINLRKEGPGVVTAKDIDL 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYS 178 +D+E++NPDHVI +L + M++ V KG GYVP + ++ G 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 PVSRVSYAVESARVEQRTDLDRLVMTIETNGVLSPEEAIRQAASILVDQLVVFAAL-ESS 233 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + +S +P L++ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 234 EVSGDLAPSRSSMVDPMLMRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNL 293 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL GL LGM L WPP ++E+ Sbjct: 294 GRKSLNEIKDVLAARGLSLGMKLESWPPANLEK 326 >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 = 343 bits (880), Expect = 2e-92, Method: Composition-based stats. Identities = 151/333 (45%), Positives = 223/333 (66%), Gaps = 6/333 (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 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I++V+Y V ++R Q D+DKL++ + TDGS+ ED+VA A++I+++Q+ +FINF+E + Sbjct: 182 IRRVNYVVGNSRVKQKTDFDKLTLEVWTDGSVLPEDAVAFAAKIMKEQMNVFINFDESAE 241 Query: 240 EVKEDINVKS--LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 S FN L + V ELELSVRS+NCL+ I + L+Q+TE++ML+ N Sbjct: 242 PEHAGRKDDSGGKVFNENLYRSVNELELSVRSSNCLKNAEIDKLYQLVQKTESEMLKTKN 301 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 FGRKSL EIK +L MGL LGM+L + P + + Sbjct: 302 FGRKSLNEIKELLAEMGLSLGMDLEGFVPPAED 334 >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 = 343 bits (880), Expect = 2e-92, Method: Composition-based stats. Identities = 149/333 (44%), Positives = 218/333 (65%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E ++P ++ + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLRPRLVD---IEQISSTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 PVSRIAYNVESARVEQRTNLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVT 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 EPE---QKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 327 >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 = 343 bits (880), Expect = 2e-92, Method: Composition-based stats. Identities = 130/313 (41%), Positives = 197/313 (62%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKDYGVFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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|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 = 343 bits (880), Expect = 2e-92, Method: Composition-based stats. Identities = 151/341 (44%), Positives = 214/341 (62%), Gaps = 5/341 (1%) 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--DWPPESIEELAKKYED 338 +KSL+EIK +L M L LGM+L + P E + + Sbjct: 300 KKSLLEIKEILKEMNLTLGMDLDALGYQPVVAAESGDEQDS 340 >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 = 343 bits (880), Expect = 2e-92, Method: Composition-based stats. Identities = 136/311 (43%), Positives = 200/311 (64%), 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-IETAEL-KSDGTYGRFILEPLERGFGTTLGNSLRRVLLSSLPGVAVTSIKIDG 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|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 = 343 bits (880), Expect = 2e-92, 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|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 = 343 bits (880), Expect = 3e-92, 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|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 = 343 bits (880), Expect = 3e-92, 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|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 = 343 bits (880), Expect = 3e-92, Method: Composition-based stats. Identities = 131/313 (41%), Positives = 202/313 (64%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP + V + EPL RG+ TLGNALRR+L+SSL G A T+V+ID Sbjct: 3 EIEKP--VIQCVESNDNGTYGKFEIEPLERGYGITLGNALRRILLSSLPGVAPTSVKIDS 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 GVLGTMGLFLGMN 320 L +GL L +N Sbjct: 301 RKLNELGLNLRLN 313 >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 = 343 bits (879), Expect = 3e-92, Method: Composition-based stats. Identities = 150/334 (44%), Positives = 221/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E +KP ++ + Q + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGAVTEFLKPRLVD---IEQVSSTQAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 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|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 = 343 bits (879), Expect = 3e-92, Method: Composition-based stats. Identities = 157/337 (46%), Positives = 223/337 (66%), Gaps = 3/337 (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 SKE-SDLDLNPNLFKSIDELELSVRATNCLKAANIRIVGELVQRTEQTMLKTKNFGRKSL 309 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 EI+ VL +M L GM L D+ + E L +K +++ Sbjct: 310 DEIRRVLDSMELKFGMVLEDFDKKHQEWLKRKEKNEA 346 >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 = 343 bits (879), Expect = 3e-92, Method: Composition-based stats. Identities = 149/332 (44%), Positives = 216/332 (65%), Gaps = 8/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ L R + +P RGF HTLGNALRR+L+SS+ G A T Sbjct: 1 MQNSTSEFLKPRQIDVDTLS---ATRAKVSMQPFERGFGHTLGNALRRILLSSMNGFAPT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQ 120 + I GVLHE S++ GV ED+ DI+LN+K + K+ G+ + +++ K G G V A D + Sbjct: 58 EITIAGVLHEYSTLDGVQEDVVDILLNVKSVVFKLHGNRTEAVLSLKKTGAGPVYASDFE 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR-TENDPIGLITIDALYSP 179 +D+E++NP VIC+L + + ME+ V +G GY R 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+ K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N G Sbjct: 238 EVEEE---KAPPIDPVLLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 RKSL EIK VL + GL LG L WPP +E+ Sbjct: 295 RKSLNEIKEVLASKGLTLGSRLESWPPAGLEK 326 >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 = 343 bits (879), Expect = 3e-92, 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|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 = 343 bits (879), Expect = 3e-92, 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|281415637|ref|ZP_06247379.1| DNA-directed RNA polymerase subunit alpha [Micrococcus luteus NCTC 2665] Length = 334 Score = 343 bits (879), Expect = 3e-92, Method: Composition-based stats. Identities = 121/317 (38%), Positives = 194/317 (61%), Gaps = 4/317 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V ++R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVLH Sbjct: 8 RPTLTEEVV----SDHRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVLH 63 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+T+IILNIK +++ D + K+G GVVTA DI +E+ NP Sbjct: 64 EFSTVNGVKEDVTEIILNIKKLSVSSENDEPVVAYLRKQGAGVVTAADITAPAGVEIHNP 123 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ MELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ Sbjct: 124 DLHIATLNAKGKFDMELTIERGRGYVTAAQNKSADAEIGRIPVDSIYSPVLKVTFKVEAT 183 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T ++ D+VA A L + G+ + + + + + Sbjct: 184 RVEQRTDFDRLILDVETKENMLPRDAVASAGSTLVELFGLARSLNVEAEGIDLGDEPEVV 243 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + L + +EELEL+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L Sbjct: 244 EGSADLAQPIEELELTVRSYNCLKREGIHTVGELVGRSEADLMDIRNFGAKSIDEVKEKL 303 Query: 311 GTMGLFLGMNLPDWPPE 327 +GL L + + P+ Sbjct: 304 QELGLSLKDSPAGYDPQ 320 >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 = 343 bits (879), Expect = 3e-92, 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|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 = 343 bits (879), Expect = 3e-92, Method: Composition-based stats. Identities = 130/313 (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 EFEKPT----ITKIDENKDYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 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|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 = 342 bits (878), Expect = 4e-92, 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|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 = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 121/317 (38%), Positives = 194/317 (61%), Gaps = 4/317 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V ++R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVLH Sbjct: 6 RPTLTEEVV----SDHRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+T+IILNIK +++ D + K+G GVVTA DI +E+ NP Sbjct: 62 EFSTVNGVKEDVTEIILNIKKLSVSSENDEPVVAYLRKQGAGVVTAADITAPAGVEIHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ MELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ Sbjct: 122 DLHIATLNAKGKFDMELTIERGRGYVTAAQNKSADAEIGRIPVDSIYSPVLKVTFKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T ++ D+VA A L + G+ + + + + + Sbjct: 182 RVEQRTDFDRLILDVETKENMLPRDAVASAGSTLVELFGLARSLNVEAEGIDLGDEPEVV 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + L + +EELEL+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L Sbjct: 242 EGSADLAQPIEELELTVRSYNCLKREGIHTVGELVGRSEADLMDIRNFGAKSIDEVKEKL 301 Query: 311 GTMGLFLGMNLPDWPPE 327 +GL L + + P+ Sbjct: 302 QELGLSLKDSPAGYDPQ 318 >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 = 342 bits (878), Expect = 4e-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|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 = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 133/313 (42%), Positives = 209/313 (66%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP I + E + EPL RG+ TLGNALRR+L+SSL GAA T+V+IDG Sbjct: 3 EIEKP--IIECIEANENGTYGKYVIEPLERGYGITLGNALRRILLSSLPGAAPTSVKIDG 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 GVLGTMGLFLGMN 320 L +GL L +N Sbjct: 301 RKLKELGLGLRLN 313 >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 = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 145/314 (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 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKV 183 VLNPD I + A M LT +KG GYV A ++ 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|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 = 342 bits (878), Expect = 4e-92, 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|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 = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 147/334 (44%), Positives = 222/334 (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 SVPEKKE---EKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >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 = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 216/334 (64%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 127/310 (40%), Positives = 204/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE V E+ + + EPL RG+ TLGNALRR+L+SSL G A ++ID Sbjct: 3 EIEKP-KIE-CVENAEDGSYGKFVIEPLERGYGITLGNALRRILLSSLPGVAADHIKIDS 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|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 = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 151/337 (44%), Positives = 224/337 (66%), Gaps = 3/337 (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 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 EI+ VL M L GM++ D+ + E L +K +++ Sbjct: 310 DEIRRVLDGMALKFGMSVEDFDKKYQEWLKRKEKNEA 346 >gi|313808805|gb|EFS47259.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL087PA2] Length = 338 Score = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 121/320 (37%), Positives = 184/320 (57%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV HE S+I+G Sbjct: 10 TEESISEFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQHEFSTIEGC 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+IILN+KG+ L D + + K G G VTA DI + + NP+ I L+ Sbjct: 70 VEDVTEIILNLKGLVLSSEEDEPVAMYLRKSGAGEVTAADITPPAGVTIHNPELHIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ R Q D+ Sbjct: 130 DDGRFEMELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T SI D++A A + L + G+ + ++ + +L Sbjct: 190 DKLVVDVETKPSILPRDAIASAGKTLVELFGLTRELNAEAEGIEIGSGPVDEEYAESLGT 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L +GL L Sbjct: 250 PVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEKLTELGLALK 309 Query: 319 MNLPDWPPESIEELAKKYED 338 + P + P + E + D Sbjct: 310 DSAPGFDPLAAAEAYDEAND 329 >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 = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 130/310 (41%), Positives = 194/310 (62%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E +N + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKNYGKFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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|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 = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 133/313 (42%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIDG 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|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 = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 121/310 (39%), Positives = 188/310 (60%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV Sbjct: 25 EESINETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTIPGVK 84 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+ ++++NIK + + D + + K+GPG VTAGDIQ + V NPD + L+ Sbjct: 85 EDVVELVMNIKELCVSSEHDEPVSMYLRKQGPGDVTAGDIQPPAGVSVHNPDLKLATLNG 144 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + MELTV +G GYV A ++ IG I +D++YSP+ +V+Y VE+ R Q D+D Sbjct: 145 KGRLDMELTVERGRGYVTAAQNKQAGAEIGRIPVDSIYSPVLRVTYRVEATRVEQRTDFD 204 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 +L + +++ S+ ++A A L + G+ +E + + + + L Sbjct: 205 RLIIDVESKPSMGPRTALASAGSTLVELFGLARELDETAEGIDIGPSPQDAQLAADLALP 264 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +EEL+L+VRS NCL+ E I +G+LI RTEAD+L + NFG+KS+ E+K L MGL L Sbjct: 265 IEELDLTVRSYNCLKREGINTVGELIGRTEADLLDIRNFGQKSIDEVKMKLAGMGLGLKD 324 Query: 320 NLPDWPPESI 329 + P++ P ++ Sbjct: 325 SAPNFDPANV 334 >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 = 342 bits (877), Expect = 4e-92, Method: Composition-based stats. Identities = 155/336 (46%), Positives = 214/336 (63%), Gaps = 4/336 (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 KSLVEIKGVLGTMGLFLGMNLPDW-PPESIEELAKK 335 KSL EIK +L L LGM W PE EE ++ Sbjct: 311 KSLNEIKALLAEHNLTLGMKYEGWVAPEKREEKLEE 346 >gi|332077536|gb|EGI87997.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae GA41301] Length = 311 Score = 342 bits (877), Expect = 5e-92, Method: Composition-based stats. Identities = 132/313 (42%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIDG 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|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 = 342 bits (877), Expect = 5e-92, Method: Composition-based stats. Identities = 152/331 (45%), Positives = 207/331 (62%), Gaps = 10/331 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + N L+KP I+ + + ++ EP RG+ HTLGNALRRVL+SS+ G A+T Sbjct: 1 MSNN--NLLKPRIIDVQ---RSSATQARVVMEPFERGYGHTLGNALRRVLLSSMPGYAVT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN--DPIGLITIDALYSP 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++ + +P LL+ V++LEL+ RS+NCL+ ++I Y+GDLIQ TEAD+LR N G Sbjct: 236 PVEKPQ---TPKVDPMLLRPVDDLELTPRSSNCLKAQSIHYIGDLIQNTEADLLRTPNLG 292 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 RKSL EIK VL GL LGM L +W S + Sbjct: 293 RKSLNEIKQVLAEHGLSLGMKLENWTAMSEK 323 >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 = 342 bits (877), Expect = 5e-92, Method: Composition-based stats. Identities = 133/313 (42%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIDG 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|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 = 342 bits (877), Expect = 5e-92, Method: Composition-based stats. Identities = 123/312 (39%), Positives = 179/312 (57%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ GV Sbjct: 10 TEESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTTLPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+I+LNIKGI L D + + K G G TAGDI + + NPD I L Sbjct: 70 EEDVTEILLNIKGIVLTSEYDEPVVMYLRKNGKGEATAGDITPPAGVTIANPDLHIATLA 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + +E TV +G GYVPA+ ++ EN IG I +D++YSP+ KVSY VE+ R Q D+ Sbjct: 130 EDGELEIEFTVERGRGYVPAQMNKQENSEIGRIPVDSIYSPVLKVSYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T +IT D+VA A L + G+ + V+ + L Sbjct: 190 DKLILDVETKPAITPRDAVASAGSTLVELFGLCRELNVDAEGVEVGPAPTHDEADSQLAI 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E++ + RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L TMGL L Sbjct: 250 PIEDMNFTQRSYNCLKREGIHTVGELVVHTEQDLLDIRNFGMKSIDEVKEKLQTMGLSLK 309 Query: 319 MNLPDWPPESIE 330 + + ++E Sbjct: 310 ASPIGFDANNLE 321 >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 = 342 bits (877), Expect = 5e-92, Method: Composition-based stats. Identities = 122/312 (39%), Positives = 178/312 (57%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ GV Sbjct: 10 TEESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTTLPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+I+LNIKGI L D + + K G G TAGDI + + NPD I L Sbjct: 70 EEDVTEILLNIKGIVLTSEYDEPVVMYLRKNGKGEATAGDITPPAGVTIANPDLHIATLA 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + +E TV +G GYVPA+ ++ EN IG I +D++YSP+ KVSY VE+ R Q D+ Sbjct: 130 EDGELEIEFTVERGRGYVPAQMNKQENSEIGRIPVDSIYSPVLKVSYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T +IT D+VA A L + G+ + V+ + L Sbjct: 190 DKLILDVETKPAITPRDAVASAGSTLVELFGLCRELNVDAEGVEVGPAPTHDEADSQLAI 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E++ + RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L MGL L Sbjct: 250 PIEDMNFTQRSYNCLKREGIHTVGELVVHTEQDLLDIRNFGMKSIDEVKEKLQAMGLSLK 309 Query: 319 MNLPDWPPESIE 330 + + ++E Sbjct: 310 ASPIGFDANNLE 321 >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 = 342 bits (877), Expect = 5e-92, Method: Composition-based stats. Identities = 121/302 (40%), Positives = 179/302 (59%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 Q R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ GV Sbjct: 10 TEEQINPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTALPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ +I+LNIK + L D + + K G G TA DI + V NPD I L Sbjct: 70 KEDVAEILLNIKELVLTSEYDEPVVMYLRKSGEGEATAADITPPAGVVVANPDLHIATLA 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + +E TV +G GYVPA+ ++ E D IG I +D++YSP+ KVSY V+ R Q D+ Sbjct: 130 EDGELEIEFTVERGRGYVPAQMNKQEGDEIGRIPVDSIYSPVLKVSYKVDPTRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL++ ++T SI+ D+VA A L + G+F + V+ +P + Sbjct: 190 DKLTVDVETKPSISPRDAVASAGSTLVELFGLFHELNNQAEGVEVGPAPVVEEVDPQMEI 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L L+ RS NCL+ E I +G+L++R+E D+L + NFG+KS+ E+K L +MGL L Sbjct: 250 PIEDLNLTQRSYNCLKREGIHTIGELVKRSEQDLLDIRNFGQKSIDEVKEKLDSMGLSLK 309 Query: 319 MN 320 + Sbjct: 310 QS 311 >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 = 342 bits (877), Expect = 5e-92, Method: Composition-based stats. Identities = 122/312 (39%), Positives = 180/312 (57%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ GV Sbjct: 10 TEESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTTLPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+I+LNIKGI L D + + K G G TAGDI + + NP+ I L Sbjct: 70 EEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIANPEMHIATLA 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + +E TV +G GYVPA+ ++ EN IG I +D++YSP+ KVSY VE+ R Q D+ Sbjct: 130 EDGELEIEFTVERGRGYVPAQMNKQENSEIGRIPVDSIYSPVLKVSYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T +IT D+VA A L + G+ + V+ + + Sbjct: 190 DKLILDVETKPAITPRDAVASAGSTLVELFGLCRELNVDAEGVEVGPAPVMGEVDSQMAT 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K L +MGL L Sbjct: 250 PIEDLNLTQRSYNCLKREGIHTVGELVVHTEQDLLDIRNFGMKSIDEVKEKLQSMGLSLK 309 Query: 319 MNLPDWPPESIE 330 + + ++E Sbjct: 310 ASPLGFDANNLE 321 >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 = 342 bits (877), Expect = 6e-92, Method: Composition-based stats. Identities = 143/326 (43%), Positives = 218/326 (66%), Gaps = 9/326 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++++P + L NR ++ EPL RG+ HTLGNALRRVL+SS+ G AIT V+ID Sbjct: 6 NQVLRPRGPQIERLN---GNRAKIVIEPLERGYGHTLGNALRRVLLSSIPGFAITEVEID 62 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE ++++G+ ED+ +++LN+K + ++M +++ K+GPGVVTAGDI+T + +E Sbjct: 63 GVLHEYTTVEGLQEDVLEVLLNLKDVAIRMHTGESATLSLAKQGPGVVTAGDIKTDHSVE 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKV 183 +LNP+HVIC+L D + M L + +G GY PA R ++ G + +DA +SP+++V Sbjct: 123 ILNPEHVICHLTKDTALNMRLKIERGFGYQPATSRRRPDEETRAIGRLMLDASFSPVRRV 182 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+VE+AR Q D DKL + I+T+G+I E++V A+ IL DQL +F +F + + Sbjct: 183 AYSVEAARVEQRTDLDKLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAK 242 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 +P LL+ +++LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KSL Sbjct: 243 PAQAG---VDPVLLRPIDDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSL 299 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESI 329 EIK VL GL LGM L +WPP + Sbjct: 300 TEIKEVLAQRGLSLGMKLENWPPAGV 325 >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 = 342 bits (877), Expect = 6e-92, Method: Composition-based stats. Identities = 121/320 (37%), Positives = 184/320 (57%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV HE S+I+G Sbjct: 10 TEESISEFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQHEFSTIEGC 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+IILN+KG+ L D + + K G G VTA DI + + NP+ I L+ Sbjct: 70 VEDVTEIILNLKGLVLSSEEDEPVAMYLRKSGAGEVTAADINPPAGVTIHNPELHIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ R Q D+ Sbjct: 130 DDGRFEMELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T SI D++A A + L + G+ + ++ + +L Sbjct: 190 DKLVVDVETKPSILPRDAIASAGKTLVELFGLTRELNAEAEGIEIGSGPVDEEYAESLGT 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L +GL L Sbjct: 250 PVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEKLTELGLALK 309 Query: 319 MNLPDWPPESIEELAKKYED 338 + P + P + E + D Sbjct: 310 DSAPGFDPLAAAEAYDEAND 329 >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 = 342 bits (877), Expect = 6e-92, 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|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 = 342 bits (877), Expect = 6e-92, Method: Composition-based stats. Identities = 132/313 (42%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIDG 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|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 = 341 bits (876), Expect = 6e-92, 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 VNDFLTPRSI---AVNAINQTHAKVVLEPLERGFGHTLGTALRRILISSMPGCAITEVEI 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 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKK 182 E++NPDH+IC + D +R++L V KG GYV A ++E+D G + +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 VAYVVEAARVEQRTDLDKLVIDLETDGTIDPEEAIRRAATILQQQIAVFVDLEQDAKP-- 238 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G+KS Sbjct: 239 -EPKQEREEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLGKKS 297 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 L EIK VL + GL LGM L +WPP S+ + + Sbjct: 298 LTEIKDVLASKGLSLGMRLENWPPVSLRDDDR 329 >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 = 341 bits (876), Expect = 6e-92, Method: Composition-based stats. Identities = 152/331 (45%), Positives = 214/331 (64%), Gaps = 4/331 (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 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK-KEV 241 V AR GQ DYDKL + I TDGSI ED++A ++IL++QL +FINF+E + V Sbjct: 210 VKVITSQARVGQQTDYDKLILEITTDGSIRPEDALAYGAKILKEQLQVFINFDEERVVPV 269 Query: 242 KEDINVKSLPF-NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 K D P N L + VE+LELSVRS NCLR I ++G+L+Q++EA+ML+ NFGR Sbjct: 270 KSDSEPGEKPKLNENLYRSVEDLELSVRSANCLRNAEINHIGELVQKSEAEMLKTKNFGR 329 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 KSL EIK +L M L+LGM + W P E Sbjct: 330 KSLNEIKQLLAEMDLYLGMKIDGWEPPPAAE 360 >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 = 341 bits (876), Expect = 6e-92, 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 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK-EVKE 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|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 = 341 bits (876), Expect = 6e-92, Method: Composition-based stats. Identities = 141/328 (42%), Positives = 217/328 (66%), Gaps = 9/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++++P + L +NR ++ EPL RG+ HTLGNALRRVL+SS+ G AIT V+ID Sbjct: 6 NQVLRPRGPQIERL---TDNRAKVVIEPLERGYGHTLGNALRRVLLSSIPGFAITEVEID 62 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE ++++G+ ED+ D++LN+K + ++M +++ K+GPG VTA DI+T +++E Sbjct: 63 GVLHEYTTVEGLQEDVLDVLLNLKDVAIRMHSGDSATLSLSKQGPGTVTAADIRTDHNVE 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKV 183 ++N DHVIC+L D + M L + +G GY PA R ++ G + +DA +SP+++V Sbjct: 123 IINGDHVICHLTKDTALNMRLKIERGFGYQPAAARRRPDEETRTIGRLMLDASFSPVRRV 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 +P LL+ +++LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KSL Sbjct: 243 PAASG---VDPVLLRPIDDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSL 299 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL GL LGM L +WPP + + Sbjct: 300 TEIKEVLAQRGLALGMKLENWPPAGVAQ 327 >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 = 341 bits (876), Expect = 6e-92, Method: Composition-based stats. Identities = 148/332 (44%), Positives = 209/332 (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--GLFKPRIIDVQSLSPV---HARVVMEPFERGYGHTLGNALRRILLSSMPGYAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN--DPIGLITIDALYSP 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|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 = 341 bits (876), Expect = 6e-92, Method: Composition-based stats. Identities = 121/329 (36%), Positives = 193/329 (58%), Gaps = 4/329 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V + R+ I EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVLH Sbjct: 6 RPTLNEEVV----SDYRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+T+ ILN+K + + D + K+GPG VTA DI +EV NP Sbjct: 62 EFSTVPGVKEDVTEFILNLKSLVVSSEFDEPVVAYLRKQGPGEVTAADISAPGGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I +L+ + + +ELT+ +G GYV A ++ + IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLHIASLNDEGQLDIELTIERGRGYVSAAQNKNADAEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T SI D+VA A + L + G+ + + + Sbjct: 182 RVEQRTDFDRLIIDVETKPSILPRDAVASAGKTLVELFGLARELNVEAEGIDIGPSPVDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +E+L+L+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L Sbjct: 242 ALAADLALAIEDLDLTVRSYNCLKREGIHTVGELVARSEADLMDIRNFGSKSIDEVKQKL 301 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYEDK 339 + L L + + +++ ED+ Sbjct: 302 NELNLSLKDSPNGFGEANLDSDESFVEDE 330 >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 = 341 bits (876), Expect = 7e-92, Method: Composition-based stats. Identities = 149/334 (44%), Positives = 217/334 (64%), 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >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 = 341 bits (876), Expect = 7e-92, Method: Composition-based stats. Identities = 130/313 (41%), Positives = 195/313 (62%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKDYGKFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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|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 = 341 bits (876), Expect = 7e-92, Method: Composition-based stats. Identities = 142/328 (43%), Positives = 216/328 (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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKV 183 +LN DHVIC+L D V M L + +G GY PA R ++ G + +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 PAN---NGVDPVLLRPIDDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSL 299 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL GL LGM L +WPP + Sbjct: 300 TEIKEVLAQRGLSLGMKLENWPPAGVAS 327 >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 = 341 bits (876), Expect = 7e-92, Method: Composition-based stats. Identities = 141/328 (42%), Positives = 216/328 (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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKV 183 +LN DHVIC+L D + M L + +G GY PA R ++ G + +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 PAN---NGVDPVLLRPIDDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSL 299 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL GL LGM L +WPP + Sbjct: 300 TEIKEVLAQRGLSLGMKLENWPPAGVAS 327 >gi|327332743|gb|EGE74477.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL097PA1] Length = 338 Score = 341 bits (876), Expect = 7e-92, Method: Composition-based stats. Identities = 119/308 (38%), Positives = 180/308 (58%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV HE S+I+G Sbjct: 10 TEESISEFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQHEFSTIEGC 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+IILN+KG+ L D + + K G G VTA DI + + NP+ I L+ Sbjct: 70 VEDVTEIILNLKGLVLSSEEDEPVAMYLRKTGAGEVTAADINPPAGVTIHNPELHIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ R Q D+ Sbjct: 130 DDGRFEMELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T SI D++A A + L + G+ + ++ + +L Sbjct: 190 DKLVVDVETKPSILPRDAIASAGKTLVELFGLTRELNAEAEGIEIGSGPVDEEYAESLGT 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L +GL L Sbjct: 250 PVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEKLTELGLALK 309 Query: 319 MNLPDWPP 326 + P + P Sbjct: 310 DSAPGFDP 317 >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 = 341 bits (876), Expect = 7e-92, Method: Composition-based stats. Identities = 126/319 (39%), Positives = 195/319 (61%), Gaps = 4/319 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLTEDVV----DEYRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSLRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +S+ GV ED+T+I+LN+K + + D + + K+GPG VTA DI +EV NP Sbjct: 62 EFTSVPGVKEDVTEIVLNVKNLVVSSEHDEPVVMYLRKQGPGAVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ + +ELTV +G GYV A ++T IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLHIATLNAKGKLELELTVERGRGYVSAAQNKTGEQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T +I+ D+VA A + L + G+ + + + Sbjct: 182 RVEQRTDFDRLVVDVETKHAISPRDAVASAGKTLTELFGLARELNVEAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L ++E L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K L Sbjct: 242 ALAADLALEIEALDLTVRSYNCLKREGIHSVGELVSRSEADLLDIRNFGQKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPPESI 329 MGL L + P + P ++ Sbjct: 302 VGMGLHLKDSPPGFDPSAV 320 >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 = 341 bits (876), Expect = 7e-92, Method: Composition-based stats. Identities = 119/307 (38%), Positives = 184/307 (59%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S++ GV Sbjct: 10 TEESISEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFSTVPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+IILNIKG+ + D + K+G G VTA DI +E+ NP+ VI L+ Sbjct: 70 KEDVTEIILNIKGLVVSSEHDEPITAYLRKQGAGQVTAADISAPAGVEIHNPELVIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 A +ELT+ +G GYV A +R+E G I +D++YSP+ KV+Y VE+ R G+ D+ Sbjct: 130 EKAKFELELTIERGRGYVSATQNRSEFSEAGQIPVDSIYSPVLKVTYRVEATRAGERTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 D+L + ++T +IT D++A A R L + G+ + ++ + L Sbjct: 190 DRLVVDVETKSAITPRDAIASAGRTLTELFGLARELNSAAEGIEIGPAPVDAVLSSELSM 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L+LSVRS NCL+ E I + +L+ +E ++ + NFG+KS+ E+K L +GL L Sbjct: 250 PIEDLDLSVRSYNCLKREGIHNVSELVALSETQLMNIRNFGQKSVDEVKDKLVELGLSLK 309 Query: 319 MNLPDWP 325 +P + Sbjct: 310 DAVPGFD 316 >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 = 341 bits (876), Expect = 7e-92, 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|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 = 341 bits (876), Expect = 7e-92, Method: Composition-based stats. Identities = 135/316 (42%), Positives = 203/316 (64%), Gaps = 5/316 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ +P IE L + +AEPL RGF TLGN+LRRVL+SSL G A+T+V+IDG Sbjct: 17 EIERP-KIETASLS-PDGRYGRFVAEPLERGFGITLGNSLRRVLLSSLPGVAVTSVKIDG 74 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE S+I+GV ED+T+I+LN+KGI K+ D K V + GP VTA +I+ +DIE+ Sbjct: 75 VVHEFSTIEGVKEDVTEIVLNLKGIAAKLYTDGPKTVRVEAVGPCEVTADNIKQGDDIEI 134 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVS 184 LNP+ I L + MELT KG GYVPA+ ++ E + I + +D++Y+P+ KV+ Sbjct: 135 LNPEWHIATLGEGGKLVMELTFDKGRGYVPAERNKQAIVEKNDINTLPVDSIYTPVLKVN 194 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VES R GQ +DYDKL++ + TDG+I +++V+LA+R+L + L +F+N + + Sbjct: 195 YNVESTRVGQAIDYDKLTIEVWTDGTINAQEAVSLAARVLTEHLNLFVNLSDEAAGTEIM 254 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + AL +EEL+LSVRS NCL+ I + DL+ ++E +M+++ N GRKSL Sbjct: 255 VEKTNDDKEKALEMTIEELDLSVRSFNCLKRAGINTVEDLVSKSEDEMMKVRNLGRKSLE 314 Query: 305 EIKGVLGTMGLFLGMN 320 E+ L ++G L + Sbjct: 315 EVMAKLDSLGFKLNTD 330 >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 = 341 bits (876), Expect = 7e-92, Method: Composition-based stats. Identities = 147/338 (43%), Positives = 215/338 (63%), Gaps = 12/338 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + N + P +E + ++ EP GF +TLGNALRRVL+SS+ G A T Sbjct: 1 MSSN--SFLTPRIVEVHNISPL---HAKVVMEPFEHGFGYTLGNALRRVLLSSIPGCAPT 55 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQ 120 V I GV+HE S+I G+ ED+ D+ILN+KG+ LK+ + + +T+ K G+VTAGDI+ Sbjct: 56 KVSISGVVHEYSTIDGLQEDVVDLILNLKGVVLKLHNNKTQSVLTLKKSSEGIVTAGDIE 115 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN---DPIGLITIDALY 177 +D+E++NPDHVI ++ + ++TV KG GY P+ + E+ IG I +DA + Sbjct: 116 ATHDVEIVNPDHVIAHITSGGKIEAQITVEKGRGYWPSANRSKEDKSSSSIGDILLDASF 175 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SPI++VSY VESAR Q D DKL + I+T+GS+ E+++ A+++L +Q F + E Sbjct: 176 SPIRRVSYAVESARVEQRTDLDKLIIDIETNGSVDPEEAIRYAAKVLVEQFSFFADLEST 235 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ K+ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTEA++LR N Sbjct: 236 PLPTEQP---KAPVIDPILLRPVDDLELTVRSANCLKVENIFYIGDLIQRTEAELLRTPN 292 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 GRKSL EIK VL + L LGM L +WPP ++E K+ Sbjct: 293 LGRKSLNEIKEVLASRDLSLGMKLENWPPANLENYIKE 330 >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 = 341 bits (876), Expect = 8e-92, Method: Composition-based stats. Identities = 129/313 (41%), Positives = 198/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++ DG Sbjct: 3 EFEKPT----ITKIDENKDYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKFDG 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|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 = 341 bits (875), Expect = 8e-92, 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|323126337|gb|ADX23634.1| DNA-directed RNA polymerase subunit alpha [Streptococcus dysgalactiae subsp. equisimilis ATCC 12394] Length = 312 Score = 341 bits (875), Expect = 8e-92, 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|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 = 341 bits (875), Expect = 8e-92, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 221/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + R+ ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IDAINPTRSKVVLEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALY 177 D+ + NPDHVICNL ++ + M + V +G GYVPA + +D 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 TEPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEQIQYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASLAE 328 >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 = 341 bits (875), Expect = 9e-92, Method: Composition-based stats. Identities = 133/319 (41%), Positives = 204/319 (63%), Gaps = 5/319 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ +P IE L + + EPL RGF TLGN+LRRVL+SSL G A+T+V+IDG Sbjct: 3 EIERP-KIETASLS-PDGRYGKFVVEPLERGFGTTLGNSLRRVLLSSLPGVAVTSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE S+I+GV ED+T+I+LN+KGI K+ G+S K V + GP + AG I+ +D+E+ Sbjct: 61 VVHEFSTIEGVREDVTEIVLNLKGIAAKIYGESPKTVRVEAVGPCELIAGSIKGGDDLEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYSPIKKVS 184 LNP+ I L A + MELT KG GYVPA+ ++ E + I + +D++Y+P+ K + Sbjct: 121 LNPEWHIATLGEGAKLVMELTFDKGRGYVPAERNKLALIEKNDISTLPVDSIYTPVLKAN 180 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 YTV+ R GQ+ DYDKL + + TDG+ +++++LA+R+L + L +F+N + E + Sbjct: 181 YTVDHTRVGQITDYDKLIIEVWTDGTCNAQEALSLAARVLTEHLNLFVNLCDETGETEIM 240 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 ++ AL +EEL+LSVRS NCL+ I +GDLI ++E +M+++ N GRKSL Sbjct: 241 VDNDDQGREKALEMTIEELDLSVRSFNCLKRAGINTVGDLINKSEDEMMKVRNLGRKSLE 300 Query: 305 EIKGVLGTMGLFLGMNLPD 323 E+ L ++G L + + Sbjct: 301 EVMAKLDSLGFSLTKDDEN 319 >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 = 341 bits (875), Expect = 9e-92, Method: Composition-based stats. Identities = 131/313 (41%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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|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 = 341 bits (875), Expect = 9e-92, Method: Composition-based stats. Identities = 147/331 (44%), Positives = 213/331 (64%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E ++P + + R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLRPRLVGIETVS---PRRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QR E ++L+ N Sbjct: 238 ---EVEQVEEKPLFDPILLRPVDDLELTVRSANCLKAEAIQYIGDLVQRAEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPPESI Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPESI 325 >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 = 341 bits (875), Expect = 9e-92, 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--DFLKPRIIEVQKIS---ETQAKVVMEPFERGFGHTLGNALRRILLSSMAGAAPT 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI--GLITIDALYSP 179 ++EVLNP+HVI +L + M++ V +G GYV A + N+ 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|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 = 341 bits (875), Expect = 1e-91, Method: Composition-based stats. Identities = 128/316 (40%), Positives = 193/316 (61%), Gaps = 4/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNVDAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPP 326 MGL L + P + P Sbjct: 302 AGMGLALKDSPPGFDP 317 >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 = 341 bits (874), Expect = 1e-91, Method: Composition-based stats. Identities = 131/313 (41%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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|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 = 341 bits (874), 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 I + E+ + EPL RG+ TLGNALRR+L+SSL G A ++V+IDG Sbjct: 3 EIEKP--IIECIEASEDGTYGKYVVEPLERGYGITLGNALRRILLSSLPGVATSSVKIDG 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|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 = 341 bits (874), Expect = 1e-91, Method: Composition-based stats. Identities = 126/316 (39%), Positives = 193/316 (61%), Gaps = 4/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 5 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 60 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 61 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 120 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 DLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEAT 180 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 181 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNIGAEGIDMGPSPTDA 240 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EELEL+VRS NCL+ E + +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 241 ALAADLALPIEELELTVRSYNCLKREGVHSVGELLARSEADLLDIRNFGAKSIDEVKAKL 300 Query: 311 GTMGLFLGMNLPDWPP 326 +GL L + P + P Sbjct: 301 AGLGLALKDSPPGFAP 316 >gi|332037268|gb|EGI73723.1| DNA-directed RNA polymerase alpha subunit [Pseudoalteromonas haloplanktis ANT/505] Length = 328 Score = 341 bits (874), Expect = 1e-91, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 221/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + R+ ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IDAINPTRSKIVLEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALY 177 D+ + NPDHVICNL ++ + M + V +G GYVPA + +D 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 TEPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEQIQYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASLAE 328 >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 = 341 bits (874), Expect = 1e-91, Method: Composition-based stats. Identities = 129/315 (40%), Positives = 202/315 (64%), Gaps = 4/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP I+ VL + + EPL RGF TLGN+LRRVL+SSL G A+T+++IDG Sbjct: 3 EIEKPR-IDTEVLS-ADGTYGKFVVEPLERGFGTTLGNSLRRVLLSSLPGVAVTSIKIDG 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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 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 IKGVLGTMGLFLGMN 320 + L ++G L + Sbjct: 301 VVYKLNSLGFSLRKD 315 >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 = 341 bits (874), Expect = 1e-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----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|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 = 341 bits (874), Expect = 1e-91, Method: Composition-based stats. Identities = 146/337 (43%), Positives = 219/337 (64%), Gaps = 11/337 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + N + P IE L R ++ EP RGF +TLGNALRRVL+SS+ G A T Sbjct: 1 MSSN--SFLTPRIIEVHNLSPL---RAKVVMEPFERGFGYTLGNALRRVLLSSIPGCAPT 55 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 + I GV+HE S+I G+ ED+ D+ILN+KG+ LK+ + +++ K G+VTAGDI++ Sbjct: 56 KISISGVVHEYSTIDGLQEDIVDLILNLKGVVLKLHSKNSTVLSLKKDTEGIVTAGDIES 115 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN---DPIGLITIDALYS 178 +D+E++NP+HVI ++ + ++TV KG GY+P+ + E+ IG I +DA +S Sbjct: 116 SHDVEIVNPEHVIAHITSGGRIEAQITVEKGRGYLPSVNRSREDKSLSSIGDILLDASFS 175 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++VSYT+E+AR Q D DKL + I+T+GS+ E+++ A+R+L +Q F + E Sbjct: 176 PVRRVSYTIENARVEQRTDLDKLIIDIETNGSVDPEEAIRYAARVLVEQFSFFADLESTL 235 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 ++ ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTEA++LR N Sbjct: 236 LPTEQP---RAPAIDPILLRPVDDLELTVRSANCLKVENIFYIGDLIQRTEAELLRTPNL 292 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 GRKSL EIK VL + L LGM L +WPP ++E K+ Sbjct: 293 GRKSLNEIKEVLASRDLSLGMKLENWPPANLENYVKE 329 >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 = 341 bits (874), Expect = 1e-91, Method: Composition-based stats. Identities = 121/320 (37%), Positives = 196/320 (61%), Gaps = 4/320 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E ++ E+R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLTEEVI----SESRSRFSIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+T+IILN+K + + D + + K+G GVVTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTEIILNVKNLVVSSENDEPVVMYLRKQGSGVVTAADIVPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ + +ELTV +G GYV A+ +++ + IG + +D++YSP+ KV+Y VE+ Sbjct: 122 DLHIATLNDKGKLEIELTVERGRGYVSAQQNKSFDAEIGRVPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T +I+ D++A A + L + G+ + ++ + Sbjct: 182 RVEQRTDFDKLIVDVETKQAISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +E+L+L++RS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEDLQLTIRSYNCLKREGIHAVGELVARSEADLLDIRNFGAKSINEVKDKL 301 Query: 311 GTMGLFLGMNLPDWPPESIE 330 +GL L + D+ P + + Sbjct: 302 AELGLSLKDSPLDFDPTTAD 321 >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 = 341 bits (874), Expect = 1e-91, Method: Composition-based stats. Identities = 153/306 (50%), 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 LTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 L V++G GY PA E IG + +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 DLETNGTIDPEEAIRRAATILQQQLAVFVDFDHEKEPE---RVEEEEEIDPILLRPVDDL 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|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 = 340 bits (873), Expect = 1e-91, 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|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 = 340 bits (873), Expect = 1e-91, Method: Composition-based stats. Identities = 120/320 (37%), Positives = 184/320 (57%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV HE S+I+G Sbjct: 10 TEESISEFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQHEFSTIEGC 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+IILN+KG+ L D + + K G G +TA DI + + NP+ I L+ Sbjct: 70 VEDVTEIILNLKGLVLSSEEDEPVAMYLRKTGAGEITAADINPPAGVTIHNPELHIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ R Q D+ Sbjct: 130 DDGRFEMELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T SI D++A A + L + G+ + ++ + +L Sbjct: 190 DKLVVDVETKPSILPRDAIASAGKTLVELFGLTRELNVEAEGIEIGSGPVDEEYAESLGT 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L +GL L Sbjct: 250 PVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEKLTELGLALK 309 Query: 319 MNLPDWPPESIEELAKKYED 338 + P + P + E + D Sbjct: 310 DSAPGFDPLAAAEAYDEAND 329 >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 = 340 bits (873), Expect = 1e-91, Method: Composition-based stats. Identities = 122/317 (38%), Positives = 191/317 (60%), Gaps = 4/317 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E ++ E+R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLTEEVI----SEHRSRFSIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S+I GV ED+T+IILNIK + + D + + K+G G VT DI +EV NP Sbjct: 62 EFSTIPGVKEDVTEIILNIKNLVVSSENDEPVVMYLRKQGAGEVTGADIVPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 + + L+ + +ELTV +G GYV A +++ + IG I ID++YSP+ KV+Y VE+ Sbjct: 122 ELHLATLNEKGKLEIELTVERGRGYVSANQNKSFDAEIGRIPIDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + +++ +I+ D++A A R L + G+ + ++ + Sbjct: 182 RVEQRTDFDKLIVDVESKPAISPRDALASAGRTLVELFGLARELNVEAEGIEIGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +E+L+L++RS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEDLQLTIRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSITEVKEKL 301 Query: 311 GTMGLFLGMNLPDWPPE 327 +GL L + D+ P Sbjct: 302 AELGLTLKDSPLDFDPS 318 >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 = 340 bits (873), Expect = 1e-91, Method: Composition-based stats. Identities = 120/329 (36%), Positives = 192/329 (58%), Gaps = 9/329 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V NR+ EPL GF +T+GN+LRR L+SS+ GAA+T+V+IDGVLH Sbjct: 6 RPTLTEEVV----APNRSRFTIEPLEPGFGYTMGNSLRRTLLSSIPGAAVTSVRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+T+IILNIK +++ D + K+G G +TAGDI+ +E+ NP Sbjct: 62 EFSTVPGVTEDVTEIILNIKKLSISSENDEPVVAYLRKQGEGELTAGDIEVPAGVEIHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 + + L+ A EL + +G GYV A ++ + IG I +D++YSP+ KV+++V + Sbjct: 122 ELHLATLNASANFNAELVIERGRGYVTAAQNKAGDSEIGRIPVDSIYSPVLKVTFSVNAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D L++ ++T +I D+VA A L + G+ + ++ + Sbjct: 182 RVEQRTDFDSLTLDVETKEAIAPRDAVASAGSTLVELFGLARELNIAAEGIEVGPSPADE 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +E+L +SVRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L Sbjct: 242 SMAADLALPIEDLNMSVRSYNCLKREGIHTVGELVTRSEADLMDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYEDK 339 +GL L + P + P A+ +D+ Sbjct: 302 TELGLSLKDSPPGFEPA-----ARPLDDE 325 >gi|315109197|gb|EFT81173.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL030PA2] Length = 338 Score = 340 bits (873), Expect = 1e-91, Method: Composition-based stats. Identities = 120/320 (37%), Positives = 184/320 (57%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV HE S+I+G Sbjct: 10 TEESISEFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQHEFSTIEGC 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+IILN+KG+ L D + + K G G +TA DI + + NP+ I L+ Sbjct: 70 VEDVTEIILNLKGLVLSSEEDEPVAMYLRKTGAGEITAADINPPAGVTIHNPELHIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ R Q D+ Sbjct: 130 DDGRFEMELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T SI D++A A + L + G+ + ++ + +L Sbjct: 190 DKLVVDVETKPSILPRDAIASAGKTLVELFGLTRELNVEAEGIEIGSGPVDEEYAESLGT 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L +GL L Sbjct: 250 PVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEKLTELGLALK 309 Query: 319 MNLPDWPPESIEELAKKYED 338 + P + P + E + D Sbjct: 310 DSAPGFDPLAAAEAYDEAND 329 >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 (873), Expect = 1e-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|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 = 340 bits (873), Expect = 1e-91, Method: Composition-based stats. Identities = 126/316 (39%), Positives = 194/316 (61%), Gaps = 4/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNIDAEGIDMGPSPVDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L+ +EELEL+VRS NCL+ E + +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLVMPIEELELTVRSYNCLKREGVHSVGELVARSEADLLDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPP 326 MGL L + P + P Sbjct: 302 AGMGLGLKDSPPGFDP 317 >gi|289669368|ref|ZP_06490443.1| DNA-directed RNA polymerase subunit alpha [Xanthomonas campestris pv. musacearum NCPPB4381] Length = 332 Score = 340 bits (873), Expect = 1e-91, Method: Composition-based stats. Identities = 141/328 (42%), Positives = 217/328 (66%), Gaps = 9/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++++P + L +NR ++ EPL RG+ HTLGNALRRVL+SS+ G AIT V+ID Sbjct: 6 NQVLRPRGPQIERL---TDNRAKVVIEPLKRGYGHTLGNALRRVLLSSIPGFAITEVEID 62 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE ++++G+ ED+ D++LN+K + ++M +++ K+GPG VTA DI+T +++E Sbjct: 63 GVLHEYTTVEGLQEDVLDVLLNLKDVAIRMHSGDSATLSLSKQGPGTVTAADIRTDHNVE 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKV 183 ++N DHVIC+L D + M L + +G GY PA R ++ G + +DA +SP+++V Sbjct: 123 IINGDHVICHLTKDTALNMRLKIERGFGYQPAAARRRPDEETRTIGRLMLDASFSPVRRV 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 +P LL+ +++LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KSL Sbjct: 243 PAASG---VDPVLLRPIDDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSL 299 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL GL LGM L +WPP + + Sbjct: 300 TEIKEVLAQRGLALGMKLENWPPAGVAQ 327 >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 = 340 bits (873), Expect = 1e-91, Method: Composition-based stats. Identities = 121/310 (39%), Positives = 188/310 (60%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV Sbjct: 11 EESINETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTIPGVK 70 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+ ++++NIK + + D + + K+GPG VTAGDIQ + V NPD + L+ Sbjct: 71 EDVVELVMNIKELCVSSEHDEPVSMYLRKQGPGDVTAGDIQPPAGVSVHNPDLKLATLNG 130 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + MELTV +G GYV A ++ IG I +D++YSP+ +V+Y VE+ R Q D+D Sbjct: 131 KGRLDMELTVERGRGYVTAAQNKQAGAEIGRIPVDSIYSPVLRVTYRVEATRVEQRTDFD 190 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 +L + +++ S+ ++A A L + G+ +E + + + + L Sbjct: 191 RLIIDVESKPSMGPRTALASAGSTLVELFGLARELDETAEGIDIGPSPQDAQLAADLALP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +EEL+L+VRS NCL+ E I +G+LI RTEAD+L + NFG+KS+ E+K L MGL L Sbjct: 251 IEELDLTVRSYNCLKREGINSVGELIGRTEADLLDIRNFGQKSIDEVKMKLAGMGLGLKD 310 Query: 320 NLPDWPPESI 329 + P++ P ++ Sbjct: 311 SAPNFDPANV 320 >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 = 340 bits (873), Expect = 1e-91, 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|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 = 340 bits (873), Expect = 2e-91, Method: Composition-based stats. Identities = 128/316 (40%), Positives = 193/316 (61%), Gaps = 4/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVLH Sbjct: 6 RPSLTEEVV----DEYRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TDIILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDIILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNGKGKLEMELTVERGRGYVSAVQNKQLGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNIDAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPP 326 MGL L + P + P Sbjct: 302 AGMGLALKDSPPGFDP 317 >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 = 340 bits (873), Expect = 2e-91, Method: Composition-based stats. Identities = 128/316 (40%), Positives = 193/316 (61%), Gaps = 4/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPSLTEEVV----DEYRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNIDAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPP 326 MGL L + P + P Sbjct: 302 AGMGLALKDSPPGFDP 317 >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 = 340 bits (873), Expect = 2e-91, 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-KIECVARS-DDATYGKFVVEPLERGYGVTLGNSLRRILLTSLFGAAVTSVKIEG 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|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 = 340 bits (873), Expect = 2e-91, Method: Composition-based stats. Identities = 132/321 (41%), Positives = 207/321 (64%), Gaps = 7/321 (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 RKSLVEIKGVLGTMGLFLGMN 320 +KS E++ L ++G L + Sbjct: 295 KKSFEEVRAKLQSLGFDLASD 315 >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 = 340 bits (873), Expect = 2e-91, Method: Composition-based stats. Identities = 148/331 (44%), Positives = 214/331 (64%), Gaps = 9/331 (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 RRVTYEVDSARVEQRTDLDKLIIEIETNGTIASDEAVRKAATILQDQLTAFVELEGKTET 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 KE K+ +P LL+ +++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G+ Sbjct: 238 AKE---KKTAEIDPVLLQPIDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNLGK 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 KSL EIK VL + GL LGM L +WPP + E Sbjct: 295 KSLTEIKDVLASRGLSLGMRLENWPPAGLHE 325 >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 = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 129/311 (41%), Positives = 189/311 (60%), Gaps = 4/311 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + KP + + + EPL RG+ TLGNALRRVL+SS+ GAA+T V+I+GV Sbjct: 4 IEKPRV--SVDSLAPTGDYGRFVIEPLVRGYGITLGNALRRVLLSSIPGAAVTMVKIEGV 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 NPDHYIASLAPEGRLFMEMTVRRGRGYVPADRQR-HDHVIGAIPVDADFSPVKKVNYRVE 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 GVLGTMGLFLG 318 L +GL L Sbjct: 301 QKLAELGLSLK 311 >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 = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 221/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + R+ ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IDAINPTRSKIVLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 VNDIEVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALY 177 D+ + NPDHVICNL ++ + M + V +G GYVPA + +D 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 TEPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEQIQYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASLAE 328 >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 = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 135/316 (42%), Positives = 203/316 (64%), Gaps = 5/316 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ +P IE L + +AEPL RGF TLGN+LRRVL+SSL G A+T+V+IDG Sbjct: 17 EIERP-KIETASLS-PDGRYGKFVAEPLERGFGITLGNSLRRVLLSSLPGVAVTSVKIDG 74 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE S+I+GV ED+T+I+LN+KGI K+ D K V + GP VTA +I+ +DIE+ Sbjct: 75 VVHEFSTIEGVKEDVTEIVLNLKGIAAKLYTDGPKTVRVEAVGPCEVTADNIKQGDDIEI 134 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVS 184 LNP+ I L + MELT KG GYVPA+ ++ E + I + +D++Y+P+ KV+ Sbjct: 135 LNPEWHIATLGEGGKLVMELTFDKGRGYVPAERNKQAIIEKNDINTLPVDSIYTPVLKVN 194 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VES R GQ +DYDKL++ + TDG+I +++V+LA+R+L + L +F+N + + Sbjct: 195 YNVESTRVGQAIDYDKLTIEVWTDGTINAQEAVSLAARVLTEHLNLFVNLSDEAAGAEIM 254 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + AL +EEL+LSVRS NCL+ I + DL+ ++E +M+++ N GRKSL Sbjct: 255 VEKTNDDKEKALEMTIEELDLSVRSFNCLKRAGINTVEDLVSKSEDEMMKVRNLGRKSLE 314 Query: 305 EIKGVLGTMGLFLGMN 320 E+ L ++G L + Sbjct: 315 EVMAKLDSLGFKLNTD 330 >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 = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 128/316 (40%), Positives = 193/316 (61%), Gaps = 4/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNIDAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPP 326 MGL L + P + P Sbjct: 302 AGMGLALKDSPPGFDP 317 >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 = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 146/330 (44%), Positives = 218/330 (66%), Gaps = 10/330 (3%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I Sbjct: 1 MTEFLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEI 57 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI D+ Sbjct: 58 DGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDV 117 Query: 126 EVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIK 181 E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP++ Sbjct: 118 EIVKPQHVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACYSPVE 177 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ Sbjct: 178 RIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP- 236 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+K Sbjct: 237 --EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKK 294 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 SL EIK VL + GL LGM L +WPP SI + Sbjct: 295 SLTEIKDVLASRGLSLGMRLENWPPASIAD 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 = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 136/316 (43%), Positives = 204/316 (64%), Gaps = 5/316 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ +P IE L + +AEPL RGF TLGN+LRRVL+SSL G A+T+V+IDG Sbjct: 17 EIERP-KIETASLS-PDGRYGKFVAEPLERGFGITLGNSLRRVLLSSLPGVAVTSVKIDG 74 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE S+I+GV ED+T+I+LN+KGI K+ D K V + GP VTA +I+ +DIE+ Sbjct: 75 VVHEFSTIEGVKEDVTEIVLNLKGIAAKLYTDGPKTVRVEAVGPCEVTADNIKQGDDIEI 134 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVS 184 LNP+ I L A + MELT KG GYVPA+ ++ E + I + +D++Y+P+ KV+ Sbjct: 135 LNPEWHIATLGEGAKLVMELTFDKGRGYVPAERNKQAIIEKNDINTLPVDSIYTPVLKVN 194 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VES R GQ +DYDKL++ + TDG+I +++V+LA+R+L + L +F+N + + Sbjct: 195 YNVESTRVGQAIDYDKLTIEVWTDGTINAQEAVSLAARVLTEHLNLFVNLSDEAAGAEIM 254 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + AL +EEL+LSVRS NCL+ I + DL+ ++E +M+++ N GRKSL Sbjct: 255 VEKTNDDKEKALEMTIEELDLSVRSFNCLKRAGINTVEDLVSKSEDEMMKVRNLGRKSLE 314 Query: 305 EIKGVLGTMGLFLGMN 320 E+ L ++G L + Sbjct: 315 EVMAKLDSLGFKLNTD 330 >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 = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 119/307 (38%), Positives = 184/307 (59%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S++ GV Sbjct: 10 TEESISEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFSTVPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+IILNIKG+ + D + K+G G VTA DI +E+ NP+ VI L+ Sbjct: 70 KEDVTEIILNIKGLVVSSEHDEPITAYLRKQGAGQVTAADISAPAGVEIHNPELVIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 A +ELT+ +G GYV A +R+E G I +D++YSP+ KV+Y VE+ R G+ D+ Sbjct: 130 EKAKFELELTIERGRGYVSATQNRSEFSEAGQIPVDSIYSPVLKVTYRVEATRAGERTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 D+L + ++T +IT D++A A R L + G+ + ++ + L Sbjct: 190 DRLVVDVETKSAITPRDAIASAGRTLTELFGLARELNSAAEGIEIGPAPVDAVLSSELSM 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L+LSVRS NCL+ E I + +L+ +E ++ + NFG+KS+ E+K L +GL L Sbjct: 250 PIEDLDLSVRSYNCLKREGINNVSELVALSETQLMNIRNFGQKSVDEVKDKLVELGLSLK 309 Query: 319 MNLPDWP 325 +P + Sbjct: 310 DAVPGFD 316 >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 = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 129/316 (40%), Positives = 193/316 (61%), Gaps = 4/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVLH Sbjct: 6 RPSLTEEVV----DEYRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TDIILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDIILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNGKGKLEMELTVERGRGYVSAVQNKQLGQEIGRIPIDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNIDAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPP 326 MGL L + P + P Sbjct: 302 AGMGLALKDSPPGFDP 317 >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 = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 130/313 (41%), Positives = 206/313 (65%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP I + E+ + EPL RG+ TLGNALRR+L+SSL G A T+V+IDG Sbjct: 3 EIEKP--IIECIEANEDGTYGKYVVEPLERGYGITLGNALRRILLSSLPGVATTSVKIDG 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 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 RKLKELGLALKLT 313 >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 = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 127/316 (40%), Positives = 193/316 (61%), Gaps = 4/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNVDAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPP 326 MGL L + P + P Sbjct: 302 AGMGLALKDSPPGFDP 317 >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 = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 130/329 (39%), Positives = 198/329 (60%), Gaps = 6/329 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E I+ +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLTEEII----DEYRSRFLIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E ++I GV ED+TD+ILNIK + + D + + K+GPG VTA DI +EV NP Sbjct: 62 EFTTIPGVKEDVTDLILNIKQLVVSSEIDEPVTMYLRKQGPGTVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 + +I L+ + MELTV +G GYV A ++ IG I ID++YSP+ KV Y VE+ Sbjct: 122 ELIIATLNGKGKLEMELTVERGRGYVSAVQNKQAGQEIGRIPIDSIYSPVLKVKYDVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T S+ D+VA A + L + G+ + + + Sbjct: 182 RVEQRTDFDRLVLDVETKQSMRPRDAVASAGKTLVELFGLARELNIEAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +E+LEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEDLELTVRSYNCLKREGIHTVGELVARSEADLLDIRNFGAKSIDEVKVKL 301 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYEDK 339 +MGL L + P + P + + +Y+++ Sbjct: 302 MSMGLALKDSPPGFDPSLV--VDNQYDEE 328 >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 = 340 bits (872), Expect = 2e-91, 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---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >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 = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 133/321 (41%), Positives = 207/321 (64%), Gaps = 7/321 (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 RKSLVEIKGVLGTMGLFLGMN 320 +KS E++ L ++G L + Sbjct: 295 KKSFEEVRAKLQSLGFDLASD 315 >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 = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 128/316 (40%), Positives = 193/316 (61%), Gaps = 4/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNAKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNIDAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPP 326 MGL L + P + P Sbjct: 302 AGMGLALKDSPPGFDP 317 >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 = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 123/314 (39%), Positives = 193/314 (61%), Gaps = 4/314 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNIDAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L+ +E+L+L+VRS NCL+ E + +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLVMPIEDLDLTVRSYNCLKREGVHSVGELVARSEADLLDIRNFGAKSIDEVKEKL 301 Query: 311 GTMGLFLGMNLPDW 324 +GL L + P + Sbjct: 302 AGLGLGLKDSPPGF 315 >gi|297163220|gb|ADI12932.1| DNA-directed RNA polymerase subunit alpha [Streptomyces bingchenggensis BCW-1] Length = 337 Score = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 121/316 (38%), Positives = 189/316 (59%), Gaps = 4/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V + R+ + EPL GF +TLGN+LRR L+SS+ AA+T+++IDGVLH Sbjct: 6 RPSLTEEVV----DAYRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPAAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILN+K + + D + + K+GPG+ TA DI +EV NP Sbjct: 62 EFTTVPGVREDITDLILNLKQLVVSSEHDEPVVMYLRKQGPGLATAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + +ELTV +G GYV A + + IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNAKGKLEIELTVERGRGYVSAVQNTQQGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKPAMHPRDAIASAGKTLVELFGLARGLNIDAEGIDIGPSPTDT 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EELEL+VRS NCL+ E + +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALASDLALPIEELELTVRSYNCLKREGVHSVGELVARSEADLLDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPP 326 MGL + P + P Sbjct: 302 AGMGLAFKDSPPGFDP 317 >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 = 340 bits (871), Expect = 2e-91, 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|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 = 340 bits (871), Expect = 2e-91, Method: Composition-based stats. Identities = 142/328 (43%), Positives = 217/328 (66%), Gaps = 9/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++++P + L +NR ++ EPL RG+ HTLGNALRRVL+SS+ G AIT V+ID Sbjct: 6 NQVLRPRGPQIERL---TDNRAKVVIEPLERGYGHTLGNALRRVLLSSIPGFAITEVEID 62 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 VLHE ++++G+ ED+ +++LN+K + ++M +++ K+GPG VTA DI+T +++E Sbjct: 63 NVLHEYTTVEGLQEDVLEVLLNLKDVAIRMHTGDSATLSLSKQGPGTVTATDIKTDHNVE 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKV 183 +LN DHVIC+L D + M L + +G GY PA R ++ G + +DA +SP+++V Sbjct: 123 ILNSDHVICHLTKDTALNMRLKIERGFGYQPAAARRRPDEETRTIGRLVLDASFSPVRRV 182 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VESAR Q D DKL + I+T+G+I E++V A+ IL DQL +F +F + Sbjct: 183 AYAVESARVEQRTDLDKLVLDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGA-- 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + S +P LL+ +++LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KSL Sbjct: 241 -VKPASNGVDPVLLRPIDDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSL 299 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL GL LGM L +WPP + + Sbjct: 300 TEIKEVLAQRGLSLGMKLENWPPAGVAQ 327 >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 = 340 bits (871), Expect = 2e-91, 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-IEIAEIS-DDKKYGKFVVEPLERGYGITLGNSLRRIMLSSMPGVAVTQIKIEG 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 EVLNPDHVICNLDV--DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 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|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 = 340 bits (871), Expect = 2e-91, 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|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 = 340 bits (871), Expect = 2e-91, 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---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >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 = 340 bits (871), Expect = 2e-91, Method: Composition-based stats. Identities = 122/312 (39%), Positives = 183/312 (58%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ GV Sbjct: 30 TEESITPQRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTALPGV 89 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+I+LNIKGI L D + + K G G TAGDI I + NP+ I +L Sbjct: 90 EEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGITIANPEMHIASLA 149 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + +E TV +G GYVPA+ ++ ++D IG I +D++YSP+ KVSY VE+ R Q D+ Sbjct: 150 EDGELEIEFTVERGRGYVPAQMNKQDSDEIGRIPVDSIYSPVLKVSYKVEATRVEQRTDF 209 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T +I+ D+VA A L + G+ + V+ NP L Sbjct: 210 DKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNMQAEGVEVGPAPVVEETNPELAV 269 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L L+ RS NCL+ E I +G+L+ E D+L + NFG KS+ E+K L ++GL L Sbjct: 270 PIEDLNLTQRSYNCLKREGIHTVGELVAHNEQDLLDIRNFGMKSIDEVKEKLQSLGLSLK 329 Query: 319 MNLPDWPPESIE 330 + + ++E Sbjct: 330 ASPLGFDTTNLE 341 >gi|295101439|emb|CBK98984.1| DNA-directed RNA polymerase subunit alpha [Faecalibacterium prausnitzii L2-6] Length = 318 Score = 340 bits (871), Expect = 2e-91, Method: Composition-based stats. Identities = 135/316 (42%), Positives = 203/316 (64%), Gaps = 5/316 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ +P IE L + +AEPL RGF TLGN+LRRVL+SSL G A+T+V+IDG Sbjct: 3 EIERP-KIETASLS-PDGRYGKFVAEPLERGFGITLGNSLRRVLLSSLPGVAVTSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE S+I+GV ED+T+I+LN+KGI K+ D K V + GP VTA +I+ +DIE+ Sbjct: 61 VVHEFSTIEGVKEDVTEIVLNLKGIAAKLYTDGPKTVRVEAVGPCEVTADNIKQGDDIEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVS 184 LNP+ I L + MELT KG GYVPA+ ++ E + I + +D++Y+P+ KV+ Sbjct: 121 LNPEWHIATLGEGGKLVMELTFDKGRGYVPAERNKQAIIEKNDINTLPVDSIYTPVLKVN 180 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VES R GQ +DYDKL++ + TDG+I +++V+LA+R+L + L +F+N + + Sbjct: 181 YNVESTRVGQAIDYDKLTIEVWTDGTINAQEAVSLAARVLTEHLNLFVNLSDEAAGAEIM 240 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + AL +EEL+LSVRS NCL+ I + DL+ ++E +M+++ N GRKSL Sbjct: 241 VEKTNDDKEKALEMTIEELDLSVRSFNCLKRAGINTVEDLVSKSEDEMMKVRNLGRKSLE 300 Query: 305 EIKGVLGTMGLFLGMN 320 E+ L ++G L + Sbjct: 301 EVMAKLDSLGFKLNTD 316 >gi|325684745|gb|EGD26899.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus delbrueckii subsp. lactis DSM 20072] Length = 312 Score = 340 bits (871), Expect = 3e-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|295103950|emb|CBL01494.1| DNA-directed RNA polymerase subunit alpha [Faecalibacterium prausnitzii SL3/3] Length = 318 Score = 340 bits (871), Expect = 3e-91, Method: Composition-based stats. Identities = 136/316 (43%), Positives = 204/316 (64%), Gaps = 5/316 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ +P IE L + +AEPL RGF TLGN+LRRVL+SSL G A+T+V+IDG Sbjct: 3 EIERP-KIETASLS-PDGRYGKFVAEPLERGFGITLGNSLRRVLLSSLPGVAVTSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE S+I+GV ED+T+I+LN+KGI K+ D K V + GP VTA +I+ +DIE+ Sbjct: 61 VVHEFSTIEGVKEDVTEIVLNLKGIAAKLYTDGPKTVRVEAVGPCEVTADNIKQGDDIEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVS 184 LNP+ I L A + MELT KG GYVPA+ ++ E + I + +D++Y+P+ KV+ Sbjct: 121 LNPEWHIATLGEGAKLVMELTFDKGRGYVPAERNKQAIIEKNDINTLPVDSIYTPVLKVN 180 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VES R GQ +DYDKL++ + TDG+I +++V+LA+R+L + L +F+N + + Sbjct: 181 YNVESTRVGQAIDYDKLTIEVWTDGTINAQEAVSLAARVLTEHLNLFVNLSDEAAGAEIM 240 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + AL +EEL+LSVRS NCL+ I + DL+ ++E +M+++ N GRKSL Sbjct: 241 VEKTNDDKEKALEMTIEELDLSVRSFNCLKRAGINTVEDLVSKSEDEMMKVRNLGRKSLE 300 Query: 305 EIKGVLGTMGLFLGMN 320 E+ L ++G L + Sbjct: 301 EVMAKLDSLGFKLNTD 316 >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 = 340 bits (871), Expect = 3e-91, Method: Composition-based stats. Identities = 151/330 (45%), Positives = 221/330 (66%), Gaps = 10/330 (3%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E +KP+ + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I Sbjct: 1 MTEFLKPHLVN---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEI 57 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGVLHE SS +GV ED+ +++LN+KG+ +K+SG +T+ K G G VTA DI D+ Sbjct: 58 DGVLHEYSSKEGVQEDILEVLLNLKGLAVKVSGKDDIILTLNKSGIGPVTAADITHDGDV 117 Query: 126 EVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIK 181 E++NP HVIC+L D DA + M + V +G GYVPA H + E+ PIG + +DA +SP+ Sbjct: 118 EIVNPHHVICHLTDKDASISMRIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVD 177 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ Sbjct: 178 RIAYNVEAARVEQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP- 236 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+K Sbjct: 237 --EVKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKK 294 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 SL EIK VL + GL LGM L +WPP SI E Sbjct: 295 SLTEIKDVLASRGLSLGMRLENWPPASIAE 324 >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|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 = 339 bits (870), Expect = 3e-91, Method: Composition-based stats. Identities = 146/335 (43%), Positives = 220/335 (65%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >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 = 339 bits (870), Expect = 3e-91, Method: Composition-based stats. Identities = 123/310 (39%), Positives = 187/310 (60%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV Sbjct: 11 EESINETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTIPGVK 70 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+ ++++NIK + + D + + K+GPG VTAGDIQ + V NPD + L+ Sbjct: 71 EDVVELVMNIKELCVSSEHDEPVSMYLRKQGPGDVTAGDIQPPAGVSVHNPDLKLATLNG 130 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ R Q D+D Sbjct: 131 KGRLDMELTVERGRGYVTAAQNKQAGAEIGRIPVDSIYSPVLKVTYRVEATRVEQRTDFD 190 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 +L + ++T S+ ++A A L + G+ +E + + + + L Sbjct: 191 RLIIDVETKPSMGPRTALASAGSTLVELFGLARELDETAEGIDIGPSPQDAQLAADLALP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +EEL+L+VRS NCL+ E I +G+LI RTEAD+L + NFG+KS+ E+K L MGL L Sbjct: 251 IEELDLTVRSYNCLKREGINSVGELIGRTEADLLDIRNFGQKSIDEVKMKLAGMGLGLKD 310 Query: 320 NLPDWPPESI 329 + P++ P + Sbjct: 311 SAPNFDPAHV 320 >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 = 339 bits (870), Expect = 3e-91, Method: Composition-based stats. Identities = 148/335 (44%), Positives = 218/335 (65%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 VRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >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 = 339 bits (870), Expect = 3e-91, Method: Composition-based stats. Identities = 123/310 (39%), Positives = 187/310 (60%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV Sbjct: 11 EESINETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTIPGVK 70 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+ ++++NIK + + D + + K+GPG VTAGDIQ + V NPD + L+ Sbjct: 71 EDVVELVMNIKELCVSSEHDEPVSMYLRKQGPGDVTAGDIQPPAGVSVHNPDLKLATLNG 130 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ R Q D+D Sbjct: 131 KGRLDMELTVERGRGYVTAAQNKQAGAEIGRIPVDSIYSPVLKVTYRVEATRVEQRTDFD 190 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 +L + ++T S+ ++A A L + G+ +E + + + + L Sbjct: 191 RLIIDVETKPSMGPRTALASAGSTLVELFGLARELDETAEGIDIGPSPQDAQLAADLALP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +EEL+L+VRS NCL+ E I +G+LI RTEAD+L + NFG+KS+ E+K L MGL L Sbjct: 251 IEELDLTVRSYNCLKREGINSVGELIGRTEADLLDIRNFGQKSIDEVKMKLAGMGLGLKD 310 Query: 320 NLPDWPPESI 329 + P++ P + Sbjct: 311 SAPNFDPAHV 320 >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 = 339 bits (870), Expect = 3e-91, Method: Composition-based stats. Identities = 140/312 (44%), Positives = 208/312 (66%), 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 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EPKKEV-KEDINVKSLPF 252 ++Y++L + I TDGS++ E+++ A+ IL+D + +FI E EP+ EV 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|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 = 339 bits (870), Expect = 3e-91, 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---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >gi|308272953|emb|CBX29557.1| DNA-directed RNA polymerase subunit alpha [uncultured Desulfobacterium sp.] Length = 340 Score = 339 bits (870), Expect = 4e-91, Method: Composition-based stats. Identities = 149/327 (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 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +K+V+Y V +AR GQ DYDKL++ + TDGS++ ++++ +++I+++Q+ +FINF+E + Sbjct: 183 VKRVNYVVGNARVGQRTDYDKLTIEVWTDGSLSPVEALSYSAKIIKEQMSIFINFDEKLE 242 Query: 240 EVKEDINVK--SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 E + 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|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 = 339 bits (870), Expect = 4e-91, Method: Composition-based stats. Identities = 132/313 (42%), Positives = 198/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIDG 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|239933876|ref|ZP_04690829.1| DNA-directed RNA polymerase subunit alpha [Streptomyces ghanaensis ATCC 14672] Length = 329 Score = 339 bits (870), Expect = 4e-91, Method: Composition-based stats. Identities = 123/309 (39%), Positives = 188/309 (60%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ G Sbjct: 1 MTEEVVDEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPG 60 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NPD V+ L Sbjct: 61 VKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNPDLVLATL 120 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ R Q D Sbjct: 121 NGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEATRVEQRTD 180 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL + ++T ++ D++A A + L + G+ + + + L Sbjct: 181 FDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNIGAEGIDMGPSPTDAALAADLA 240 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EELEL+VRS NCL+ E + +G+L+ R+EAD+L + NFG KS+ E+K L +GL L Sbjct: 241 LPIEELELTVRSYNCLKREGVHSVGELLARSEADLLDIRNFGAKSIDEVKAKLAGLGLAL 300 Query: 318 GMNLPDWPP 326 + P + P Sbjct: 301 KDSPPGFAP 309 >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 = 339 bits (869), Expect = 4e-91, Method: Composition-based stats. Identities = 150/337 (44%), Positives = 216/337 (64%), Gaps = 2/337 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW L+KP+ ++ E+ EPL RGF +T GNALRR+L+SSL+GAAI A+ Sbjct: 13 RNWSSLVKPDQVQRDEKSTEQ--YGKFSCEPLERGFGNTFGNALRRILLSSLQGAAIVAI 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 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 +I+ V+ MG + ++ + E L +K +D+ Sbjct: 311 EDIRRVIEQMGYDFNTQIDNFDQKYQEWLKRKEDDEA 347 >gi|291542059|emb|CBL15169.1| DNA-directed RNA polymerase subunit alpha [Ruminococcus bromii L2-63] Length = 317 Score = 339 bits (869), Expect = 4e-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|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 = 339 bits (869), Expect = 4e-91, 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|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 = 339 bits (869), Expect = 4e-91, Method: Composition-based stats. Identities = 128/315 (40%), Positives = 203/315 (64%), Gaps = 6/315 (1%) Query: 9 LIKPNNIEYIVLGQEE----ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 L+ IE + E 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 LVEIKGVLGTMGLFL 317 E+K L ++G L Sbjct: 306 FDEVKEKLHSLGYEL 320 >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 = 339 bits (869), Expect = 4e-91, Method: Composition-based stats. Identities = 123/333 (36%), Positives = 192/333 (57%), Gaps = 8/333 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+T+IILN+K + + D + + GVVT +I+ +EV NP Sbjct: 62 EFSTVPGVTEDVTEIILNLKNLVVSSENDEPVVMYLRADTAGVVTGANIEPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D + L+ + +EL V +G GYV A ++T ++ IG + ID++YSP+ KV+Y VE+ Sbjct: 122 DLHVATLNDKGRLEIELVVERGRGYVSAVQNKTGDEEIGRMPIDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T SI D++A A L + G+ + + + Sbjct: 182 RVEQRTDFDRLVVDVETKKSILPRDAIASAGSTLVELFGLARELNVEAEGIDIGPSPVDE 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +E+L +VRS NCL+ E I +G+LI R+E D+L + NFG KS+ E+K L Sbjct: 242 QLAADLALPIEDLNFTVRSYNCLKREGIHTVGELITRSEQDLLDIRNFGSKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPPESI----EELAKKYEDK 339 MGL L + + P ++ +E A ED+ Sbjct: 302 AEMGLALKDSPAGFDPSAVIADYDEDASFAEDE 334 >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 = 339 bits (869), Expect = 5e-91, Method: Composition-based stats. Identities = 147/335 (43%), Positives = 217/335 (64%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVI 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 VRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >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 = 338 bits (868), Expect = 5e-91, Method: Composition-based stats. Identities = 147/335 (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 MQGSVTEFLKPRLVDIEQVST---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 YSPVDKIAYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRD 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >gi|314924147|gb|EFS87978.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL001PA1] Length = 338 Score = 338 bits (868), Expect = 5e-91, Method: Composition-based stats. Identities = 119/320 (37%), Positives = 182/320 (56%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV HE S+I+G Sbjct: 10 TEESISEFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQHEFSTIEGC 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+IIL ++G L D + + K G G VTA DI + + NP+ I L+ Sbjct: 70 VEDVTEIILTLRGFVLPSEEDEPVAMYLRKSGAGEVTAADINPPAGVTIHNPELHIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ R Q D+ Sbjct: 130 DDGRFEMELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T SI D++A A + L + G+ + ++ + +L Sbjct: 190 DKLVVDVETKPSILPRDAIASAGKTLVELFGLTRELNAEAEGIEIGSGPVDEEYAESLGT 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L +GL L Sbjct: 250 PVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEKLTELGLALK 309 Query: 319 MNLPDWPPESIEELAKKYED 338 + P + P + E + D Sbjct: 310 DSAPGFDPLAAAEAYDEAND 329 >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 = 338 bits (868), Expect = 5e-91, Method: Composition-based stats. Identities = 138/314 (43%), Positives = 206/314 (65%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 28 DFEKPN-IEIAEIS-EDKKYGKFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 85 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDI 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 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 326 EEVLAKLKELGLQL 339 >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 = 338 bits (868), Expect = 6e-91, Method: Composition-based stats. Identities = 144/335 (42%), 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 MQGSVTEFLKPRLVDIEQVST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >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 = 338 bits (868), Expect = 6e-91, 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 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDI 119 +I+GV HE S+++GV ED+ +I+LN+KG+ + M H +++ K+GPGVVTA DI Sbjct: 58 EAEIEGVEHEYSALEGVQEDIIEILLNLKGVAVVMHDQEKSHAMLSLKKKGPGVVTAADI 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDAL 176 +++E+ NPDHVI + D + M L++++G GY PA R+++D G + +DA Sbjct: 118 VVDHEVEIKNPDHVIATITGDVELNMSLSIARGRGYQPADARRSDDDETRAIGRLQLDAS 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 +SP+K+++Y+VESAR Q D DKL + ++T+G+I E+++ ++ ILQ QL +F++ E Sbjct: 178 FSPVKRLAYSVESARVEQRTDLDKLVLDLETNGTIDPEEAIRRSATILQQQLAVFVDLES 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 K E+ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 EKSSEPEEKEED---VDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LG+ L +WPP S+ Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGLRLENWPPASL 327 >gi|302023188|ref|ZP_07248399.1| DNA-directed RNA polymerase subunit alpha [Streptococcus suis 05HAS68] Length = 300 Score = 338 bits (868), Expect = 6e-91, Method: Composition-based stats. Identities = 130/302 (43%), Positives = 197/302 (65%), Gaps = 4/302 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T+++IDG Sbjct: 3 EFEKPT----ITKIDENKDYGRFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSIKIDG 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|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 = 338 bits (868), Expect = 6e-91, Method: Composition-based stats. Identities = 151/326 (46%), Positives = 210/326 (64%), Gaps = 8/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP I LG R+++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 FLKPRIINVESLG---AGRSVVEMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYSPIKKVSY 185 NP+HVI NL + + M++ V KG GYVP R N IG 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|327451569|gb|EGE98223.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL092PA1] Length = 338 Score = 338 bits (868), Expect = 6e-91, Method: Composition-based stats. Identities = 119/320 (37%), Positives = 183/320 (57%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV HE S+I+G Sbjct: 10 TEESISEFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQHEFSTIEGC 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+IILN+KG+ L D + + K G G + A DI + + NP+ I L+ Sbjct: 70 VEDVTEIILNLKGLVLSSEEDEPVAMYLRKTGAGEIPAADINPPAGVTIHNPELHIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ R Q D+ Sbjct: 130 DDGRFEMELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T SI D++A A + L + G+ + ++ + +L Sbjct: 190 DKLVVDVETKPSILPRDAIASAGKTLVELFGLTRELNVEAEGIEIGSGPVDEEYAESLGT 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L +GL L Sbjct: 250 PVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEKLTELGLALK 309 Query: 319 MNLPDWPPESIEELAKKYED 338 + P + P + E + D Sbjct: 310 DSAPGFDPLAAAEAYDEAND 329 >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 = 338 bits (867), Expect = 7e-91, Method: Composition-based stats. Identities = 128/330 (38%), Positives = 193/330 (58%), Gaps = 7/330 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V E+R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGV H Sbjct: 6 RPTLSEDVV----SESRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVQH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S+I GV ED+T++ILNIKG+ + D + + K+G GVVTA DI +EV NP Sbjct: 62 EFSTIPGVKEDVTEVILNIKGLVVSSEHDEPVVMYLRKQGAGVVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ + MELTV +G GYV A +++ IG I +D++YSP+ V+Y VE+ Sbjct: 122 DLEIATLNDKGSIEMELTVERGRGYVSAALNKSAEQEIGRIPVDSIYSPVLAVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T S+ D++A A L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKNSMAPRDAMASAGSTLVELFGLARELNVEAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+ L Sbjct: 242 ALAEDLALPIEDLDLTVRSYNCLKREGIHTVGELVSRSEADLLDIRNFGSKSIHEVADKL 301 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 MGL L + P + I A +Y++ Sbjct: 302 RDMGLQLKDSPPGFDASVI---ADRYDEDA 328 >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 = 338 bits (867), Expect = 7e-91, Method: Composition-based stats. Identities = 130/313 (41%), Positives = 198/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 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|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 = 338 bits (867), Expect = 7e-91, Method: Composition-based stats. Identities = 164/348 (47%), Positives = 232/348 (66%), Gaps = 12/348 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 I +W L +P++I+ + G +I EPL GFA TLGNALRRV+MSSLRG A+ Sbjct: 21 ISDHWDRLTRPSSIKVVGDGDVS-RSAELIVEPLESGFALTLGNALRRVMMSSLRGFAVY 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|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 = 338 bits (867), Expect = 7e-91, Method: Composition-based stats. Identities = 122/308 (39%), Positives = 183/308 (59%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 +E R+ + EPL GF +TLGN+LRR L+SS+ GA++T+++ID VLHE S+I+GV Sbjct: 11 EETVDEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIKIDNVLHEFSTIEGVK 70 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+T++ILN+KG+ + D + + K G G VTA DI +EV NPD I L Sbjct: 71 EDVTEVILNLKGLVVSSEHDEPVTMYLRKSGAGDVTAADIAPPAGVEVHNPDLKIATLSD 130 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + MEL V +G GYV A ++ ++ IG + +D++YSP+ KV+Y VE+ R Q D+D Sbjct: 131 KGKLEMELVVERGRGYVSAVQNKGADNEIGRMPVDSIYSPVLKVTYKVEATRVEQRTDFD 190 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + ++T SI D++A A + L + G+ + + + L Sbjct: 191 KLVIDVETKPSIRPRDAIASAGKTLVELFGLARELNVEAEGIDIGPSPVDEQLAADLALP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 VE+L+L+VRS NCL+ E I +G+LI R+E D+L + NFG KS+ E+K L MGL L Sbjct: 251 VEDLQLTVRSYNCLKREGIHTVGELISRSEQDLLDIRNFGAKSIDEVKAKLVEMGLSLKD 310 Query: 320 NLPDWPPE 327 + P + P Sbjct: 311 SAPGFDPH 318 >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 = 338 bits (867), Expect = 7e-91, Method: Composition-based stats. Identities = 132/317 (41%), Positives = 205/317 (64%), Gaps = 6/317 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP IE + +++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+I+G Sbjct: 3 DFQKP-KIEIATIS-DDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIEG 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 VEIKGVLGTMGLFLGMN 320 E+ L +GL L N Sbjct: 301 EEVLAKLKELGLQLSPN 317 >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 = 338 bits (867), Expect = 7e-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 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|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 = 338 bits (866), Expect = 9e-91, Method: Composition-based stats. Identities = 130/319 (40%), Positives = 197/319 (61%), Gaps = 6/319 (1%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 ++ KP IE + E+ + EPL G+ T GN+LRR+L+SSL GAA+T++QI Sbjct: 1 MTDIEKP-KIEIAEIS-EDGRYGRFVCEPLEPGYGTTFGNSLRRMLLSSLDGAAVTSIQI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGVLHE S+I GV +D+T I+L +K + ++M G + I G VTA DI+ +DI Sbjct: 59 DGVLHEFSTIPGVRDDVTSIVLALKQLCIRMQGSELHTLRIEAEGEREVTAADIECGSDI 118 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E+LNP+ I L +++E+TV +G GYVPA ++ D IG+I ID+++SP+++V+Y Sbjct: 119 EILNPELHIATLGATGKLKIEMTVERGRGYVPADKNKKSEDSIGVIPIDSIFSPVQRVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVE R G V DYD+L + + T+GSI E++V+ A+ IL L +F N + E +E++ Sbjct: 179 TVEDTRVGNVTDYDRLILDVWTNGSIRPEEAVSKAAAILVMHLRLFQNMDGTMLEEEEEV 238 Query: 246 ----NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + L +++L+LSVRS NCL+ I + DL Q+TE DM+++ N GRK Sbjct: 239 PNFPPEEVDDSAKVLEMTIDDLDLSVRSFNCLKRAGINTVADLAQKTEDDMMKVRNLGRK 298 Query: 302 SLVEIKGVLGTMGLFLGMN 320 SL E+K L +GL L + Sbjct: 299 SLDEVKKKLEELGLSLRQD 317 >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 = 338 bits (866), Expect = 9e-91, Method: Composition-based stats. Identities = 126/308 (40%), Positives = 183/308 (59%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 EE R+ + EPL GF +TLGN+LRR L+SS+ GA++T+++IDGVLHE S+I+GV Sbjct: 11 EESVEEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIKIDGVLHEFSTIEGVK 70 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+T+IILN+KG+ + D + + K G G VTA DI +EV NPD I L Sbjct: 71 EDVTEIILNLKGLVVSSEHDEPVTMYLRKSGAGDVTAADIAPPAGVEVHNPDLKIATLSD 130 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + +EL V +G GYV A ++ + IG I +D++YSP+ KVSY VE+ R Q D+D Sbjct: 131 KGKIELELVVERGRGYVSAVQNKGAENEIGRIPVDSIYSPVLKVSYKVEATRVEQRTDFD 190 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + ++T SI D++A A + L + G+ + + + L Sbjct: 191 KLVIDVETKPSIAPRDAIASAGKTLVELFGLARELNVDAEGIDIGPSPVDEQLAADLALP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 VE+L+L+VRS NCL+ E I +G+LI R+E D+L + NFG KS+ E+K L MGL L Sbjct: 251 VEDLQLTVRSYNCLKREGIHTVGELISRSEQDLLDIRNFGAKSIDEVKLKLHEMGLSLKD 310 Query: 320 NLPDWPPE 327 + P + P Sbjct: 311 SAPGFDPS 318 >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 = 338 bits (866), Expect = 9e-91, Method: Composition-based stats. Identities = 120/329 (36%), Positives = 192/329 (58%), Gaps = 9/329 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V NR+ EPL GF +T+GN+LRR L+SS+ GAA+T+V+IDGVLH Sbjct: 6 RPTLTEEVV----APNRSRFTIEPLEPGFGYTMGNSLRRTLLSSIPGAAVTSVRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+T+IILNIK +++ D + K+G G +TAGDI+ +E+ NP Sbjct: 62 EFSTVPGVTEDVTEIILNIKKLSISSENDEPVVAYLRKQGEGELTAGDIEVPAGVEIHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 + + L+ A EL + +G GYV A ++ + IG I +D++YSP+ KV+++V + Sbjct: 122 ELHLATLNASANFNAELVIERGRGYVTAAQNKVGDGEIGRIPVDSIYSPVLKVTFSVNAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D L++ ++T +I D+VA A L + G+ + ++ + Sbjct: 182 RVEQRTDFDSLTLDVETKEAIAPRDAVASAGSTLVELFGLARELNIAAEGIEVGPSPADE 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +E+L +SVRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K L Sbjct: 242 SMAADLALPIEDLNMSVRSYNCLKREGIHTVGELVTRSEADLMDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYEDK 339 +GL L + P + P A+ +D+ Sbjct: 302 IELGLALKDSPPGFEPA-----ARPLDDE 325 >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 = 338 bits (866), Expect = 9e-91, 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|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 = 338 bits (866), Expect = 9e-91, Method: Composition-based stats. Identities = 129/319 (40%), Positives = 197/319 (61%), Gaps = 6/319 (1%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 ++ KP IE + E+ I EPL G+ T GN+LRR+L+SSL GAA+T++QI Sbjct: 1 MTDIEKP-KIEIAEIS-EDGRYGRFICEPLEPGYGTTFGNSLRRMLLSSLDGAAVTSIQI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGVLHE S+I GV +D+T I+L +K + ++M + + I G VTA DI+ +DI Sbjct: 59 DGVLHEFSTIPGVRDDVTSIVLALKQLCIRMQDSEPRTIRIEAAGAREVTAADIECGSDI 118 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E+LNP+ I + +++E+TV +G GYVPA ++ +D IG+I ID+++SP+++V+Y Sbjct: 119 EILNPELHIATMGETGKLKIEMTVERGRGYVPADRNKKPDDVIGVIPIDSIFSPVQRVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVE R G V DYD+L + + T+GSI E++V+ A+ IL L +F N + E +E++ Sbjct: 179 TVEDTRVGNVTDYDRLILEVWTNGSIRPEEAVSKAAAILVMHLRLFQNMDGSVVEEEEEV 238 Query: 246 NVKS----LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 L +++L+LSVRS NCL+ I + DL Q+TE DM+++ N GRK Sbjct: 239 PNFPPEEVDDSAKVLEMTIDDLDLSVRSFNCLKRAGINTVADLAQKTEDDMMKVRNLGRK 298 Query: 302 SLVEIKGVLGTMGLFLGMN 320 SL E+K L +GL L + Sbjct: 299 SLDEVKKKLEELGLSLRQD 317 >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 = 338 bits (866), Expect = 9e-91, Method: Composition-based stats. Identities = 139/332 (41%), Positives = 216/332 (65%), Gaps = 8/332 (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-VDAVVRMELTVSKGHGYVPAKHH-RTENDPIGLITIDALYSP 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 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +KSL EIK VL + GL LGM L +WPP + Sbjct: 295 KKSLTEIKDVLASRGLSLGMRLENWPPLGFID 326 >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 = 338 bits (866), Expect = 9e-91, Method: Composition-based stats. Identities = 117/308 (37%), Positives = 178/308 (57%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV HE S+I+G Sbjct: 10 TEETISEFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQHEFSTIEGC 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+T+IILN+KG+ L D + + K G G + A DI + + NP I L+ Sbjct: 70 VEDVTEIILNLKGLVLSSEEDEPVAMYLRKSGTGEIIAADINPPAGVTIHNPGLHIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D MEL V +G GYV + + + IG I +D++YSP+ KV+Y VE+ R Q D+ Sbjct: 130 DDGRFEMELVVERGRGYVSSALNDDPSAEIGRIAVDSIYSPVLKVTYKVEATRVEQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T SI D+VA A + L + G+ + ++ + +L Sbjct: 190 DKLVVDVETKPSILPRDAVASAGKTLVELFGLTRELNAEAEGIEIGAGPVDEEYAESLST 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L +GL L Sbjct: 250 PVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEKLTELGLALK 309 Query: 319 MNLPDWPP 326 + P + P Sbjct: 310 DSAPGFDP 317 >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 = 338 bits (866), Expect = 1e-90, 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 MQGSVTEFLKPRLVDIEQVST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >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 = 338 bits (866), Expect = 1e-90, 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-KIEIAEIS-EDNRYGKFICEPLERGYGTTFGNSLRRMLLSSLEGAAITSIRIDG 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|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 = 338 bits (866), Expect = 1e-90, Method: Composition-based stats. Identities = 131/310 (42%), Positives = 207/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP +E + + + EPL RG+ TLGN+LRR+++SSL GAA+T+V+I+G Sbjct: 3 EMEKP-KVEVFEISDDS-TYGKFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVTSVKIEG 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|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 = 338 bits (866), Expect = 1e-90, Method: Composition-based stats. Identities = 126/316 (39%), Positives = 192/316 (60%), Gaps = 4/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG + +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNAKGKLEMELTVERGRGYVSAVQNKQAGQEIGRVPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNVDAEGIDMGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAKL 301 Query: 311 GTMGLFLGMNLPDWPP 326 M L L + P + P Sbjct: 302 AGMSLALKDSPPGFDP 317 >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 = 337 bits (865), Expect = 1e-90, Method: Composition-based stats. Identities = 138/311 (44%), Positives = 201/311 (64%), 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 VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 VLHE S+I GV ED+ IILNIK I LK S D +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|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 = 337 bits (865), Expect = 1e-90, 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|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 = 337 bits (865), Expect = 1e-90, Method: Composition-based stats. Identities = 148/335 (44%), Positives = 217/335 (64%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >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 = 337 bits (865), Expect = 1e-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-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|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 = 337 bits (865), Expect = 1e-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|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 = 337 bits (865), Expect = 1e-90, Method: Composition-based stats. Identities = 116/306 (37%), Positives = 184/306 (60%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 E R+ + EPL GF +TLGN++RR L+SS+ GAA+T+++IDGVLHE S++ GV Sbjct: 11 EENISEFRSRFVIEPLEPGFGYTLGNSIRRTLLSSIPGAAVTSIRIDGVLHEFSTVAGVK 70 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+T++ILNIK + + D + K+G G VTA DI +E+ NP+ VI L+ Sbjct: 71 EDVTEVILNIKNLVVSSEHDEPITAYLRKQGAGEVTAADISAPAGVEIHNPELVIATLND 130 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 A +ELT+ +G GYV A +R+E G I +D++YSP+ KV+Y VE+ R G+ D+D Sbjct: 131 KAKFELELTIERGRGYVTATQNRSEFSEAGQIPVDSIYSPVLKVTYRVEATRAGERTDFD 190 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 +L + ++T +IT D++A A R L + G+ + ++ + L Sbjct: 191 RLVVDVETKSAITPRDAIASAGRTLTELFGLARELNTAAEGIEIGPAPVDAVLSTELSMP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +E+L+LSVRS NCL+ E I + +L+ +E ++ + NFG+KS+ E++ L MGL L Sbjct: 251 IEDLDLSVRSYNCLKREGINTVSELVALSETQLMNIRNFGQKSVDEVRDKLVEMGLSLKD 310 Query: 320 NLPDWP 325 ++P + Sbjct: 311 SVPGFD 316 >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 (865), Expect = 1e-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|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 = 337 bits (865), Expect = 1e-90, 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|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 = 337 bits (864), Expect = 1e-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-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|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 = 337 bits (864), Expect = 1e-90, Method: Composition-based stats. Identities = 125/322 (38%), Positives = 193/322 (59%), Gaps = 4/322 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E ++ + R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPTLSEEVI----SDARSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S+I GV ED+T+IILN+K + L D + + K+G GVVTA DI +EV NP Sbjct: 62 EFSTITGVKEDVTEIILNVKNLVLSSENDEPVVMYLRKQGAGVVTAADIVPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ + +ELTV +G GYV A+ +++ + IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLHIATLNDKGKLEIELTVERGRGYVSAQQNKSMDAEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T SI D++A A + L + G+ + ++ + Sbjct: 182 RVEQRTDFDRLIVDVETKSSIVPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPTDA 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +E+L L++RS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 242 ALAADLALPIEDLNLTIRSYNCLKREGIHQVGELVARSEADLLDIRNFGAKSINEVKEKL 301 Query: 311 GTMGLFLGMNLPDWPPESIEEL 332 +GL L + D+ P S + Sbjct: 302 HELGLSLKDSPLDFQPSSESDY 323 >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 = 337 bits (864), Expect = 2e-90, Method: Composition-based stats. Identities = 132/314 (42%), Positives = 205/314 (65%), Gaps = 6/314 (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 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 301 EEVLAKLKELGLSL 314 >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 = 337 bits (864), Expect = 2e-90, 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 MSVNALLKPRSIEVET-AEGNPYSATVTMEPFETGYAHTLGNALRRVLLSSMVGFAPTEA 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|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 = 337 bits (864), Expect = 2e-90, Method: Composition-based stats. Identities = 152/347 (43%), Positives = 207/347 (59%), Gaps = 22/347 (6%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 + L+KP +IE + + EP G+AHTLGNALRRVL+SS+ G A T Sbjct: 1 MSVNALLKPRSIEVET-AEGNPYSATVTMEPFETGYAHTLGNALRRVLLSSMVGFAPTEA 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|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 = 336 bits (863), Expect = 2e-90, Method: Composition-based stats. Identities = 132/315 (41%), Positives = 197/315 (62%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E+ + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDG Sbjct: 3 EIEKP-KIEIVEIS-EDNRYGKFVCEPLERGYGTTLGNSLRRILLSSLPGAAITSIRIDG 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 VEIKGVLGTMGLFLG 318 E+K L L L Sbjct: 301 EEVKKKLEEYDLTLK 315 >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 = 336 bits (863), Expect = 2e-90, 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|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 = 336 bits (863), Expect = 2e-90, Method: Composition-based stats. Identities = 134/316 (42%), Positives = 197/316 (62%), Gaps = 6/316 (1%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 ++ KP IE + E+ + EPL G+ T GN+LRR+L+SSL GAA+T++QI Sbjct: 1 MTDIEKP-KIEITEIS-EDGRYGRFVCEPLEPGYGTTFGNSLRRMLLSSLEGAAVTSIQI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGVLHE S+I GV +D+T I+LNIK + LKM G + I G VTA DI+ +DI Sbjct: 59 DGVLHEFSTIPGVRDDVTSIVLNIKQLCLKMQGSDPHTIRIDVAGEREVTAADIECGSDI 118 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E+LNP+ I L+ +++E+TV +G GYVPA ++ +D IG+I ID+++SP+ +V+Y Sbjct: 119 EILNPELHIATLNATGKLKIEMTVERGRGYVPADKNKKPDDSIGVIPIDSIFSPVHRVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED- 244 TVE R G V DYD+L + + T+GSI E++V+ A+ IL L +F N + E +E+ Sbjct: 179 TVEDTRVGNVTDYDRLILDVWTNGSIRPEEAVSKAAAILVMHLRLFQNMDGNVVEEEEEV 238 Query: 245 ---INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + L +++L+LSVRS NCL+ I + DL Q+TE DM+++ N GRK Sbjct: 239 ANFPPEEVDDSAKVLEMTIDDLDLSVRSFNCLKRAGINSVADLTQKTEEDMMKVRNLGRK 298 Query: 302 SLVEIKGVLGTMGLFL 317 SL E+K L +GL L Sbjct: 299 SLDEVKKKLEELGLSL 314 >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 = 336 bits (863), Expect = 2e-90, Method: Composition-based stats. Identities = 136/312 (43%), Positives = 207/312 (66%), Gaps = 5/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + +N PL RG+ TLGN+LRRVL+SSL GAAIT+V+I+G Sbjct: 3 EIEKP-KIEKV---ECTDNYGKFEVAPLERGYGITLGNSLRRVLLSSLPGAAITSVKIEG 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 KGVLGTMGLFLG 318 K L + L L Sbjct: 299 KEKLNELDLKLK 310 >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 = 336 bits (863), Expect = 2e-90, Method: Composition-based stats. Identities = 148/335 (44%), Positives = 217/335 (64%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >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 = 336 bits (862), Expect = 3e-90, Method: Composition-based stats. Identities = 134/314 (42%), Positives = 204/314 (64%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFEKP-KIEIAEIS-EDKRYGKFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 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 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 301 EEVLAKLKELGLQL 314 >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 = 336 bits (862), Expect = 3e-90, Method: Composition-based stats. Identities = 158/346 (45%), 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 ISDHWDKLTRPSSIKVVGDGDLS-RSAELIVEPLESGFALTLGNALRRVMMSSLRGFAVY 79 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 ++++GV HE++S+ GV ED+ D++LN+ + +K+ + + + +GPG +TA I Sbjct: 80 GIEVEGVSHELTSLSGVREDVADLVLNLSMLRVKLLTSESRVLRLVAKGPGEITAAAIGD 139 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP-------IGLITID 174 VLN D IC L D M++ V+ G GYVPA +R + 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 EEPKKEVKEDINVKSL--PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 EE + E ++ ++ + P++ 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|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 = 336 bits (862), Expect = 3e-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|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 = 336 bits (862), Expect = 3e-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 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|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 (862), Expect = 3e-90, Method: Composition-based stats. Identities = 133/314 (42%), Positives = 201/314 (64%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFEKPN-IEIAEIS-EDKRYGKFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 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 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 301 EEVLAKLKELGLQL 314 >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 = 336 bits (862), Expect = 3e-90, Method: Composition-based stats. Identities = 133/313 (42%), Positives = 194/313 (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 NETAKIEIELIVERGRGYVPATVTATGGE-IGRIPVDQIYSPVLKVSYKVEATRVEQRTD 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|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 = 336 bits (862), Expect = 3e-90, Method: Composition-based stats. Identities = 127/312 (40%), Positives = 190/312 (60%), Gaps = 1/312 (0%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + R+ I EPL GF +TLGN+LRR L+SS+ GAA+T+V+IDGVLHE ++I GV Sbjct: 10 TEEYVDSARSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVKIDGVLHEFTTINGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED++DIILNIKG+ L D + + K G GVV+AGDI+ +E+ NPD I L+ Sbjct: 70 KEDVSDIILNIKGLVLSSDSDEPVVMYLRKEGAGVVSAGDIEPPAGVEIHNPDLHIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +E+ V +G GYVPA + N+ IG I +D +YSP+ KVSY VE+ R Q D+ Sbjct: 130 EQGRLDIEMIVERGRGYVPASLYAGTNE-IGRIPVDQIYSPVLKVSYKVEATRVEQRTDF 188 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T SI D++A A + L + G+ + ++ + + + A Sbjct: 189 DKLIIDVETKNSIAPSDALASAGKTLVELFGLARELNTAAEGIEIGPSPQETEYIAAYSM 248 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L +GLFL Sbjct: 249 PIEDLNFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIKLAGLGLFLK 308 Query: 319 MNLPDWPPESIE 330 + D+ P +E Sbjct: 309 DSPEDFDPTQLE 320 >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 (861), Expect = 4e-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|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 = 335 bits (860), Expect = 4e-90, Method: Composition-based stats. Identities = 133/314 (42%), Positives = 201/314 (64%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFEKPN-IEIAEIS-EDKRYGKFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 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 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 301 EEVLAKLKELGLQL 314 >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 = 335 bits (860), Expect = 5e-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|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 = 335 bits (860), Expect = 5e-90, Method: Composition-based stats. Identities = 136/316 (43%), Positives = 204/316 (64%), Gaps = 6/316 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAAI++V+IDG Sbjct: 3 DFNKPN-IEITEIS-EDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAISSVKIDG 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 VEIKGVLGTMGLFLGM 319 E+ L + L L Sbjct: 301 EEVLAKLKELDLELNQ 316 >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 = 335 bits (860), Expect = 5e-90, Method: Composition-based stats. Identities = 125/313 (39%), Positives = 201/313 (64%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP ++ + L E+ + EPL RGF T+GNALRR+L+SSL G A+ AV+IDG Sbjct: 3 EIEKP-KVDIVELS-EDYRYGKFVVEPLERGFGITIGNALRRILLSSLPGVAVYAVRIDG 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 GVLGTMGLFLGMN 320 L + L L N Sbjct: 301 QKLNELDLKLKPN 313 >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 = 335 bits (860), Expect = 5e-90, 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-IECVERS-EDNTYAKFVIEPLERGYGITLGNSLRRILLSSLPGSAVTSVKIEG 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|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 = 335 bits (860), Expect = 5e-90, 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 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 NETAKIEIELIVERGRGYVPATVTATGGE-IGRIPVDQIYSPVLKVSYKVEATRVEQRTD 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|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 (859), Expect = 6e-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|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 = 335 bits (859), Expect = 6e-90, Method: Composition-based stats. Identities = 137/311 (44%), Positives = 201/311 (64%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ +P IE V + + EPL RGF TLGN+LRRVL+SSL GAAI+ ++IDG Sbjct: 3 EIERPR-IE-CVERTPDNRYGKFVIEPLERGFGITLGNSLRRVLLSSLPGAAISTIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED T+IILN+K + L+ D K V + +RGP V AGDI +IE+ Sbjct: 61 VLHEFSTIPGVVEDTTEIILNLKQVVLRYDYDQPKTVFVEQRGPKEVKAGDIIRDAEIEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I L+ D + ME+TV +G GYV A + + + IGLI ID++++PI KV++TV Sbjct: 121 LNPELHIATLNEDGRLAMEMTVERGRGYVSADQKKKDENVIGLIPIDSIFTPINKVNFTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+AR G+V DYD+L + + T+GSI+ E++V+L++ IL D L +F + V+ + Sbjct: 181 ENARVGRVTDYDRLMLEVWTNGSISPEEAVSLSAHILIDHLKLFTEINDSYSPVEILVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L +EELELSVR++N L+ NI +GDL+++T +M ++ N G+KSL EI+ Sbjct: 241 EEDQKDKILDMSIEELELSVRASNGLKRANINTVGDLVEKTREEMSKIRNLGQKSLDEIE 300 Query: 308 GVLGTMGLFLG 318 L +GL Sbjct: 301 RKLKELGLSFK 311 >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 = 335 bits (859), Expect = 6e-90, Method: Composition-based stats. Identities = 147/333 (44%), Positives = 213/333 (63%), Gaps = 11/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q +KP ++ + + T + EPL RGF HTLGNALRR+L+SS+ G AI Sbjct: 1 MQ--VSNFLKPRIVDVQRIN---DYATKVTLEPLERGFGHTLGNALRRILLSSMPGCAII 55 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 QIDGVLHE ++ +GV ED+T+I+LN+KG+ +K+ G + + +GP VTAGDIQ Sbjct: 56 EAQIDGVLHEYTTKEGVQEDMTEILLNLKGVAVKLHGRDEVTLNLSSKGPVTVTAGDIQL 115 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 178 +D+EV+NP+HVI +L + + + V +G GY A + IG + +DA +S Sbjct: 116 EHDVEVINPEHVIAHLTKSGELNLTMKVVRGRGYQSASMRIPKEEDERSIGHLILDASFS 175 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI++V+Y V+SAR Q D DKL + I+T+G+I +++V A+ ILQDQL F+ E Sbjct: 176 PIRRVTYEVDSARVEQRTDLDKLIIEIETNGTIAPDEAVRKAATILQDQLTAFVELEGKI 235 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + KE K+ +P LL+ +++LEL+VRS NCL+ ENI Y+GDLIQ+TE ++L+ N Sbjct: 236 ETAKE---KKAAEIDPVLLQPIDDLELTVRSANCLKAENIYYIGDLIQKTEVELLKTPNL 292 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL GL LGM L +WPP + E Sbjct: 293 GKKSLTEIKDVLTLRGLSLGMRLENWPPAGLRE 325 >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 = 335 bits (859), Expect = 6e-90, Method: Composition-based stats. Identities = 128/314 (40%), Positives = 189/314 (60%), Gaps = 3/314 (0%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V+ E+ R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+IDGV H Sbjct: 26 RPTLTEEVVV---EDRRSRFVLEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRIDGVPH 82 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +I GV ED+ IILNIK I L D + + K GP VTAGDI +E+ NP Sbjct: 83 EFRTIPGVKEDVAQIILNIKEIVLSSENDEPVVMYLRKSGPSEVTAGDITPPAGVEIHNP 142 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 + VI L+ + +ELTV +G GYV A ++ N I I +D++YSP+KKVSY+VE+ Sbjct: 143 ELVIATLNEKGKLEIELTVERGRGYVSANQNKDPNAEISRIPVDSIYSPVKKVSYSVEAT 202 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T SIT D++A A + L + G+ + ++ + Sbjct: 203 RVEQRTDFDRLIVDVETKSSITPRDALASAGKTLVELFGLARELNVEAEGIEVGPSPIDE 262 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 F L ++EL+L RS+N L+ E I +G+L+ R+EAD+L + NFG KS+ EIK L Sbjct: 263 AFQQDLALMIDELDLQARSSNALKREGIHTVGELVSRSEADLLDIRNFGAKSISEIKDKL 322 Query: 311 GTMGLFLGMNLPDW 324 +GL L + D+ Sbjct: 323 AELGLSLKGSPVDY 336 >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 = 335 bits (859), Expect = 7e-90, Method: Composition-based stats. Identities = 135/313 (43%), Positives = 197/313 (62%), Gaps = 2/313 (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 GVLGTMGLFLGMN 320 L MGL L Sbjct: 301 HKLAEMGLSLSQE 313 >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 = 335 bits (858), Expect = 8e-90, Method: Composition-based stats. Identities = 133/314 (42%), Positives = 205/314 (65%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + +++ + EPL RG+ TLGN+LRR+++SSL GAAI++V+IDG Sbjct: 3 DFNKPN-IEITDVS-DDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAISSVKIDG 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 VEIKGVLGTMGLFL 317 E+ L + L L Sbjct: 301 EEVLAKLKELNLEL 314 >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 = 335 bits (858), Expect = 8e-90, 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-IEIAEIS-ADRTYGKFVVEPLERGYGTTIGNSLRRIMLSSLPGAAVTNVKIEN 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|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 = 335 bits (858), Expect = 8e-90, Method: Composition-based stats. Identities = 125/330 (37%), Positives = 192/330 (58%), Gaps = 5/330 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V E+R+ + EPL GF +TLGN++RR L+SS+ GAA+T++++DGVLH Sbjct: 6 RPTLTEEVV----GEHRSRFVIEPLEPGFGYTLGNSIRRTLLSSIPGAAVTSIKVDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED T +ILN+K + + D + + K+GPG VTA DI +EV NP Sbjct: 62 EFSTVAGVKEDATQLILNLKDLVVSSEHDEPVTMYLRKQGPGDVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ + MEL V +G GYV A +++ + IG + +D++YSP+ KV+Y VE+ Sbjct: 122 DLKIATLNEKGRLEMELVVERGRGYVSAIQNKSADAEIGRMPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T S+ D+VA A + L + G+ + + + Sbjct: 182 RVEQRTDFDRLVVDVETKPSMLPRDAVASAGKTLVELFGLARELNVEAEGIDIGPSPVDE 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L VE+L+L+VRS NCL+ E I +G+LI R+E D+L + NFG KS+ E+K L Sbjct: 242 QMAADLALPVEDLQLTVRSYNCLKREGIHTVGELISRSEQDLLDIRNFGSKSIDEVKLKL 301 Query: 311 GTMGLFLGMNLPDWP-PESIEELAKKYEDK 339 MGL L + P + + E ED+ Sbjct: 302 AEMGLSLKDSPPGFDLRAAAEAYGDDAEDE 331 >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 = 335 bits (858), Expect = 9e-90, Method: Composition-based stats. Identities = 129/314 (41%), Positives = 189/314 (60%), Gaps = 3/314 (0%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V+ E+ R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+IDGV H Sbjct: 6 RPTLTEEVVV---EDRRSRFVLEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRIDGVPH 62 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +I GV ED+ IILNIK I L D + + K GP VTAGDI +E+ NP Sbjct: 63 EFRTIPGVKEDVAQIILNIKEIVLSSENDEPVVMYLRKSGPSEVTAGDITPPAGVEIHNP 122 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D VI L+ + +ELTV +G GYV A ++ N I I +D++YSP+KKVSY+VE+ Sbjct: 123 DLVIATLNEKGKLEIELTVERGRGYVSANQNKDPNAEISRIPVDSIYSPVKKVSYSVEAT 182 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T SIT D++A A + L + G+ + ++ + Sbjct: 183 RVEQRTDFDRLIVDVETKSSITPRDALASAGKTLVELFGLARELNVEAEGIEVGPSPIDE 242 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 F L ++EL+L RS+N L+ E I +G+L+ R+EAD+L + NFG KS+ EIK L Sbjct: 243 AFQQDLALMIDELDLQARSSNALKREGIHTVGELVSRSEADLLDIRNFGAKSISEIKDKL 302 Query: 311 GTMGLFLGMNLPDW 324 +GL L + D+ Sbjct: 303 AELGLSLKGSPVDY 316 >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 = 335 bits (858), Expect = 9e-90, Method: Composition-based stats. Identities = 136/311 (43%), Positives = 203/311 (65%), Gaps = 3/311 (0%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + KP IE V E+ I EPL RG+ TLGN+LRR+L+SSL G A+T+V+IDGV Sbjct: 3 IEKPR-IE-CVETNEDNTYGKFIVEPLERGYGITLGNSLRRILLSSLPGVAVTSVKIDGV 60 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S++ GV ED+TDIILN+K + LKM G+ K + I +G G V AGDI +D+E+ Sbjct: 61 LHEFSTVPGVREDVTDIILNLKSLRLKMHGEADEKILRIEAQGEGEVRAGDIVPDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L + + M++T+++G GY A+ ++ IG+I ID++++P+ KV+Y+V Sbjct: 121 LNPDMYIATLAANGRLSMDITIARGRGYFSAERNKKGEPIIGVIPIDSIFTPVYKVNYSV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ DYDKLS+ I TDGSI +++ +LA++I+ + L +FI E K+V+ + Sbjct: 181 ENTRVGQRTDYDKLSIEIWTDGSIHPDEAASLAAKIMSEHLQLFIGLTEETKDVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + + +EEL+LSVRS NCL+ I + +LIQR E DM+++ N G+KSL E+ Sbjct: 241 EEEKKDKIMEMTIEELDLSVRSYNCLKRACINTVEELIQRNEEDMMKVRNLGKKSLEEVI 300 Query: 308 GVLGTMGLFLG 318 L +G+ L Sbjct: 301 QKLNELGVSLK 311 >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 = 334 bits (857), Expect = 9e-90, Method: Composition-based stats. Identities = 123/314 (39%), Positives = 186/314 (59%), 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 LNDDGRLNMELVVERGRGYVPAAMNN-DVAEIGRIPVDQIYSPVLKVSYKVEATRVEQRT 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|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 = 134/314 (42%), Positives = 201/314 (64%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 13 DFEKPN-IEIAEIS-EDKRYGKFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 70 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 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 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 311 EEVLAKLKELGLQL 324 >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 = 334 bits (857), Expect = 1e-89, Method: Composition-based stats. Identities = 135/316 (42%), Positives = 206/316 (65%), Gaps = 5/316 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + +PN IE + +++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+I+G Sbjct: 3 DFERPN-IEVAEIS-DDKKYGKFVVEPLERGYGITLGNSLRRIMLSSLPGAAVSQVKIEG 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 EIKGVLGTMGLFLGMN 320 E+ L +GL L + Sbjct: 301 EVLAKLDELGLSLRQD 316 >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 = 334 bits (857), Expect = 1e-89, 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|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 = 334 bits (857), Expect = 1e-89, 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|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 = 334 bits (857), Expect = 1e-89, Method: Composition-based stats. Identities = 127/307 (41%), Positives = 190/307 (61%), Gaps = 3/307 (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 IG I +D +YSP+ +VSY VE+ R Q D+DKL + Sbjct: 135 DMELVVERGRGYVPAAPTSGE---IGRIPVDQIYSPVLQVSYKVEATRVEQRTDFDKLII 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 WPPESIE 330 + P +E Sbjct: 312 FDPTQLE 318 >gi|329314907|gb|AEB89320.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus T0131] Length = 314 Score = 334 bits (857), Expect = 1e-89, 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|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 = 334 bits (856), Expect = 1e-89, Method: Composition-based stats. Identities = 136/311 (43%), Positives = 200/311 (64%), Gaps = 4/311 (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 GVLGTMGLFLG 318 L +GL Sbjct: 299 NKLTELGLSFS 309 >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 = 334 bits (856), Expect = 1e-89, Method: Composition-based stats. Identities = 126/307 (41%), Positives = 188/307 (61%), Gaps = 3/307 (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 IG I +D +YSP+ KVSY VE+ R Q D+DKL + Sbjct: 135 EMELVVERGRGYVPAAATSGE---IGRIPVDQIYSPVLKVSYKVEATRVEQRTDFDKLII 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 WPPESIE 330 + P +E Sbjct: 312 FDPTQLE 318 >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 (856), Expect = 1e-89, Method: Composition-based stats. Identities = 136/311 (43%), Positives = 200/311 (64%), Gaps = 4/311 (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 GVLGTMGLFLG 318 L +GL Sbjct: 299 NKLTELGLSFS 309 >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 = 334 bits (856), Expect = 1e-89, Method: Composition-based stats. Identities = 127/312 (40%), Positives = 183/312 (58%), Gaps = 3/312 (0%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + +R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+I+GVLHE +++ GV Sbjct: 10 TEEYIDSSRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRIEGVLHEFTTVPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED++DIILNIKG+ L D + I K GPG VTAGDI +E+ NPD I L+ Sbjct: 70 TEDVSDIILNIKGLVLSSDSDDPVTMYIRKEGPGEVTAGDIMPPAGVEIHNPDMHIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL V +G GYVPA E IG I +D +YSP+ KVSY VE+ R Q D+ Sbjct: 130 EQGKLDIELVVERGRGYVPAAQATGE---IGRIPVDQIYSPVLKVSYKVEATRVEQRTDF 186 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 D+L + ++T SIT D++A A L + G+ + ++ + + A Sbjct: 187 DRLVIDVETKNSITARDAMASAGGTLVELFGLARELNTAAEGIEIGPSPQESEHIQAYGM 246 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L SVRS NCL+ E I +G+L RTE+D+L + NFG+KS+ E+K L +GL L Sbjct: 247 PIEDLNFSVRSYNCLKREEIHTVGELASRTESDLLDIRNFGQKSINEVKVKLAGLGLALK 306 Query: 319 MNLPDWPPESIE 330 + IE Sbjct: 307 DAPEGYDVSEIE 318 >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 = 334 bits (856), Expect = 2e-89, Method: Composition-based stats. Identities = 135/316 (42%), Positives = 206/316 (65%), Gaps = 6/316 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAAI++V+IDG Sbjct: 3 DFNKPN-IEITEIS-EDKKYGKFVVEPLERGYGITLGNSLRRIMLSSLPGAAISSVKIDG 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 VEIKGVLGTMGLFLGM 319 E+ L + L L Sbjct: 301 EEVLAKLKELNLELNQ 316 >gi|1524340|emb|CAA63080.1| RNA polymerase alpha subunit [Streptomyces coelicolor A3(2)] Length = 339 Score = 334 bits (856), Expect = 2e-89, Method: Composition-based stats. Identities = 127/316 (40%), Positives = 192/316 (60%), Gaps = 5/316 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLH Sbjct: 6 RPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV NP Sbjct: 62 EFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLSKQGPGLVTAADIAPPAGVEVHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVLATLNGKGKLEMELTVERGRGYVSAVQNKEVGQEIGRIPVDSIYSPVLKVTYKVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+DKL + ++T ++ ++A A + L + G+ + + + Sbjct: 182 RVEQRTDFDKLIVDVETKQAMRPR-AMASAGKTLVELFGLARELNIDAEGIDMGPSPTDA 240 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L Sbjct: 241 ALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAKL 300 Query: 311 GTMGLFLGMNLPDWPP 326 MGL L + P + P Sbjct: 301 AGMGLALKDSPPGFDP 316 >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 = 334 bits (856), Expect = 2e-89, Method: Composition-based stats. Identities = 120/311 (38%), Positives = 196/311 (63%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP ++ + L E+ + EPL RGF T+GNALRR+L+SSL G A+ A++IDG Sbjct: 3 EIEKP-KVDIVELS-EDYRFGKFVVEPLERGFGITVGNALRRILLSSLPGVAVYAIRIDG 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 GVLGTMGLFLG 318 L + L L Sbjct: 301 HKLEELELRLK 311 >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 = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 147/333 (44%), Positives = 214/333 (64%), Gaps = 11/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q +KP ++ + + T + EPL RGF HTLGNALRR+L+SS+ G AI Sbjct: 1 MQ--VSNFLKPRIVDVQRIN---DYATKVTLEPLERGFGHTLGNALRRILLSSMPGCAII 55 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 QIDGVLHE ++ +GV ED+T+I+LN+KG+ +K+ G +++ +GP VTAGDIQ Sbjct: 56 EAQIDGVLHEYTTKEGVQEDMTEILLNLKGVAIKLHGRDEVTLSLSSKGPVTVTAGDIQL 115 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 +D+EV+NP HVI +L + + + V +G GY PA + IG + +DA +S Sbjct: 116 EHDVEVINPKHVIAHLTKSGELNLTMKVVRGRGYQPASVRIPKEEDERSIGHLILDASFS 175 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI++V+Y V+SAR Q D DKL + I+T+G+I +++V A+ ILQDQL F+ E Sbjct: 176 PIRRVTYEVDSARVEQRTDLDKLIIEIETNGTIAPDEAVRKAATILQDQLTAFVELEGRI 235 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + KE K+ +P LL+ +++LEL+VRS NCL+ ENI Y+GDLIQ+TE ++L+ N Sbjct: 236 ETAKE---KKAAEIDPVLLQPIDDLELTVRSANCLKAENIYYIGDLIQKTEVELLKTPNL 292 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL GL LG+ L +WPP + E Sbjct: 293 GKKSLTEIKDVLTLRGLSLGIRLENWPPAGLRE 325 >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 = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 120/312 (38%), Positives = 186/312 (59%), Gaps = 1/312 (0%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV Sbjct: 10 TEEYVDSARSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTINGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED++DIILNIKG+ L D + + K G GV+TAGDI+ +E+ NPD + L+ Sbjct: 70 KEDVSDIILNIKGLVLSSDSDEPVVMYLRKEGAGVITAGDIEPPAGVEIHNPDLHLATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +E+ V +G GYVPA + IG I +D +YSP+ KVSY VE+ R Q D+ Sbjct: 130 EQGRLDIEMIVERGRGYVPATLYSGP-AEIGRIPVDQIYSPVLKVSYKVEATRVEQRTDF 188 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T S+ D++A A + L + G+ + ++ + + + A Sbjct: 189 DKLIIDVETKNSMAPRDALASAGKTLVELFGLARELNTAAEGIEIGPSPQETEYIAAYGM 248 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L +GL L Sbjct: 249 PIEDLNFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIKLAGLGLTLK 308 Query: 319 MNLPDWPPESIE 330 D+ P ++ Sbjct: 309 DAPEDFDPTQLD 320 >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 = 333 bits (854), Expect = 2e-89, Method: Composition-based stats. Identities = 121/316 (38%), Positives = 189/316 (59%), Gaps = 7/316 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E I+P + + + + + EPL RG+ TLGN+LRRVL+SSL GAA+ A+QI Sbjct: 1 MSEFIRPQ----VHVEEISDTAARVSVEPLERGYGDTLGNSLRRVLLSSLEGAAVEAIQI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLK-MSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 DG HE ++I + ED+TDI+LN+KG+ + + TI GP VT D ++ Sbjct: 57 DGAQHEFTTIPNMVEDVTDIVLNVKGLVFRTLGTTDEGTATISVDGPCEVTGADFFIPSE 116 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 E++NPD I L + M + + G GYV + ++ +NDPIG+I +D+L+SP+K+ + Sbjct: 117 FELVNPDQHIATLTEGGHLTMSMRIGYGRGYVSYEQNKRDNDPIGIIHVDSLFSPVKRCA 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF-EEPKKEVKE 243 VE+ R GQ DYD+L + I+T+G+I+ D+V A+ I+ + F+ +EP+ E + Sbjct: 177 KLVEACRVGQHTDYDRLVLEIETNGAISPRDAVVSAANIINQHMAAFMTLADEPEAEEEV 236 Query: 244 DINVKSLPFNPALLKK-VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 I + + A L K +E+L+LSVRS NCL+ I + L++ +E D+L + NFG KS Sbjct: 237 SIFAPEVTSDNAELDKQIEDLDLSVRSYNCLKRAGIHSVRQLVEFSENDLLNIRNFGVKS 296 Query: 303 LVEIKGVLGTMGLFLG 318 + E+K L +MGL L Sbjct: 297 IEEVKDKLESMGLSLK 312 >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 = 129/314 (41%), Positives = 199/314 (63%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP IE + E+ + EPL RG+ TLGN+LRR+++SSL GAA++ V+I+G Sbjct: 59 DFNKPR-IEIAEIS-EDRKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIEG 116 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 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 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 357 EEVLAKLKELGLQL 370 >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 = 333 bits (854), Expect = 3e-89, 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-KIEITELS-EDKKFGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 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|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 = 333 bits (854), Expect = 3e-89, Method: Composition-based stats. Identities = 138/315 (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-IEITEIS-EDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAISHVKIDG 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 VEIKGVLGTMGLFLG 318 E+ L +GL L Sbjct: 301 EEVLAKLKELGLELS 315 >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 = 333 bits (853), Expect = 3e-89, Method: Composition-based stats. Identities = 147/332 (44%), Positives = 221/332 (66%), Gaps = 9/332 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 +L+ P I+ + ++ EP RG+ HTLGNALRR+L+SS+ G A T ++I Sbjct: 4 TDLLTPRIIDVQNISPL---HAKVVMEPFERGYGHTLGNALRRILLSSMTGYAPTEIKIA 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 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKV 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 PQ---APQIDPILLRPVDDLELTVRSANCLKVENIYYIGDLIQRTEAELLRTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 EIK VL + L LGM L +WPP +++ ++K+ Sbjct: 298 NEIKEVLASRELTLGMKLDNWPPANLDSVSKE 329 >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 = 333 bits (853), Expect = 3e-89, Method: Composition-based stats. Identities = 145/330 (43%), Positives = 221/330 (66%), Gaps = 9/330 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 ++++P + L ENR ++ EPL RG+AHTLGNALRRVL+SS+ G AIT V+I Sbjct: 5 VSQVLRPRGPQIERL---TENRAKVVLEPLGRGYAHTLGNALRRVLLSSIPGFAITEVEI 61 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGVLHE ++++G+ ED+ +++LN+K + +++ +++FK+G GVVTA DI+T +++ Sbjct: 62 DGVLHEYTTVEGLQEDVLEVLLNLKDVAIRIHSGDTATLSLFKQGAGVVTAADIKTDHNV 121 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYSPIKK 182 E++N HVIC+L D + M L + +G GY PA R EN IG + +DA +SP+++ Sbjct: 122 EIINDGHVICHLTKDTTINMRLKIERGFGYQPAVVRRRPDDENRTIGRLILDASFSPVRR 181 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+Y VE+AR Q D DKL + I+T+G+I E+++ A+ IL DQL +F NF + Sbjct: 182 VAYVVEAARVEQRTDLDKLIIDIETNGTIDAEEALRTAADILTDQLSVFGNFTHRDRGT- 240 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + S +P LL+ +++LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KS Sbjct: 241 --VKPASSGVDPVLLRPIDDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKS 298 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEEL 332 L EIK VLG GL LG+ L +WPP + + Sbjct: 299 LTEIKEVLGQRGLGLGVKLENWPPPGVSQY 328 >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 = 332 bits (852), Expect = 4e-89, Method: Composition-based stats. Identities = 133/314 (42%), Positives = 198/314 (63%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP I +++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFNKPKI--QITEMSDDKRYGKFVVEPLERGYGITLGNSLRRIMLSSLPGAAVSQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+N+K + +K + 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 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 301 EEVLAKLKELGLQL 314 >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 = 332 bits (852), Expect = 4e-89, Method: Composition-based stats. Identities = 135/316 (42%), Positives = 207/316 (65%), Gaps = 6/316 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + +++ + EPL RG+ TLGN+LRR+++SSL GAAI+ ++IDG Sbjct: 3 DFNKPN-IEIAEIS-DDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAISQIKIDG 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 VEIKGVLGTMGLFLGM 319 E+ L +GL L Sbjct: 301 EEVLAKLKELGLELSQ 316 >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 = 332 bits (852), Expect = 4e-89, Method: Composition-based stats. Identities = 112/297 (37%), Positives = 183/297 (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 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 EL+LSVRS NCL+ I + DL ++E DM+++ N G+KSL E+K L +GL Sbjct: 255 ELDLSVRSYNCLKRAGIQTVQDLAAKSEDDMIKVRNLGKKSLKEVKEKLVELGLGFK 311 >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 = 332 bits (852), Expect = 4e-89, Method: Composition-based stats. Identities = 122/319 (38%), Positives = 186/319 (58%), Gaps = 3/319 (0%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I G Sbjct: 11 EESLSDTRSRFSIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTIPGAK 70 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+ +++LN+K + + D + + K+GPG VTAGDIQ + + V NP+ + L+ Sbjct: 71 EDVVELVLNVKQLCVSSELDEPVTMYLRKQGPGDVTAGDIQPPSGVTVHNPELKLATLNG 130 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + MEL V +G GYV A ++ IG I +D++YSP+ KVSY VE+ R Q D+D Sbjct: 131 KGRLDMELIVERGRGYVSAAQNKQAGAGIGRIPVDSIYSPVVKVSYRVEATRVEQRTDFD 190 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + ++T S ++A A L + G++ + + + + L Sbjct: 191 KLIIDVETKPSTGPRTALASAGSTLVELFGLYRELDSAAEGIDVGPSPADAQLAADLALP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +EELEL+VRS NCL+ E + +G+LI RTEAD+L + NFG+KS+ E+K L +GL L Sbjct: 251 IEELELTVRSYNCLKREGVDQVGELINRTEADLLDIRNFGQKSIDEVKMKLAGLGLALKD 310 Query: 320 NLPDWPPESIEELAKKYED 338 + + P E A Y+D Sbjct: 311 SPGTFDPA---EAAAAYDD 326 >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 = 332 bits (852), Expect = 4e-89, Method: Composition-based stats. Identities = 144/330 (43%), Positives = 221/330 (66%), Gaps = 9/330 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 ++++P + L ENR ++ EPL RG+AHTLGNALRRVL+SS+ G AIT V+I Sbjct: 5 VSQVLRPRGPQIERL---TENRAKVVLEPLGRGYAHTLGNALRRVLLSSIPGFAITEVEI 61 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGVLHE ++++G+ ED+ +++LN+K + +++ +++FK+G GVVTA DI+T +++ Sbjct: 62 DGVLHEYTTVEGLQEDVLEVLLNLKDVAIRIHSGDTATLSLFKQGAGVVTAADIKTDHNV 121 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYSPIKK 182 E++N HVIC+L D + M L + +G GY PA R EN IG + +DA +SP+++ Sbjct: 122 EIINDGHVICHLTKDTTINMRLKIERGFGYQPAVVRRRPDDENRTIGRLILDASFSPVRR 181 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+Y VE+AR Q D DKL + I+T+G+I E+++ A+ IL DQL +F +F + Sbjct: 182 VAYVVEAARVEQRTDLDKLIIDIETNGTIDAEEALRTAADILTDQLSVFGDFTHRDRGT- 240 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + S +P LL+ +++LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KS Sbjct: 241 --VKPASSGVDPVLLRPIDDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKS 298 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEEL 332 L EIK VLG GL LG+ L +WPP + + Sbjct: 299 LTEIKEVLGQRGLGLGVKLENWPPPGVSQY 328 >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 = 332 bits (851), Expect = 5e-89, Method: Composition-based stats. Identities = 129/316 (40%), Positives = 203/316 (64%), Gaps = 5/316 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 ++I+P IE + L + + + +AEPL RGF TLGN+LRRVL+SSL G A+ +V+IDG Sbjct: 3 KIIEP-KIETVEL-KSDGSYGKFVAEPLDRGFGTTLGNSLRRVLLSSLPGVAVISVKIDG 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 EIKGVLGTMGLFLGMN 320 E+ L ++G L + Sbjct: 301 EVIWKLQSLGFDLSKD 316 >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 = 332 bits (851), Expect = 5e-89, Method: Composition-based stats. Identities = 137/316 (43%), Positives = 207/316 (65%), Gaps = 6/316 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFQKP-KIEIAEIS-EDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 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 VEIKGVLGTMGLFLGM 319 E+ L +GL L Sbjct: 301 EEVLAKLKELGLQLNQ 316 >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 = 332 bits (851), Expect = 5e-89, Method: Composition-based stats. Identities = 137/314 (43%), Positives = 206/314 (65%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFEKPN-IEIAEIS-EDKKYGKFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDI 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 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 301 EEVLAKLKELGLQL 314 >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 = 332 bits (851), Expect = 5e-89, Method: Composition-based stats. Identities = 128/313 (40%), Positives = 206/313 (65%), Gaps = 4/313 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 +++ KP IE L + I EPL RG+ TLGN+LRRVL+SSL G A+T+V+ID Sbjct: 3 EKIEKP-KIETPEL-KSNGTYGKFILEPLERGYGITLGNSLRRVLLSSLPGVAVTSVKID 60 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV HE+S+I GV ED+T+IILN+KG+ K+ G+ K + I G VVTAGDI+ ++++ Sbjct: 61 GVHHELSTIPGVKEDVTEIILNLKGLTAKLYGEGPKTIYIEAEGECVVTAGDIKADSEVD 120 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVS 184 +L PD I L A + ME+T+ +G GYV A+ +++ +N PIG+I +D++YSP+ KV+ Sbjct: 121 ILVPDMHIATLGAGAKLYMEITIDRGRGYVSAEKNKSLMQNAPIGIIAVDSIYSPVLKVN 180 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 YTV++ R G + D+DKL++ + TDG+I+ +++V++A+++L + L F++ E V+ Sbjct: 181 YTVDNTRVGHITDFDKLTLEVWTDGTISAKEAVSMAAKLLNEHLNPFVDLSEETNVVELI 240 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + L +EEL+LSVRS NCL+ I + DLI+++ +M+++ N G+KS Sbjct: 241 VEKDDQGKEKILEMTIEELDLSVRSFNCLKRAGINTVNDLIEKSAEEMMKVRNLGKKSFD 300 Query: 305 EIKGVLGTMGLFL 317 E++ L ++G L Sbjct: 301 EVREKLHSLGYEL 313 >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 = 332 bits (851), Expect = 5e-89, Method: Composition-based stats. Identities = 145/326 (44%), Positives = 220/326 (67%), 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 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYSPIKKVSYT 186 HVIC+L D + M L V +G GY PA R EN IG + +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 = 332 bits (851), Expect = 6e-89, Method: Composition-based stats. Identities = 139/324 (42%), Positives = 211/324 (65%), 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI--NFEEPKKEV 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|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 = 332 bits (851), Expect = 6e-89, Method: Composition-based stats. Identities = 115/297 (38%), Positives = 178/297 (59%) 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 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 EL+LSVRS NCL+ I + +L ++E DM+++ N G+KSL E+K L +GL Sbjct: 255 ELDLSVRSYNCLKRAGIQTVQELAAKSEDDMIKVRNLGKKSLKEVKEKLVELGLGFK 311 >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 = 331 bits (850), Expect = 7e-89, Method: Composition-based stats. Identities = 137/316 (43%), Positives = 204/316 (64%), Gaps = 6/316 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAAI+ V+IDG Sbjct: 3 DFNKPN-IEITEIS-EDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAISQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 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 VEIKGVLGTMGLFLGM 319 E+ L +GL L Sbjct: 301 EEVLAKLKELGLELSQ 316 >gi|206602703|gb|EDZ39184.1| DNA-directed RNA polymerase, alpha subunit [Leptospirillum sp. Group II '5-way CG'] Length = 324 Score = 331 bits (850), Expect = 7e-89, Method: Composition-based stats. Identities = 138/324 (42%), Positives = 211/324 (65%), 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI--NFEEPKKEV 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|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 = 331 bits (850), Expect = 8e-89, Method: Composition-based stats. Identities = 122/313 (38%), Positives = 187/313 (59%), Gaps = 3/313 (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 + IG I ID +YSP+ KVSY VE+ R Q D Sbjct: 129 NDTAKLDMELVVERGRGYVPAAPTSGD---IGRIPIDQIYSPVLKVSYKVEATRVEQRTD 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 GMNLPDWPPESIE 330 D+ P +E Sbjct: 306 KDTPEDFDPTQLE 318 >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 = 331 bits (850), Expect = 8e-89, Method: Composition-based stats. Identities = 129/317 (40%), Positives = 203/317 (64%), Gaps = 6/317 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFEKP-KIEIADIS-EDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 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|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 = 331 bits (849), Expect = 8e-89, Method: Composition-based stats. Identities = 132/308 (42%), Positives = 188/308 (61%), Gaps = 3/308 (0%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E +V EE+ R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+IDGV H Sbjct: 6 RPTLSEEVV---EEDRRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRIDGVPH 62 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +I GV ED+T IILNIK I L D + + K GPGVVTAGDI +E+ NP Sbjct: 63 EFRTIAGVKEDVTQIILNIKEIVLSSENDEPVVMYLRKSGPGVVTAGDITPPAGVEIHNP 122 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D VI NL+ + +ELTV +G GYV A ++ N I I +D++YSP+KKVSY VE+ Sbjct: 123 DLVIANLNEKGKLEIELTVERGRGYVSANQNKDPNGEISRIPVDSIYSPVKKVSYAVEAT 182 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T SIT D++A A + L + G+ + ++ + Sbjct: 183 RVEQRTDFDRLVVDVETKASITPRDALASAGKTLVELFGLARELNVEAEGIEVGPSPMDQ 242 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L ++EL+L RS+N L+ E I +G+L+ R+EAD+L + NFG KS+ EIK L Sbjct: 243 ALQQDLALMIDELDLQARSSNALKREGIHTVGELVARSEADLLDIRNFGAKSISEIKEKL 302 Query: 311 GTMGLFLG 318 +GL L Sbjct: 303 AELGLSLK 310 >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 = 331 bits (849), Expect = 8e-89, Method: Composition-based stats. Identities = 126/307 (41%), Positives = 189/307 (61%), Gaps = 3/307 (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 IG I +D +YSP+ KVSY VE+ R Q D+DKL++ Sbjct: 135 DIELVVERGRGYVPAAPTSGE---IGRIPVDQIYSPVLKVSYKVEATRVEQRTDFDKLTI 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 WPPESIE 330 + P +E Sbjct: 312 FDPTQLE 318 >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 = 331 bits (849), Expect = 9e-89, 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 GHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVP + ++ G + +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 GVISPEEAIRQSARILVDQLSVFAALEG-TESAAEAAAARAPQIDPILLRPVDDLELTVR 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|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 = 331 bits (849), Expect = 9e-89, Method: Composition-based stats. Identities = 127/307 (41%), Positives = 189/307 (61%), Gaps = 3/307 (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 IG I ID +YSP+ KVSY VE+ R Q D+DKL++ Sbjct: 135 DIELVVERGRGYVPAAATSGE---IGRIPIDQIYSPVLKVSYKVEATRVEQRTDFDKLTI 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 WPPESIE 330 + P +E Sbjct: 312 FDPTQLE 318 >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 = 331 bits (848), Expect = 1e-88, 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 DFEKP-KIEIAEIS-EDKRYGKFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 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 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 301 EEVLAKLKELGLQL 314 >gi|326407604|gb|ADZ64675.1| DNA-directed RNA polymerase subunit alpha [Lactococcus lactis subsp. lactis CV56] Length = 312 Score = 331 bits (848), Expect = 1e-88, Method: Composition-based stats. Identities = 127/311 (40%), Positives = 199/311 (63%), Gaps = 4/311 (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 GVLGTMGLFLG 318 L +GL L Sbjct: 299 VKLTELGLSLK 309 >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 = 331 bits (848), Expect = 1e-88, 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-KIEITEIS-EDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 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|157100343|emb|CAP03337.1| RpoA protein [Vibrio aestuarianus] Length = 323 Score = 330 bits (847), Expect = 1e-88, Method: Composition-based stats. Identities = 143/329 (43%), Positives = 214/329 (65%), Gaps = 11/329 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 N G+KSL EIK VL + GL LGM L +WP Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWP 323 >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 = 330 bits (847), Expect = 1e-88, Method: Composition-based stats. Identities = 121/316 (38%), Positives = 192/316 (60%), Gaps = 7/316 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E I+P+ + + + N + AEPL RG+ TLGN+LRRVL+SSL G+A+ A+QI Sbjct: 1 MSEFIRPS----VSVEEIGANAARVSAEPLERGYGDTLGNSLRRVLLSSLEGSAVEAIQI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVND 124 DGV HE +++ GV+ED+TDI+LN+K + + D +I GP VVT DI Sbjct: 57 DGVQHEFTTVDGVYEDVTDIVLNVKCLVFRSLEDIDEAEASITVDGPKVVTGADIDVPTG 116 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 E++NP+ IC L A + M L + KG GYV + + ++DPIG I++D+++SP+++ + Sbjct: 117 FELVNPEQHICTLSDGAHLAMRLRIGKGRGYVSGEDNERDDDPIGFISVDSIFSPVRRCA 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 VE R G+ DYD+L + ++T+G+I+ ++V A+ I+ +G F+ E + ++E Sbjct: 177 KAVEPCRVGRHTDYDRLVLEVETNGAISPREAVVEAANIINQHMGAFMGLSEVDESLEET 236 Query: 245 I--NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + + + L K+VE+L+LSVRS NCL+ I + L+ +E D+L + NFG KS Sbjct: 237 SIFASEDVQDDSELDKQVEDLDLSVRSYNCLKRAGIHSVRQLVDFSENDLLNIRNFGVKS 296 Query: 303 LVEIKGVLGTMGLFLG 318 + E+K L MGL L Sbjct: 297 IEEVKEKLEAMGLSLK 312 >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 = 330 bits (847), Expect = 2e-88, Method: Composition-based stats. Identities = 127/311 (40%), Positives = 199/311 (63%), Gaps = 4/311 (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 GVLGTMGLFLG 318 L +GL L Sbjct: 299 VKLTELGLSLK 309 >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 = 330 bits (847), Expect = 2e-88, 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|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 = 330 bits (847), Expect = 2e-88, Method: Composition-based stats. Identities = 116/297 (39%), Positives = 182/297 (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 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 EL+LSVRS NCL+ I + DL ++E DM+++ N G+KSL E+K L +GL Sbjct: 255 ELDLSVRSYNCLKRAGIQTVQDLAAKSEDDMIKVRNLGKKSLKEVKEKLVELGLGFK 311 >gi|319442995|ref|ZP_07992151.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium variabile DSM 44702] Length = 337 Score = 330 bits (846), Expect = 2e-88, Method: Composition-based stats. Identities = 124/312 (39%), Positives = 180/312 (57%), Gaps = 3/312 (0%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++I+GVLHE ++I GV Sbjct: 10 TEEYISPARSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIEGVLHEFTTIPGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED++DIILNIK + + D + I K G G VT D+ +EV NPD I L+ Sbjct: 70 KEDVSDIILNIKALVISSDSDEPVTMYIRKEGLGEVTGADVVVPAGVEVHNPDLHIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL V +G GYVPA E IG I +D +YSP+ KVSY VE+ R Q D+ Sbjct: 130 EQGKLDIELVVERGRGYVPAAATTGE---IGRIPVDQIYSPVLKVSYKVEATRVEQRTDF 186 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T SIT D++A A L + G+ + ++ + + A Sbjct: 187 DKLVLDVETKNSITARDAIASAGGTLVELFGLARELNTEAEGIEIGPSPQETEHIAAYSL 246 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L+ SVRS NCL+ E+I +G+L RTE+D+L + NFG+KS+ E+K L +GL L Sbjct: 247 PIEDLDFSVRSYNCLKREDIHTVGELAARTESDLLDIRNFGQKSINEVKVKLAELGLGLK 306 Query: 319 MNLPDWPPESIE 330 + SIE Sbjct: 307 DAPEGFDINSIE 318 >gi|73913591|gb|AAZ91712.1| RNA polymerase alpha subunit [Corynebacterium stationis] Length = 334 Score = 330 bits (846), Expect = 2e-88, Method: Composition-based stats. Identities = 122/313 (38%), Positives = 187/313 (59%), Gaps = 3/313 (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 + IG I ID +YSP+ KVSY VE+ R Q D Sbjct: 129 NDTAKLDMELVVERGRGYVPAAPTSGD---IGRIPIDQIYSPVLKVSYKVEATRVEQRTD 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 GMNLPDWPPESIE 330 D+ P +E Sbjct: 306 KDTPEDFDPTQLE 318 >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 = 330 bits (846), Expect = 2e-88, Method: Composition-based stats. Identities = 161/346 (46%), Positives = 238/346 (68%), Gaps = 12/346 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 N +LIKP++++ + + ++ ++ EPL GFA TLGNALRRV++SSL+G+A+ + Sbjct: 11 SNLDKLIKPSSVKVV--SDDSSEKSDIVLEPLESGFALTLGNALRRVMLSSLKGSAVYGI 68 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+GV HE +SI+GV ED+TDI+LN+ + K++G S+K + + +GP V AG I+T + Sbjct: 69 KIEGVTHEFTSIQGVREDVTDIVLNMGMLRCKLNGASNKCLNLNAKGPCQVLAGMIETDD 128 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--------TENDPIGLITIDA 175 ++N D +IC L + + M + V+ G GY+P ++ +E D IG I ++A Sbjct: 129 QCSIVNKDLLICTLGQNVELNMTIYVASGKGYLPVTKYKENELLKLMSEQDLIGFIPVNA 188 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI--N 233 LYSP+ +VSY VE++R GQV D DKL ++I+TDG+I+ +V A+RILQ+QL FI + Sbjct: 189 LYSPVNRVSYRVENSRVGQVTDKDKLILSIETDGTISPSQAVDSAARILQEQLQPFISSD 248 Query: 234 FEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 K +V K L ++P LL+KV+E+ELSVRS NCL+ ENI Y+GDL+Q+TE +ML Sbjct: 249 VSYKKSQVSSSSGAKDLGYDPVLLRKVDEMELSVRSHNCLKNENITYIGDLVQKTEGEML 308 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 R ANFGRKSL EIK VL GL LGMN+ +WPP+ I+ELAK++ D+ Sbjct: 309 RTANFGRKSLNEIKAVLTNFGLSLGMNVLNWPPKDIDELAKQHTDE 354 >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 = 330 bits (846), Expect = 2e-88, Method: Composition-based stats. Identities = 124/307 (40%), Positives = 184/307 (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 IG I +D +YSP+ KVSY VE+ R Q D+DKL + Sbjct: 135 EIEMTVERGRGYVPAATASSE---IGRIPVDQIYSPVLKVSYKVEATRVEQRTDFDKLIL 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|300932966|ref|ZP_07148222.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium resistens DSM 45100] Length = 337 Score = 330 bits (846), Expect = 2e-88, Method: Composition-based stats. Identities = 126/314 (40%), Positives = 183/314 (58%), 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 IG I +D +YSP+ KVSY VE+ R Q Sbjct: 128 LNEQGKLDIELVVERGRGYVPAATASSE---IGRIPVDQIYSPVLKVSYKVEATRVEQRT 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|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 = 330 bits (846), Expect = 2e-88, Method: Composition-based stats. Identities = 134/317 (42%), Positives = 209/317 (65%), Gaps = 6/317 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFEKP-KIEIAEIS-EDKTYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 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 VEIKGVLGTMGLFLGMN 320 E+ L +GL L Sbjct: 301 EEVLAKLKELGLELNQT 317 >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 = 330 bits (846), Expect = 2e-88, Method: Composition-based stats. Identities = 162/346 (46%), Positives = 238/346 (68%), Gaps = 12/346 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 N +LIKP++++ I + ++ ++ EPL GFA TLGNALRRV++SSL+G+A+ + Sbjct: 11 SNLDKLIKPSSVKVI--SDDSSEKSDIVLEPLESGFALTLGNALRRVMLSSLKGSAVYGI 68 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+GV HE +SI+GV ED+TDI+LN+ + K++G S+K + + +GP V AG I+T + Sbjct: 69 KIEGVTHEFTSIQGVREDVTDIVLNMGMLRCKLNGASNKCLNLNAKGPCQVLAGMIETDD 128 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--------TENDPIGLITIDA 175 ++N D +IC L + + M + V+ G GY+P ++ +E D IG I ++A Sbjct: 129 QCSIVNKDLLICTLGQNVELNMTIYVASGKGYLPVTKYKENELLKLMSEQDLIGFIPVNA 188 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI--N 233 LYSP+ +VSY VE++R GQV D DKL ++I+TDG+I+ +V A+RILQ+QL FI + Sbjct: 189 LYSPVNRVSYRVENSRVGQVTDKDKLILSIETDGTISPSQAVDSAARILQEQLQPFISSD 248 Query: 234 FEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 K +V K L ++P LL+KV+E+ELSVRS NCL+ ENI Y+GDL+Q+TE +ML Sbjct: 249 VSYKKSQVSSSSGAKDLGYDPVLLRKVDEMELSVRSHNCLKNENITYIGDLVQKTEGEML 308 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 R ANFGRKSL EIK VL GL LGMN+ +WPP+ I+ELAK++ D+ Sbjct: 309 RTANFGRKSLNEIKAVLTNFGLSLGMNVLNWPPKDIDELAKQHTDE 354 >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 = 330 bits (846), Expect = 2e-88, Method: Composition-based stats. Identities = 171/341 (50%), Positives = 233/341 (68%), 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+E + Sbjct: 183 PVRRVSYKVENSMVGQMTNYDKLIITVETNGVVNPDAALGLAARILLDQLQVFINFQEVE 242 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +E E + ++++ NP LLKKV ELELSVRS NCL+ ENIVY+GDL+ RTE ML+ ANF Sbjct: 243 EEKPEKLELQTI--NPVLLKKVYELELSVRSQNCLKNENIVYVGDLVARTETQMLKTANF 300 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 GRKSL E+K VL L GM WPP+++E LAKK+ED+ Sbjct: 301 GRKSLNELKKVLANFNLEFGMKDIGWPPDNLESLAKKHEDQ 341 >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 = 330 bits (846), Expect = 2e-88, Method: Composition-based stats. Identities = 172/341 (50%), Positives = 233/341 (68%), 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+E + Sbjct: 183 PVRRVSYKVENSMVGQMTNYDKLIITVETNGVVNPDAALGLAARILLDQLQVFINFQEVE 242 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +E E + ++++ NP LLKKV ELELSVRS NCL+ ENIVY+GDL+ RTE ML+ ANF Sbjct: 243 EEKPEKLELQTI--NPVLLKKVYELELSVRSQNCLKNENIVYVGDLVARTETQMLKTANF 300 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 GRKSL E+K VL L GM WPPE++E LAKK+ED+ Sbjct: 301 GRKSLNELKKVLANFNLEFGMKDIGWPPENLESLAKKHEDQ 341 >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 = 330 bits (845), Expect = 2e-88, Method: Composition-based stats. Identities = 133/317 (41%), Positives = 203/317 (64%), Gaps = 7/317 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL G+AI++V+IDG Sbjct: 3 DFNKPN-IEITDVS-EDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGSAISSVKIDG 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 LVEIKGVLGTMGLFLGM 319 L E+ L + L L Sbjct: 301 LEEVLAKLKELNLELNQ 317 >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 = 330 bits (845), Expect = 2e-88, Method: Composition-based stats. Identities = 127/311 (40%), Positives = 199/311 (63%), Gaps = 4/311 (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 GVLGTMGLFLG 318 L +GL L Sbjct: 299 VKLTELGLSLK 309 >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 = 330 bits (845), Expect = 3e-88, Method: Composition-based stats. Identities = 127/311 (40%), Positives = 190/311 (61%), Gaps = 5/311 (1%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P+ +E I + N +AEP G+ HTLGN+LRRVL+ SL GAAIT+V+I G HE Sbjct: 23 PSRLEKIE-DPNDANHLTFVAEPFENGYGHTLGNSLRRVLLGSLEGAAITSVRIAGAQHE 81 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 SS+ GV ED+T+I+LN+K + K +G + +++ GVVTA DI +V+NPD Sbjct: 82 FSSLPGVVEDVTEIVLNLKKVKFKHNGKEPRLLSLRVHKQGVVTAADIADDTVYQVVNPD 141 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 +IC LD D + E V G G+ ++ + PIG+I ID+++SP+ +V Y+V++ R Sbjct: 142 QIICTLDQDTMFECEFQVRVGRGFATGDENKVPDMPIGVIPIDSIFSPVTRVKYSVQNTR 201 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI----NV 247 GQ+ DYDKL + + TDG I D++ AS IL+ L +F+N+++ + +E + Sbjct: 202 VGQMTDYDKLILEVWTDGRIAPADAMLQASAILRHHLDVFVNYDDKQVNFEEAPSAVQDE 261 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 ++ L V E+ELSVR+ NCL NI +G L ++E++ML+ NFG+KSL EIK Sbjct: 262 ETARLRKLLNMSVNEIELSVRAANCLNNANITTVGQLAMKSESEMLKYRNFGKKSLNEIK 321 Query: 308 GVLGTMGLFLG 318 L +GL LG Sbjct: 322 DKLLELGLSLG 332 >gi|301168432|emb|CBW28022.1| DNA-directed RNA polymerase alpha chain [Bacteriovorax marinus SJ] Length = 337 Score = 330 bits (845), Expect = 3e-88, Method: Composition-based stats. Identities = 147/324 (45%), Positives = 219/324 (67%), Gaps = 4/324 (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 FGRKSLVEIKGVLGTMGLFLGMNL 321 FGRKSL EIK +L MGL LGM + Sbjct: 303 FGRKSLNEIKEILSNMGLGLGMKV 326 >gi|308171332|gb|ADO15985.1| RpoA [Vibrio ichthyoenteri ATCC 700023] Length = 323 Score = 330 bits (845), Expect = 3e-88, Method: Composition-based stats. Identities = 142/329 (43%), Positives = 214/329 (65%), Gaps = 11/329 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++ + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MRGSVTEFLKPRLVD---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 N G+KSL EIK VL + GL LGM L +WP Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWP 323 >gi|291544484|emb|CBL17593.1| DNA-directed RNA polymerase subunit alpha [Ruminococcus sp. 18P13] Length = 318 Score = 330 bits (845), Expect = 3e-88, Method: Composition-based stats. Identities = 129/313 (41%), Positives = 196/313 (62%), Gaps = 3/313 (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 IKGVLGTMGLFLG 318 +K L ++G L Sbjct: 302 VKEKLQSLGFDLS 314 >gi|308171338|gb|ADO15988.1| RpoA [Vibrio caribbenthicus] Length = 323 Score = 330 bits (845), Expect = 3e-88, Method: Composition-based stats. Identities = 141/329 (42%), Positives = 213/329 (64%), Gaps = 11/329 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++ + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MRGSVTEFLKPRLVDIEQVST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 N G+KSL EIK VL + GL LGM L +WP Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWP 323 >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 = 330 bits (845), Expect = 3e-88, Method: Composition-based stats. Identities = 136/313 (43%), Positives = 202/313 (64%), Gaps = 5/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN IE + E+ + EPL RG+ TLGN+LRR+++SSL GAA++AV+I G Sbjct: 3 EFEKPN-IEISEIS-EDNRFGRFVVEPLVRGYGTTLGNSLRRIMLSSLPGAAVSAVKIKG 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 EIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 301 EVLAKLNELGLAL 313 >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 = 329 bits (844), Expect = 3e-88, Method: Composition-based stats. Identities = 123/323 (38%), Positives = 189/323 (58%), Gaps = 7/323 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P EY V + +R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+IDGVLH Sbjct: 6 RPRLTEYPV----DNSRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVKIDGVLH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E ++I GV ED++DI+LNIKG+ + D + + G G VTAG I+ +E+ NP Sbjct: 62 EFTTITGVKEDVSDILLNIKGLAISSDSDEPVVMYLRAEGAGEVTAGTIEPPAGVEIHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVP---AKHHRTENDPIGLITIDALYSPIKKVSYTV 187 D I L+ + +E+ V +G GYVP + + IG I +D +YSP+ KVSY V Sbjct: 122 DLHIATLNDQGRLEIEMVVERGRGYVPVSSSTTTNSGTTEIGRIQVDQIYSPVLKVSYNV 181 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R Q D+DKL++ ++T SI+ ++ A A + L + G+ + ++ + Sbjct: 182 EATRVEQRTDFDKLTIDVETKNSISPRNAFASAGKTLVELFGLARELNVSAEGIEVGPSP 241 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + A +EEL SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K Sbjct: 242 QETEHIAAYGMPIEELRFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVK 301 Query: 308 GVLGTMGLFLGMNLPDWPPESIE 330 L +GL L D+ P +E Sbjct: 302 IKLAGLGLTLKDAPEDFDPTQLE 324 >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 = 329 bits (844), Expect = 4e-88, 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-IEIAEIS-EDKKFGRFICEPLERGYGTTLGNSLRRIMLSSLPGSAVSQVKIDG 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|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 = 329 bits (844), Expect = 4e-88, Method: Composition-based stats. Identities = 127/311 (40%), Positives = 199/311 (63%), Gaps = 4/311 (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 GVLGTMGLFLG 318 L +GL L Sbjct: 299 VKLTELGLSLK 309 >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 = 329 bits (844), Expect = 4e-88, 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|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 = 329 bits (844), Expect = 4e-88, Method: Composition-based stats. Identities = 160/346 (46%), Positives = 232/346 (67%), Gaps = 12/346 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 N L KPN I+ I + ++ ++ EPL GFA TLG+ALRRV++SSLRG+A+ + Sbjct: 11 GNLDRLTKPNAIKVI--SGDSSKKSDIVLEPLESGFALTLGHALRRVMLSSLRGSAVYGI 68 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+GV HE +SI+GV ED+TDI LN+ + K++ S+K + + +GP V AG I+T + Sbjct: 69 KIEGVNHEFTSIQGVREDITDIALNMGMLRCKLNNTSNKCLNLSAKGPCQVLAGMIETDD 128 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--------ENDPIGLITIDA 175 ++N D VIC L D + + + ++ G GY+ ++ E D IG I ++A Sbjct: 129 QCSIVNKDLVICTLGQDVELNITIYIASGKGYLSVNKYKENEFLKSMNEQDLIGFIPVNA 188 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI--N 233 LYSP+++VSY VE++R GQV D DKL ++I+TDG+I+ +V A+RILQ+Q FI + Sbjct: 189 LYSPVERVSYRVENSRVGQVTDKDKLILSIETDGTISPSQAVDYAARILQEQFQPFISSD 248 Query: 234 FEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 K +V K L ++P LL+KV+E+ELSVRS NCL+ ENI Y+GDL+Q+TE +ML Sbjct: 249 MSYKKSQVSLSSGAKDLGYDPVLLRKVDEMELSVRSHNCLKNENITYIGDLVQKTEVEML 308 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 R ANFGRKSL EIK +L GL LGMN+P+WPP+ I+ELAK++ D+ Sbjct: 309 RTANFGRKSLNEIKAILNNSGLSLGMNIPNWPPKDIDELAKQHTDE 354 >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 = 329 bits (843), Expect = 4e-88, Method: Composition-based stats. Identities = 161/345 (46%), Positives = 236/345 (68%), Gaps = 12/345 (3%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + +L KPN+++ + E + ++ EPL GFA TLGNALRRV++SSL G+A+ ++ Sbjct: 12 SLDKLTKPNSMKVVSSDSSE--KGDIVLEPLESGFALTLGNALRRVMLSSLIGSAVYGIK 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|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 = 329 bits (843), Expect = 4e-88, Method: Composition-based stats. Identities = 141/318 (44%), Positives = 194/318 (61%), Gaps = 7/318 (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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK----- 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 LVEIKGVLGTMGLFLGMN 320 L EIK L MGL N Sbjct: 301 LEEIKKKLEDMGLHFRKN 318 >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 = 329 bits (843), Expect = 4e-88, Method: Composition-based stats. Identities = 135/316 (42%), Positives = 206/316 (65%), Gaps = 6/316 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFQKP-KIEIAEIS-EDKKYGKFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 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 VEIKGVLGTMGLFLGM 319 E+ L +GL L Sbjct: 301 EEVLAKLKELGLQLNQ 316 >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 = 329 bits (843), Expect = 4e-88, Method: Composition-based stats. Identities = 124/325 (38%), Positives = 192/325 (59%), Gaps = 5/325 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + W+ P+ + +AEP RGF T+GN+LRR+L+SSL G+AIT Sbjct: 1 MHIRWRGFELPSIVN-CDATTLTSTYGKFVAEPFERGFGTTIGNSLRRILLSSLEGSAIT 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 KED----INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 V + L + 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|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 = 329 bits (843), Expect = 4e-88, Method: Composition-based stats. Identities = 148/324 (45%), Positives = 220/324 (67%), 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 EVKEDINVKSLPFNPALLKK-VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 EVK+D LL 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|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 = 329 bits (843), Expect = 4e-88, Method: Composition-based stats. Identities = 127/316 (40%), Positives = 193/316 (61%), Gaps = 7/316 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E I+P + + + EN + AEPL RG+ TLGN+LRRVL+SSL GAA+ A+QI Sbjct: 1 MSEFIRPQ----VSVEEISENLARVSAEPLERGYGDTLGNSLRRVLLSSLEGAAVEAIQI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVND 124 DGV HE ++++GV+ED+TDI+LN+KG+ + G +I GP VT GD + + Sbjct: 57 DGVQHEFTTVEGVYEDVTDIVLNVKGLVFRSMGTGDEATASISIDGPCTVTGGDFKVPAE 116 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 E++N D VIC L A + M++ + G GYV + + DPIG+I +D+LYSP+++ + Sbjct: 117 FELVNEDQVICTLGEGAHLSMQMRIGTGRGYVAGDDNERDGDPIGIIHVDSLYSPVRRCA 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 VE R GQ +YD+L + ++TDGSIT D+V A+ I+ + F+ + ++ V++ Sbjct: 177 KAVEPCRVGQHTNYDRLVLEVETDGSITPRDAVVDAANIVNQHMSAFMALADEEEPVEDA 236 Query: 245 I--NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 N L K++E+L+LSVRS NCL+ I + L++ +E D+L + NFG KS Sbjct: 237 SIFATGVEEDNTELDKQIEDLDLSVRSYNCLKRAGIHSVRQLVEFSENDLLNIRNFGVKS 296 Query: 303 LVEIKGVLGTMGLFLG 318 + E+K L TMGL L Sbjct: 297 IEEVKDKLETMGLGLK 312 >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 = 328 bits (842), Expect = 5e-88, Method: Composition-based stats. Identities = 122/312 (39%), Positives = 188/312 (60%), Gaps = 2/312 (0%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I G+ Sbjct: 10 TEEYIDTNRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTINGI 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E++++IILN+K I L D + + K GPG VTAGDI+ D+ + NPD I +L+ Sbjct: 70 KENVSEIILNVKNIVLSSDSDEPVVLYLSKEGPGDVTAGDIELTADVAIHNPDLHIASLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 A + MEL V +G GYVPA + G I +D +YSP+ +V+Y VE+ R Q D+ Sbjct: 130 DSARLEMELVVERGRGYVPAMPYAGGEA--GRIPVDQIYSPVTRVAYKVEATRVEQRTDF 187 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T S+T D++A A L + G+ + ++ + + + A Sbjct: 188 DKLIIDVETKNSMTARDALASAGSTLVELFGLARELNTAAEGLEIGPSPQETEYIAAYNL 247 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L ++GL L Sbjct: 248 PIEDLNFSVRSYNCLKRQEIHSVGELAEYTESDLLDIRNFGQKSINEVKIKLASLGLTLK 307 Query: 319 MNLPDWPPESIE 330 D+ P IE Sbjct: 308 DAPEDFDPTQIE 319 >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 = 328 bits (842), Expect = 6e-88, Method: Composition-based stats. Identities = 134/315 (42%), Positives = 203/315 (64%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAAI+ V+IDG Sbjct: 6 DFNKPN-IEITEIS-EDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAISQVKIDG 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 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 VEIKGVLGTMGLFLG 318 E+ L +GL L Sbjct: 304 EEVLAKLDELGLSLS 318 >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 = 328 bits (842), Expect = 6e-88, Method: Composition-based stats. Identities = 126/311 (40%), Positives = 198/311 (63%), Gaps = 4/311 (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 GVLGTMGLFLG 318 L +GL L Sbjct: 299 VKLTELGLSLK 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 (841), Expect = 7e-88, Method: Composition-based stats. Identities = 121/316 (38%), Positives = 185/316 (58%), Gaps = 7/316 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E I+P + + + E + EPL RG+ TLGN+LRRVL+SSL GAA+ A+QI Sbjct: 1 MSEFIRPQ----VQVEEINETSARVSVEPLERGYGDTLGNSLRRVLLSSLEGAAVEAIQI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLK-MSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 DG HE +I + ED+TDI+LN+KG+ + + TI GP VT D ++ Sbjct: 57 DGAQHEFMTIPNMVEDVTDIVLNVKGLVFRALGTTDEATATISVDGPCEVTGADFFIPSE 116 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 E++NP+ I L + M + + G GYV + ++ +NDPIG+I +D+LYSP+ + + Sbjct: 117 FELVNPEQHIATLTEGGHLTMSMRIGYGRGYVSGEANKRDNDPIGVIHVDSLYSPVSRCA 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 VE+ R GQ DYD+L + I+T+GSI D+V A+ I+ + F+N E + +E Sbjct: 177 KLVEACRVGQHTDYDRLVLEIETNGSIAPRDAVVQAANIINQHMAAFMNLAETPEVEEEA 236 Query: 245 I--NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + N L K++E+L+LSVRS NCL+ +I + L++ +E D+L + NFG KS Sbjct: 237 SIFAPEVTNDNAELDKQIEDLDLSVRSYNCLKRASIHSVRQLVEFSENDLLNIRNFGVKS 296 Query: 303 LVEIKGVLGTMGLFLG 318 + E+K L +MGL L Sbjct: 297 IEEVKDKLESMGLSLK 312 >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 = 328 bits (841), Expect = 7e-88, Method: Composition-based stats. Identities = 122/312 (39%), Positives = 186/312 (59%), Gaps = 2/312 (0%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++I+GVLHE ++I GV Sbjct: 10 TEEYIDTNRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIEGVLHEFTTINGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E++++IILNIK + L D + + +GP VTA DI D+ V NPD I +L+ Sbjct: 70 KENVSEIILNIKNLVLSSDSDEPVVMYLSAQGPTDVTAADIDLPADVTVHNPDLHIASLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 A + MEL V +G GYVPA + IG I +D +YSP+ KVSY VE+ R Q D+ Sbjct: 130 ESARLDMELVVERGRGYVPAMTNSGGE--IGRIPVDQIYSPVLKVSYKVEATRVEQRTDF 187 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T S++ D++A A L + G+ + ++ + + + A Sbjct: 188 DKLIIDVETKNSMSARDALASAGSTLVELFGLARELNTAAEGIEIGPSPQETEYIAAYNM 247 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L ++GL L Sbjct: 248 PIEDLNFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIKLASLGLTLK 307 Query: 319 MNLPDWPPESIE 330 D+ P IE Sbjct: 308 DAPEDFDPTQIE 319 >gi|157100341|emb|CAP03336.1| RpoA protein [Vibrio aestuarianus] Length = 323 Score = 328 bits (840), Expect = 9e-88, Method: Composition-based stats. Identities = 143/329 (43%), Positives = 214/329 (65%), Gaps = 11/329 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMAGCAVT 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 N G+KSL EIK VL + GL LGM L +WP Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWP 323 >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 = 328 bits (840), Expect = 1e-87, Method: Composition-based stats. Identities = 120/316 (37%), Positives = 189/316 (59%), Gaps = 7/316 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E I+P + + + + + EPL RG+ TLGN+LRRVL+SSL GAA+ A+QI Sbjct: 1 MSEFIRPQ----VHVEEISDTAARVSVEPLERGYGDTLGNSLRRVLLSSLEGAAVEAIQI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLK-MSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 DG HE ++I + ED+TDI+LN+KG+ + + TI GP VT D ++ Sbjct: 57 DGAQHEFTTIPNMVEDVTDIVLNVKGLVFRTLGTTDEGTATISVDGPCEVTGADFFIPSE 116 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 E++NP+ I L + M + + G GYV + ++ +NDPIG+I +D+L+SP+K+ + Sbjct: 117 FELVNPEQHIATLTEGGHLTMSMRIGYGRGYVSYEQNKRDNDPIGIIHVDSLFSPVKRCA 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF-EEPKKEVKE 243 VE+ R GQ DYD+L + I+T+G+I D+V A+ I+ + F+ +EP+ E + Sbjct: 177 KLVEACRVGQHTDYDRLVLEIETNGAINPRDAVVSAANIINQHMAAFMTLADEPEAEEEI 236 Query: 244 DINVKSLPFNPALLKK-VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 I + + A L K +E+L+LSVRS NCL+ +I + L++ +E D+L + NFG KS Sbjct: 237 SIFAPEVTSDNAELDKQIEDLDLSVRSYNCLKRASIHSVRQLVEFSENDLLNIRNFGVKS 296 Query: 303 LVEIKGVLGTMGLFLG 318 + E+K L +MGL L Sbjct: 297 IEEVKDKLESMGLSLK 312 >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 = 328 bits (840), Expect = 1e-87, Method: Composition-based stats. Identities = 122/316 (38%), Positives = 189/316 (59%), Gaps = 7/316 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E I+P + + + +E + EPL RG+ TLGN+LRRVL+SSL GAA+ A+QI Sbjct: 1 MSEFIRPQ----VQVEEIDEVSARVSVEPLERGYGDTLGNSLRRVLLSSLEGAAVEAIQI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVND 124 DG HE +I + ED+TDI+LN+KG+ + G TI GPG VT D +D Sbjct: 57 DGAQHEFMTIPNMVEDVTDIVLNVKGLVFRSLGTTDEATATISVDGPGEVTGADFFVPSD 116 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 E++NPD I L + M + + G GY+ + ++ +NDPIG+I +D+LYSP+++ + Sbjct: 117 FELVNPDQHIATLTEGGHLTMSMRIGYGRGYISYEANKHDNDPIGIIHVDSLYSPVRRCA 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 VE+ R GQ DYD+L + I+T+G+++ D+V A+ I+ + F+N E + +E Sbjct: 177 KLVEATRVGQHTDYDRLVLEIETNGALSPRDAVVSAANIINQHMASFMNLAEVPEVEEEV 236 Query: 245 I--NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + N L K++E+L+LSVRS NCL+ +I + L++ +E D+L + NFG KS Sbjct: 237 SIFAPEVTSDNAELDKQIEDLDLSVRSYNCLKRASIHSVRQLVEFSENDLLNIRNFGVKS 296 Query: 303 LVEIKGVLGTMGLFLG 318 + E+K L +MGL L Sbjct: 297 IEEVKDKLESMGLGLK 312 >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 = 328 bits (840), Expect = 1e-87, 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|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 = 328 bits (840), Expect = 1e-87, Method: Composition-based stats. Identities = 119/316 (37%), Positives = 187/316 (59%), Gaps = 7/316 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E I+PN + + + N + EPL RG+ TLGN+LRRVL+SSL GAA+ A+QI Sbjct: 1 MSEFIRPN----VSVDEIGANVARVSVEPLERGYGDTLGNSLRRVLLSSLEGAAVEAIQI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVND 124 DGV HE ++++GV+ED+TDI+LN+KG+ + + +I GP VT D+ Sbjct: 57 DGVQHEFTTVEGVYEDVTDIVLNVKGLVFRNTNNSDEAEASISVDGPCTVTGADLDVPMG 116 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 E++NP IC L A + M L + G GYV + + ENDPIG I +D+++SP+++ + Sbjct: 117 YELVNPAQHICALAEGAHLSMRLRIGNGRGYVSGEDNERENDPIGFIHVDSIFSPVRRCA 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 VE R G+ DYD+L + ++T+G+I+ ++V A+ I+ + F+ + + +E Sbjct: 177 KAVEPCRVGRHTDYDRLVLEVETNGAISPREAVVEAANIINQHMSAFMGLTDFDETQEEA 236 Query: 245 I--NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + + L K+VE+L+LSVRS NCL+ I + L+ +E D+L + NFG KS Sbjct: 237 SIFAKADVEDDSELEKQVEDLDLSVRSYNCLKRAGIHSVRQLVDFSENDLLNIRNFGVKS 296 Query: 303 LVEIKGVLGTMGLFLG 318 + E+K L +MGL L Sbjct: 297 IEEVKEKLESMGLSLK 312 >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 = 327 bits (839), Expect = 1e-87, Method: Composition-based stats. Identities = 119/297 (40%), Positives = 179/297 (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 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 EL+LSVRS NCL+ I + +L +TE DM+++ N G+KSL E+K L +GL Sbjct: 255 ELDLSVRSYNCLKRAGIQTVQELASKTEDDMIKVRNLGKKSLKEVKEKLNELGLGFK 311 >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 = 327 bits (839), Expect = 1e-87, Method: Composition-based stats. Identities = 118/310 (38%), Positives = 183/310 (59%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S++ GV Sbjct: 11 EEKVSEARSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFSTVPGVK 70 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+T++ILNIK + D + K+G G +T DI +EV NPD + L+ Sbjct: 71 EDVTELILNIKSLVFSSEHDEPVVAYLRKQGSGEMTGADISCPAGVEVHNPDLYLGALND 130 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + + +ELT+ +G GYV A+ ++ IG I +D++YSP+ V+Y VE+ R Q D+D Sbjct: 131 EGAIDLELTIERGRGYVSAQQNKGGEQEIGRIPVDSIYSPVLSVTYKVEATRVEQRTDFD 190 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + ++T S++ D++A A + L + G+ + + ++ L Sbjct: 191 KLIVDVETKNSMSPADAMASAGKTLVELFGLARDLNVEAEGIEMGTVQTDASLAADLALP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 VEEL LSVRS NCL+ E I +G+L+ R++AD+L + NFG KS+ E++ L +GL L Sbjct: 251 VEELNLSVRSYNCLKREGIHTVGELVARSQADLLDIRNFGNKSIDEVQVELHKLGLALKD 310 Query: 320 NLPDWPPESI 329 D+ P +I Sbjct: 311 TPADFDPSTI 320 >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 = 327 bits (839), Expect = 1e-87, Method: Composition-based stats. Identities = 131/322 (40%), Positives = 193/322 (59%), Gaps = 7/322 (2%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P + E +AEP G+ HT+GN+LRRVL+SSL GAAI++++IDG +HE Sbjct: 2 PKRL-TKDETTSTETYAKFVAEPFETGYGHTIGNSLRRVLLSSLEGAAISSIKIDGAMHE 60 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 +++ GV ED+TDI+LN+K + K + + + G VTA DIQ +IE++NP Sbjct: 61 FTTVDGVVEDVTDIVLNLKKVLFKAHNREPQTLLLSANKDGEVTAADIQVNQNIELVNPK 120 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 IC LD +EL V G G+ P ++ N IG+I ID+L+SP+ +V Y VESAR Sbjct: 121 QHICTLDKKKKFEIELEVKVGRGFCPGDENKKPNQAIGVIAIDSLFSPVTRVRYAVESAR 180 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 GQ DYD+L + + TDG I+ +D++ AS ILQ L +F+ +++ E +E ++ + Sbjct: 181 VGQRTDYDRLILEVWTDGRISPDDALTQASAILQHHLDVFVGYDKNAVEFEEVVDKQDEE 240 Query: 252 FNPALL---KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 V E+ELSVR+ NCL NI +G L +TEA+ML+ NFG+KSL EIK Sbjct: 241 KTKLKKLLGMSVNEIELSVRAANCLNNANITTVGQLAMKTEAEMLKYRNFGKKSLNEIKE 300 Query: 309 VLGTMGLFLGMNLPDWPPESIE 330 L +GL LGM+ + PE+++ Sbjct: 301 KLTALGLSLGMS---FDPEALD 319 >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 = 327 bits (838), Expect = 2e-87, 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|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 = 327 bits (838), Expect = 2e-87, Method: Composition-based stats. Identities = 132/329 (40%), Positives = 190/329 (57%), Gaps = 22/329 (6%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 + I EENR EPL RGF +T GN+LRRVL+SSL GAA+T+V+I+GV HE S Sbjct: 5 QVPRITTETVEENRGSFTIEPLDRGFGYTFGNSLRRVLLSSLAGAAVTSVRIEGVAHEFS 64 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 +I GV ED+TDI+LN+KGI +M D + + GPG +TA DI + +E+LNPD Sbjct: 65 TIPGVKEDVTDIVLNLKGIVCRMHSDATEIEAPLVVTGPGDITAKDIDLPSGVEILNPDA 124 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L+ + + LT+ +G GY PA+ +++ + PIG+I ID+++SP+++V+Y VE AR Sbjct: 125 HIATLEKKTKLEVYLTIGRGRGYRPAEENKSPDQPIGVIPIDSIFSPVRRVAYAVEQARV 184 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK------------- 239 GQ DYDKL++ I+TDGSI ++ A+ IL QL +F + + + Sbjct: 185 GQKTDYDKLTLDIETDGSIDPHAALREAAEILISQLAIFTDADRVIELRDTGGLGALEPG 244 Query: 240 --------EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 P N +EELEL VRS NCL+ I +GDLI +TE + Sbjct: 245 LAGGGVGGVGGHGAGPGGRPANAMDDILIEELELGVRSYNCLKRAGIQTVGDLISKTENE 304 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 + + NFG+KS+ E+ L GL L + Sbjct: 305 LNAIPNFGKKSIDEVIETLEGRGLHLRQD 333 >gi|308171334|gb|ADO15986.1| RpoA [Vibrio scophthalmi LMG 19158] Length = 321 Score = 326 bits (837), Expect = 2e-87, Method: Composition-based stats. Identities = 142/327 (43%), Positives = 212/327 (64%), Gaps = 11/327 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V Sbjct: 1 GSVTEFLKPRLVD---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEV 57 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTV 122 +I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHD 117 Query: 123 NDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YS Sbjct: 118 GDVEITNPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ K++Y+V++AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + Sbjct: 178 PVDKIAYSVDAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVR 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 VPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWP 325 G+KSL EIK VL + GL LGM L +WP Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWP 321 >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 = 326 bits (837), Expect = 2e-87, Method: Composition-based stats. Identities = 149/328 (45%), Positives = 209/328 (63%), Gaps = 9/328 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP +++ + + + NR ++ EP RG+ HTLGNALRR+L+SS+ G A T QI G+ Sbjct: 6 LLKPTSVD-VSVDESNPNRAVITLEPFERGYGHTLGNALRRILLSSMVGFAPTEAQITGI 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 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND----PIGLITIDALYSPIKKVS 184 NPDHVI +L + M++ + KG GY P +D IG I +DA +SPI +V+ Sbjct: 125 NPDHVIAHLS-GGRLEMQVKIEKGRGYQPGDVRAFRDDYSKSSIGRIIMDASFSPILRVA 183 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF--INFEEPKKEVK 242 Y V +AR Q D DKL MTI+T+G+I E+++ + RILQDQL +F I+ E+ +K Sbjct: 184 YQVMAARVAQRTDLDKLEMTIETNGAIGPEEALRESVRILQDQLAVFGAIHPEQGTDGIK 243 Query: 243 -EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 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|295093661|emb|CBK82752.1| DNA-directed RNA polymerase subunit alpha [Coprococcus sp. ART55/1] Length = 318 Score = 326 bits (837), Expect = 2e-87, 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|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 = 326 bits (837), Expect = 2e-87, Method: Composition-based stats. Identities = 144/332 (43%), Positives = 216/332 (65%), Gaps = 10/332 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + + ++P ++ + Q T + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQNSIMDFLRPRLVD---IEQISATHTKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A ++M + V +G GY+PA ++ 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 REPE---FKEEKPEFEPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + L LGM L +WPP SI Sbjct: 295 LGKKSLTEIKDVLASRSLSLGMRLENWPPSSI 326 >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 = 326 bits (837), Expect = 3e-87, 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-IEVEEYIK-DEFYGKFVIEPLKRGYGTTLGNSLRRVLLSSLPGAAVTSISIEG 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|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 = 326 bits (836), Expect = 3e-87, 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|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 = 326 bits (836), Expect = 3e-87, Method: Composition-based stats. Identities = 132/328 (40%), Positives = 193/328 (58%), Gaps = 5/328 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + W+ L P+ + N IAEP RGF T+GN+LRR+L+SSL GAA+T Sbjct: 1 MHIRWRGLELPSVVN-CEAESLSPNYGKFIAEPFERGFGVTIGNSLRRILLSSLEGAAVT 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 KEDINVKSLPFNPALLKKVE----ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 +S +P L K+ 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|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 = 326 bits (836), Expect = 3e-87, Method: Composition-based stats. Identities = 144/332 (43%), Positives = 215/332 (64%), Gaps = 10/332 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + + ++P ++ + Q T + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQNSIMDFLRPRLVD---IEQISATHTKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A ++M + V +G GY+PA + 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 REPE---FKEEKPEFEPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + L LGM L +WPP SI Sbjct: 295 LGKKSLTEIKDVLASRSLSLGMRLENWPPSSI 326 >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 = 326 bits (835), Expect = 4e-87, Method: Composition-based stats. Identities = 127/333 (38%), Positives = 198/333 (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 KEDINVK-----------SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 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|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 = 325 bits (834), Expect = 4e-87, 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-IEIAEIS-EDKKFGRFICEPLERGYGTTLGNSLRRIMLSSLPGSAVSQVKIDG 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|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 = 325 bits (834), Expect = 5e-87, Method: Composition-based stats. Identities = 149/334 (44%), Positives = 216/334 (64%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + +KP +E + Q T + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQNSIIGFLKPRLVE---IEQITATHTKVTLEPLERGFGHTLGNALRRILLSSMPGYAVT 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+ I + F P LL+ V++LEL+VRS NCL+ E+I Y+GDL+QRTE ++L+ N Sbjct: 238 KEPE---IKEEKPEFEPILLRPVDDLELTVRSANCLKAESIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK +L L LGM L WPP SI E Sbjct: 295 LGKKSLTEIKDILAARNLSLGMKLEKWPPSSILE 328 >gi|157100339|emb|CAP03335.1| RpoA protein [Vibrio aestuarianus] Length = 323 Score = 325 bits (834), Expect = 5e-87, Method: Composition-based stats. Identities = 142/329 (43%), Positives = 213/329 (64%), Gaps = 11/329 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGN LRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISTTHAKVTLEPLERGFGHTLGNXLRRILLSSMXGCAVT 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 N G+KSL EIK VL + GL LGM L +WP Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWP 323 >gi|308171336|gb|ADO15987.1| RpoA [Vibrio sinaloensis DSM 21326] Length = 321 Score = 325 bits (834), Expect = 5e-87, Method: Composition-based stats. Identities = 141/327 (43%), Positives = 211/327 (64%), Gaps = 11/327 (3%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 + + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 RGSVTEFLKPRLVDIEQVST---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 SPVDKIAYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDW 324 G+KSL EIK VL + GL LGM L +W Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENW 321 >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 = 325 bits (834), Expect = 5e-87, Method: Composition-based stats. Identities = 131/316 (41%), Positives = 202/316 (63%), Gaps = 6/316 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL G+AI+ V+IDG Sbjct: 3 DFNKPN-IEITEIS-EDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGSAISYVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 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 VEIKGVLGTMGLFLGM 319 E+ L +GL L Sbjct: 301 EEVLAKLKELGLELSQ 316 >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 = 325 bits (833), Expect = 6e-87, Method: Composition-based stats. Identities = 122/307 (39%), Positives = 184/307 (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 IG I +D +YSP+ KVSY VE+ R Q D+DKL + Sbjct: 135 DIELVVERGRGYVPAATSTDE---IGRIPVDQIYSPVLKVSYKVEATRVEQRTDFDKLIL 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|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 = 325 bits (833), Expect = 6e-87, Method: Composition-based stats. Identities = 128/317 (40%), Positives = 195/317 (61%), Gaps = 8/317 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP IE L Q + + EPL RG+ TLGN+LRR+L SSL G+AI++V++DG Sbjct: 3 EFEKP-QIEIKELSQ-DGKYGCFVVEPLERGYGITLGNSLRRILSSSLPGSAISSVKVDG 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 SLVEIKGVLGTMGLFLG 318 SL E+ L +G L Sbjct: 301 SLEEVFQKLNELGFQLK 317 >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 = 325 bits (833), Expect = 6e-87, 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 SDLLRPEHYDLEVLS---PRRARISLGPLERGFGHTLGNALRRVLLSSLKGAAVTEVEIE 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|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 = 325 bits (833), Expect = 7e-87, Method: Composition-based stats. Identities = 138/337 (40%), Positives = 210/337 (62%), Gaps = 7/337 (2%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++ NW+E+I P + + EPL +G+ T+GN+LRR+++SSL GAAI Sbjct: 6 LVYMNWREIIMPEKVAVTT----TSTYGKFVCEPLEKGYGITIGNSLRRIILSSLYGAAI 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 T-VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 + +E+LNP+ I + + M + V G GY A ++ P+G I ID+++SP Sbjct: 122 SGDGRVEILNPEQHIATVSKGGELMMTMLVKTGKGYALAASNKDPEAPVGTIPIDSVFSP 181 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 IK+V Y V ++R GQ DYDKL+M I TDGS+T EDSVA A++IL++Q+ FINF+E + Sbjct: 182 IKRVKYVVGASRIGQKTDYDKLTMEIWTDGSVTPEDSVAYAAKILKEQMNPFINFDEDIE 241 Query: 240 E--VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 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|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 = 324 bits (832), Expect = 8e-87, Method: Composition-based stats. Identities = 133/315 (42%), Positives = 203/315 (64%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL G+AI+ V+IDG Sbjct: 6 DFNKPN-IEITEIS-EDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGSAISQVKIDG 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 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 VEIKGVLGTMGLFLG 318 E+ L +GL L Sbjct: 304 EEVLAKLDELGLCLS 318 >gi|308171330|gb|ADO15984.1| RpoA [Vibrio brasiliensis LMG 20546] Length = 318 Score = 324 bits (832), Expect = 8e-87, Method: Composition-based stats. Identities = 142/324 (43%), Positives = 210/324 (64%), Gaps = 11/324 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+ Sbjct: 1 TEFLKPRLVDIEQVST---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 KIAYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE 237 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+K Sbjct: 238 ---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKK 294 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL EIK VL + GL LGM L +WP Sbjct: 295 SLTEIKDVLASRGLSLGMRLENWP 318 >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 = 324 bits (832), Expect = 8e-87, Method: Composition-based stats. Identities = 140/330 (42%), Positives = 223/330 (67%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSP 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 PVAQEPREE---VDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >gi|268609564|ref|ZP_06143291.1| DNA-directed RNA polymerase, alpha subunit [Ruminococcus flavefaciens FD-1] Length = 321 Score = 324 bits (832), Expect = 1e-86, Method: Composition-based stats. Identities = 124/316 (39%), Positives = 199/316 (62%), Gaps = 6/316 (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 LVEIKGVLGTMGLFLG 318 E+K L ++G L Sbjct: 302 FDEVKEKLQSLGFDLS 317 >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 = 324 bits (831), Expect = 1e-86, 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|328814015|gb|AEB52123.1| DNA-directed RNA polymerase alpha chain [Lactobacillus rhamnosus] Length = 273 Score = 324 bits (831), Expect = 1e-86, 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|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 = 324 bits (831), Expect = 1e-86, Method: Composition-based stats. Identities = 134/315 (42%), Positives = 204/315 (64%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL G+AI+ V+IDG Sbjct: 6 DFNKPN-IEITEIS-EDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGSAISQVKIDG 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 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 VEIKGVLGTMGLFLG 318 E+ L +GL L Sbjct: 304 EEVLAKLDELGLSLS 318 >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 = 324 bits (831), Expect = 1e-86, Method: Composition-based stats. Identities = 121/320 (37%), Positives = 187/320 (58%), Gaps = 8/320 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E ++ Q R+ EPL GF +TLGN+LRR L+SS+ G+A+T+++I+G LH Sbjct: 13 QPKLTEEVINDQ----RSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGSAVTSIKIEGALH 68 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+T I+LNIK I L D + + K G G VT GDI + + NP Sbjct: 69 EFTTLPGVKEDVTQIVLNIKEIVLSSDNDEPVVMYLRKTGEGEVTVGDIMPPAGVVIHNP 128 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 +H I L+ D + +ELTV +G GYV A ++ I I +D++YSP+ KVSY VE+ Sbjct: 129 EHHIATLNKDGKLEIELTVERGRGYVSASQNKDPEAEISRIPVDSIYSPVLKVSYRVEAT 188 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T +I D++A A + L + G+ + + ++ + Sbjct: 189 RVEQRTDFDRLVVDVETKKAILPRDAMASAGKTLVELFGLARDLNHDAEGIELGPSGNDA 248 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L VE+L+L+ R+ NCL E I +GDL+ R++AD+L + NFG+KS+ EIK L Sbjct: 249 ALAEDLAMSVEDLDLTSRALNCLTREGINTVGDLVARSQADLLDIRNFGQKSIDEIKEKL 308 Query: 311 GTMGLFLGMNLPDWPPESIE 330 M GM+L D P ++E Sbjct: 309 AGM----GMSLKDTPMPAVE 324 >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 = 324 bits (830), Expect = 1e-86, 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|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 = 324 bits (830), Expect = 1e-86, Method: Composition-based stats. Identities = 128/328 (39%), Positives = 195/328 (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 KE----DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 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|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 = 324 bits (830), Expect = 1e-86, 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|224713514|gb|ACN62064.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus minor] Length = 309 Score = 324 bits (830), Expect = 1e-86, Method: Composition-based stats. Identities = 141/315 (44%), Positives = 211/315 (66%), Gaps = 10/315 (3%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KP+ + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLH Sbjct: 1 KPHLVN---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLH 57 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E SS +GV ED+ +++LN+KG+ +K+ +T+ K G G VTAGDI D+E++NP Sbjct: 58 EYSSKEGVQEDILEVLLNLKGLAVKVQSKDDVVLTLNKSGIGPVTAGDITHDGDVEIVNP 117 Query: 131 DHVICNL-DVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKKVSYT 186 DHVIC+L D +A + M + V +G GYVPA + ++ PIG + +DA +SP+ +++Y Sbjct: 118 DHVICHLTDKNASINMRIRVQRGRGYVPASARIHAQDDDRPIGRLLVDARFSPVDRIAYN 177 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ Sbjct: 178 VEAARVEQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVK 234 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EI Sbjct: 235 EEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEI 294 Query: 307 KGVLGTMGLFLGMNL 321 K VL + GL LGM L Sbjct: 295 KDVLASRGLSLGMRL 309 >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 = 324 bits (830), Expect = 1e-86, Method: Composition-based stats. Identities = 142/332 (42%), Positives = 209/332 (62%), Gaps = 5/332 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 EL++P ++ V+ R + PL RGF HTLG+ LRRVL+SSL+GAA+T V+I+G Sbjct: 6 ELLRPQGVDVEVIS---ARRARLALGPLERGFGHTLGSGLRRVLLSSLKGAAVTEVEIEG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE SSI+GV ED+ DI+LN+K + ++ G VT+ KRGPG +T DI + + IEV Sbjct: 63 VLHEYSSIEGVQEDVVDILLNLKMLAVRAHGRGDAVVTLRKRGPGQMTGADIVSEHGIEV 122 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGY-VPAKHHRTENDPIGLITIDALYSPIKKVSYT 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 VENARVEQRTDLDRLILDVETNGVVDPVWAVQEAARIFRSQLGVLAGAETREIPEASQVQ 242 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 V S P L++ V++LEL+VRS NCL+ E+I Y+GDL+Q++E ++L+ N GRKSL EI Sbjct: 243 V-SQSLTPLLIRPVDDLELTVRSANCLKAEDIFYIGDLVQKSEQELLKAPNLGRKSLNEI 301 Query: 307 KGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 K VL GL LGM L WPPE++ + + D Sbjct: 302 KEVLVAHGLTLGMRLDSWPPENLPPVPGRAAD 333 >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 = 324 bits (830), Expect = 2e-86, Method: Composition-based stats. Identities = 142/334 (42%), 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 MQGSEIEFLKPRLVN---IEQISPSHAKITLEPLERGFGHTLGNALRRILLSSMQGYAVT 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-DVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALY 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 RQP---ELKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + L LGM L +WPP ++ + Sbjct: 295 LGKKSLTEIKDVLASRALSLGMRLENWPPANLSD 328 >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 (829), Expect = 2e-86, Method: Composition-based stats. Identities = 123/317 (38%), Positives = 189/317 (59%), Gaps = 8/317 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E I+P +V+ EN + EPL RG+ TLGN++RRVL+SSL GAA+ A+ I Sbjct: 1 MSEFIRPQ----VVVEDISENLARVNVEPLERGYGDTLGNSMRRVLLSSLEGAAVEAISI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS-HKRVTIFKRGPGVVTAGDIQTVND 124 DGV HE S+I GV+ED+TDI+LN+KG+ + +G +I GP V AGD + Sbjct: 57 DGVQHEFSTIPGVYEDVTDIVLNVKGLVFRSNGTGSEAEASISVDGPCTVVAGDFLIPAE 116 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +++N DH IC L A + M + + G YV + E+DPIG+I +D+L+SP+ + + Sbjct: 117 FDLINKDHHICTLCEGAHLSMRMRIGMGRSYVSGDDNEREDDPIGVIHVDSLFSPVTRCA 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 VE R GQ +YD+L + ++T+GSI+ D+V A+ I+ + F++ E ++E ED Sbjct: 177 KVVEPCRVGQHTNYDRLILEVETNGSISPRDAVIQAADIINQHMCAFMDLAEDEQEPLED 236 Query: 245 INVK---SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ N L K++E+L+LSVRS NCL+ I + L++ +E D+L + NFG K Sbjct: 237 ASIFSTVEEEDNTELDKQIEDLDLSVRSYNCLKRAGIHNVRQLVEFSENDLLNIRNFGVK 296 Query: 302 SLVEIKGVLGTMGLFLG 318 S+ E++ L GL L Sbjct: 297 SIEEVREKLEAAGLGLK 313 >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 = 323 bits (829), Expect = 2e-86, Method: Composition-based stats. Identities = 144/335 (42%), Positives = 213/335 (63%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + +E +KP+ I + + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVKEFLKPSLI----SEKISQTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 56 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV-TIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ I+LN+K + +K+ ++ + T+ K G G VTA DI Sbjct: 57 EVEIEGVLHEYSTKEGVKEDILSILLNLKELAVKVQEKENEVILTLEKSGIGPVTAADIT 116 Query: 121 TVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDAL 176 + + IE++ P+HVIC+L A + M + V +G GYVPA + 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|332086261|gb|EGI91417.1| DNA-directed RNA polymerase, alpha subunit [Shigella dysenteriae 155-74] Length = 304 Score = 323 bits (829), Expect = 2e-86, 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|262370553|ref|ZP_06063878.1| RNA polymerase [Acinetobacter johnsonii SH046] gi|262314353|gb|EEY95395.1| RNA polymerase [Acinetobacter johnsonii SH046] Length = 335 Score = 323 bits (829), Expect = 2e-86, Method: Composition-based stats. Identities = 141/330 (42%), Positives = 223/330 (67%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSP 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 PVAQEPREE---VDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >gi|291166852|gb|EFE28898.1| DNA-directed RNA polymerase, alpha subunit [Filifactor alocis ATCC 35896] Length = 315 Score = 323 bits (829), Expect = 2e-86, Method: Composition-based stats. Identities = 126/313 (40%), Positives = 199/313 (63%), Gaps = 6/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KPN + + + + EPL RGF T+GN+LRRVL+SSL G A+ +++I+G Sbjct: 3 EIEKPN----VTVLEYRNDYGKFALEPLERGFGITVGNSLRRVLLSSLPGVAVNSIKIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGV--VTAGDIQTVNDI 125 VLHE S+I GV ED+T+I+L +K + + M+ + ++ T+ 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 IKGVLGTMGLFLG 318 + G L +G L Sbjct: 299 VVGKLHDLGFTLK 311 >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 = 323 bits (829), Expect = 2e-86, Method: Composition-based stats. Identities = 121/320 (37%), Positives = 187/320 (58%), Gaps = 8/320 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E ++ Q R+ EPL GF +TLGN+LRR L+SS+ G+A+T+++I+G LH Sbjct: 13 QPKLTEEVINEQ----RSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGSAVTSIKIEGALH 68 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+T I+LNIK I L D + + K G G VT GDI + + NP Sbjct: 69 EFTTLPGVKEDVTQIVLNIKEIVLSSDNDEPVVMYLRKTGEGEVTVGDIMPPAGVVIHNP 128 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 +H I L+ D + +ELTV +G GYV A ++ I I +D++YSP+ KVSY VE+ Sbjct: 129 EHHIATLNKDGKLEIELTVERGRGYVSASQNKDPEAEISRIPVDSIYSPVLKVSYRVEAT 188 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T +I D++A A + L + G+ + + ++ + Sbjct: 189 RVEQRTDFDRLVVDVETKKAILPRDAMASAGKTLVELFGLARDLNHDAEGIELGPSGNDA 248 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L VE+L+L+ R+ NCL E I +GDL+ R++AD+L + NFG+KS+ EIK L Sbjct: 249 ALAEDLAMSVEDLDLTSRALNCLTREGINTVGDLVARSQADLLDIRNFGQKSIDEIKEKL 308 Query: 311 GTMGLFLGMNLPDWPPESIE 330 M GM+L D P ++E Sbjct: 309 AGM----GMSLKDTPMPAVE 324 >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 = 323 bits (829), Expect = 2e-86, Method: Composition-based stats. Identities = 129/327 (39%), Positives = 197/327 (60%), Gaps = 7/327 (2%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P +I I EP G+ HTLGN+LRR+L+SSL GAAI++V+I+GV+HE Sbjct: 11 PRSI-VKDETVSNSTFGKYIIEPFESGYGHTLGNSLRRILLSSLEGAAISSVKIEGVMHE 69 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 ++++GV ED+ DI+LN+K + +KM + + G VTAGDIQ +E++NP+ Sbjct: 70 FTTMEGVVEDVVDIVLNLKKVLIKMPDRQTRVFRVDVFKEGAVTAGDIQVDPGVEIVNPE 129 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 +IC LD + MEL V G G++ ++++ ++ IG+I ID L+SP++ V YTVE+ R Sbjct: 130 QLICTLDKKQRLLMELEVKVGRGFLLGEYNKKQDQSIGVIPIDCLFSPVRHVKYTVENTR 189 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE---DINVK 248 GQ DYD+L I TDG I ++++ ++ ILQ L +F+ + + E ++ I + Sbjct: 190 VGQRTDYDRLIFEIWTDGRIGPDEALVQSAAILQHHLDIFVQYGKEPVEFEKPKPPIKEE 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L V E+ELSVR+ NCL NI +G L +TEA+ML+ NFG+KSL EIK Sbjct: 250 ENRLRKILNMSVNEIELSVRAANCLNNANITTVGQLAMKTEAEMLKYRNFGKKSLNEIKE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKK 335 L ++GL LGM + P +++ +K Sbjct: 310 KLASLGLSLGM---KFDPSLLDQTEEK 333 >gi|32423696|gb|AAP81239.1| RNA polymerase alpha subunit [Candidatus Portiera aleyrodidarum] Length = 329 Score = 323 bits (829), Expect = 2e-86, Method: Composition-based stats. Identities = 143/327 (43%), Positives = 208/327 (63%), Gaps = 7/327 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 + E ++P+ I + N ++ EPL RGF HTLGNALRR+L+S + G A+ Sbjct: 2 SSVNEFVRPSKINVEAISN---NHAIISLEPLERGFGHTLGNALRRILLSYMPGCAVVEA 58 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I GV HE S I G+ ED+ +IILNIK I +K+ G + + K G GVV AGDI+ Sbjct: 59 EIKGVQHEYSVIDGIKEDVIEIILNIKEIAIKLYGIDEIELELKKIGSGVVKAGDIKARQ 118 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 D+EV+NPDHVI +L+ + M+L +G GY PA + G I IDA +SP+K+V Sbjct: 119 DVEVINPDHVIAHLNDHGELNMKLRFVRGRGYEPAYLRNKSDKNYGRIQIDAKFSPVKRV 178 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EPKKEVK 242 +Y VESAR Q D+DKL + ++T+G++ E+++ +++IL++QL F++ E KK V+ Sbjct: 179 AYFVESARVEQKTDFDKLIIELETNGTLDPEEAIRTSAKILRNQLDFFVDLSCENKKHVE 238 Query: 243 EDINVK---SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 ++ + ALL VE+LEL+VRS NCL+ ENI Y+GDL++RTE ++L+ N G Sbjct: 239 NEVEHDRRTDTKIDKALLLPVEDLELTVRSANCLKAENIFYIGDLVKRTEGELLKTPNLG 298 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPP 326 +KSL EIK VL GL LGM++ WPP Sbjct: 299 KKSLNEIKKVLKVRGLALGMHIDLWPP 325 >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 = 323 bits (828), Expect = 2e-86, Method: Composition-based stats. Identities = 139/328 (42%), Positives = 210/328 (64%), Gaps = 5/328 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M+ W+ L P + + + G E+ + E L RG+ TLGNALRRVL+SSL+GAAI Sbjct: 1 MM---WKSLQMPRSFQKVETG-EDGRYAKFVVEALERGWGITLGNALRRVLLSSLQGAAI 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 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KV+ + R GQ DY++L + I TDGSI ED++A A+++L D L +FINFE + Sbjct: 177 QKVAMHISDTRVGQKTDYNRLELEITTDGSIDPEDALAYAAKLLVDHLEIFINFEGDLES 236 Query: 241 VKE-DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +E +++ + 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|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 = 323 bits (828), Expect = 2e-86, Method: Composition-based stats. Identities = 139/330 (42%), Positives = 223/330 (67%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSP 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 PVAQEPREE---VDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >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 = 323 bits (828), Expect = 2e-86, Method: Composition-based stats. Identities = 140/330 (42%), Positives = 222/330 (67%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSP 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 PVAQEPREE---VDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >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 = 323 bits (828), Expect = 2e-86, Method: Composition-based stats. Identities = 129/310 (41%), Positives = 189/310 (60%), Gaps = 2/310 (0%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + KP I+ ++ + EPL RG+ TLGN+LRR+L+SSL GAA ++ I+GV Sbjct: 4 IEKPKI--QIIEESSDKRFGRFVVEPLERGYGTTLGNSLRRMLISSLPGAAARSIDIEGV 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 VLGTMGLFLG 318 L + L Sbjct: 302 KLQELELGFK 311 >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 = 323 bits (827), Expect = 3e-86, Method: Composition-based stats. Identities = 132/306 (43%), Positives = 197/306 (64%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 IV E+ N + PL RG+ TLGN+LRRVL+SSL GAAI+ + I GV HE+S+IKG Sbjct: 11 IVELDEQNNYGKFVIMPLERGYGTTLGNSLRRVLLSSLPGAAISKINIQGVAHEMSTIKG 70 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +IILN+KGI +K + + + +GP V+TA DI D+EV NPDH I L Sbjct: 71 VKEDVPEIILNLKGIAVKKYNEEPISLNVDIKGPCVLTAKDILVDTDLEVKNPDHYIATL 130 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + DA + M++TV G GY ++ ++T+ D IG I ID+L+SP+KKV++TV++AR GQV+D Sbjct: 131 NEDASLEMQITVINGKGYKISEFNKTDEDIIGDIAIDSLFSPVKKVNFTVDNARVGQVID 190 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 YDKL++ + T+G+I +D+++ S IL + L +F + D ++ Sbjct: 191 YDKLTIEVWTNGTIRPQDALSEGSNILINCLELFSELPNYECNTNSDDEDNQKDKETQMV 250 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+ S+RS NCL+ NI +GD++ T+ADM+++ NFG+KSL E++ L MGL Sbjct: 251 INIEELDFSLRSFNCLKRANINTVGDIVSHTKADMMKIKNFGKKSLDEVEEKLQEMGLAF 310 Query: 318 GMNLPD 323 + D Sbjct: 311 KQEIKD 316 >gi|224713516|gb|ACN62065.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus minor] Length = 307 Score = 323 bits (827), Expect = 3e-86, Method: Composition-based stats. Identities = 142/313 (45%), Positives = 211/313 (67%), Gaps = 10/313 (3%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KP+ + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLH Sbjct: 1 KPHLVN---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLH 57 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E SS +GV ED+ +++LN+KG+ +K+ +T+ K G G VTAGDI D+E++NP Sbjct: 58 EYSSKEGVQEDILEVLLNLKGLAVKVQSKDDVVLTLNKSGIGPVTAGDITHDGDVEIVNP 117 Query: 131 DHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYT 186 DHVIC+L D +A + M + V +G GYVPA H + ++ PIG + +DA +SP+ +++Y Sbjct: 118 DHVICHLTDKNASINMRIRVQRGRGYVPASARVHTQDDDRPIGRLLVDARFSPVDRIAYN 177 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ V + Sbjct: 178 VEAARVEQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQPV---VK 234 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EI Sbjct: 235 EEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEI 294 Query: 307 KGVLGTMGLFLGM 319 K VL + GL LGM Sbjct: 295 KDVLASRGLSLGM 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 = 323 bits (827), Expect = 3e-86, Method: Composition-based stats. Identities = 139/330 (42%), Positives = 223/330 (67%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSP 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 PVAQEPREE---VDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >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 = 323 bits (827), Expect = 3e-86, Method: Composition-based stats. Identities = 129/311 (41%), Positives = 186/311 (59%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP I + I EPL G+ T+GN+LRRVL+SSL GAA++ + I G Sbjct: 3 EIEKPKI--TIDKLDDSGKYGKFIVEPLESGYGITIGNSLRRVLLSSLPGAAVSFINIRG 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 GVLGTMGLFLG 318 L M L L Sbjct: 301 SKLQEMNLSLK 311 >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 = 323 bits (827), Expect = 3e-86, Method: Composition-based stats. Identities = 140/330 (42%), Positives = 222/330 (67%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSP 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 PVAQEPREE---VDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >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 = 323 bits (827), Expect = 3e-86, Method: Composition-based stats. Identities = 127/302 (42%), Positives = 187/302 (61%), Gaps = 5/302 (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 LG 318 Sbjct: 315 FK 316 >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 = 323 bits (827), Expect = 3e-86, Method: Composition-based stats. Identities = 124/317 (39%), Positives = 191/317 (60%), Gaps = 8/317 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E I+P + + EN + EPL RG+ TLGN++RRVL+SSL GAA+ A+ I Sbjct: 1 MSEFIRPQ----VSVVDISENLARVNVEPLERGYGDTLGNSMRRVLLSSLEGAAVEAISI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQTVND 124 DGV HE S++ GV+ED+TDI+LN+KG+ +G +I GP VT GD + + Sbjct: 57 DGVQHEFSTVDGVYEDVTDIVLNVKGLVFHANGSGETAEASISIDGPCTVTGGDFKIPAE 116 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 E++N DHVIC L + M + + G GYV + + DPIG+I +D+LYSP+++ + Sbjct: 117 FELINKDHVICTLGEGGHLAMRMRIGVGRGYVSGDDNERDEDPIGVIHVDSLYSPVRRCA 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 TVE R GQ +YD+L + I+T+GSI+ D+V A+ I+ + F++ E ++E +ED Sbjct: 177 KTVEPCRVGQHTNYDRLILEIETNGSISPRDAVIEAADIINQHMAAFMDLAEDEEEPQED 236 Query: 245 INVKSLPFNPAL---LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +++ S K++E+L+LSVRS NCL+ I + L++ +E D+L + NFG K Sbjct: 237 VSIFSNEEEEENTELDKQIEDLDLSVRSYNCLKRAGIHNVRQLVEFSENDLLNIRNFGVK 296 Query: 302 SLVEIKGVLGTMGLFLG 318 S+ E++ L GL L Sbjct: 297 SIEEVRDKLEDAGLGLK 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 = 323 bits (827), Expect = 3e-86, Method: Composition-based stats. Identities = 126/302 (41%), Positives = 191/302 (63%), Gaps = 5/302 (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 LG 318 Sbjct: 315 FK 316 >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 = 322 bits (826), Expect = 4e-86, Method: Composition-based stats. Identities = 133/306 (43%), Positives = 197/306 (64%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 IV E+ N + PL RG+ TLGN+LRRVL+SSL GAAI+ + I GV HE+S+IKG Sbjct: 11 IVELDEQNNYGKFVIMPLERGYGTTLGNSLRRVLLSSLPGAAISKINIQGVAHEMSTIKG 70 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +IILN+KGI +K + + + +GP V+TA DI D+EV NPDH I L Sbjct: 71 VKEDVPEIILNLKGIAVKKYNEEPISLNVDIKGPCVLTAKDILVDTDLEVKNPDHYIATL 130 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + DA + M++TV G GY ++ ++TE D IG I ID+L+SP+KKV++TV++AR GQV+D Sbjct: 131 NEDASLEMQITVINGKGYKISEFNKTEEDIIGDIAIDSLFSPVKKVNFTVDNARVGQVID 190 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 YDKL++ + T+G+I +D+++ S IL + L +F + D ++ Sbjct: 191 YDKLTIEVWTNGTIRPQDALSEGSNILINCLELFSELPNYECNTNSDDEDNQKDKETQMV 250 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+ S+RS NCL+ NI +GD++ T+ADM+++ NFG+KSL E++ L MGL Sbjct: 251 INIEELDFSLRSFNCLKRANINTVGDIVSHTKADMMKIKNFGKKSLDEVEEKLQEMGLAF 310 Query: 318 GMNLPD 323 + D Sbjct: 311 KQEIKD 316 >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 = 322 bits (826), Expect = 4e-86, Method: Composition-based stats. Identities = 128/333 (38%), Positives = 196/333 (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 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +V Y +E R GQ +YD+L + I T+G++T E ++ +++IL+ L FI + EP E+ Sbjct: 180 RVRYLIEETRVGQRTNYDRLILEIWTNGTVTPESALVESAKILRKHLNPFITYREPGPEM 239 Query: 242 KED-----------INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 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|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 = 322 bits (826), Expect = 4e-86, Method: Composition-based stats. Identities = 144/305 (47%), Positives = 211/305 (69%), 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 TNGTLDPEEAIRRSATILAEQLEAFVDLRDVSVPEKKE---EKPEFDPILLRPVDDLELT 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|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 = 322 bits (826), Expect = 4e-86, Method: Composition-based stats. Identities = 140/330 (42%), Positives = 223/330 (67%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSP 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 PVAQEPREE---VDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >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 = 322 bits (826), Expect = 4e-86, Method: Composition-based stats. Identities = 137/310 (44%), Positives = 197/310 (63%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP+ IE + L E + EPL G+ T+GN+LRRVL+SSL GAAI+ + I G Sbjct: 3 EIEKPS-IEKLELD-ESGVYGKFVVEPLESGYGITIGNSLRRVLLSSLPGAAISFINIRG 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|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 = 322 bits (826), Expect = 4e-86, Method: Composition-based stats. Identities = 129/310 (41%), Positives = 189/310 (60%), Gaps = 2/310 (0%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + KP I+ ++ + EPL RG+ TLGN+LRR+L+SSL GAA ++ I+GV Sbjct: 4 IEKPKI--QIIEESSDKRFGRFVVEPLERGYGTTLGNSLRRMLISSLPGAAARSIDIEGV 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 VLGTMGLFLG 318 L + L Sbjct: 302 KLQELELGFK 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 = 322 bits (826), Expect = 4e-86, Method: Composition-based stats. Identities = 140/330 (42%), Positives = 223/330 (67%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSP 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 PVAQEPREE---VDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >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 = 322 bits (826), Expect = 4e-86, Method: Composition-based stats. Identities = 146/330 (44%), Positives = 219/330 (66%), Gaps = 7/330 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 LI P +I + ++ EPL RG+ T+GN+LRR+L+SSL GAA+T+V +DGV Sbjct: 3 LINPRHISIE--EKVPGRAAKIVFEPLERGYGTTIGNSLRRMLLSSLPGAAVTSVLMDGV 60 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE SIKGV ED+ DIIL++K ++L+M GD +++ +G +VTA DI+ + VL Sbjct: 61 AHEYDSIKGVREDVMDIILSLKELDLRMEGDEAATISLEIKGSAIVTAADIKCPAGLSVL 120 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ ++ +L+ DA +++E V KG GY PA + +G + +DA YSPI++VS VE Sbjct: 121 NPELILAHLNDDAHLKIEAVVEKGRGYEPATDREVDERAVGSLLVDASYSPIRRVSTRVE 180 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 +AR GQ +YDKL M I+T+GS++ E+++ A++IL+ QL +F++FE + + Sbjct: 181 AARVGQRTNYDKLIMEIETNGSLSPEEALNSAAKILEAQLAVFVDFENV--SIVSEPEGP 238 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 + L++ +E L+LSVRS NCL+ +++ +GDL+QR+E +MLR NFGRKSL EIK Sbjct: 239 DDTLDNLLIQPIEHLDLSVRSMNCLKSDDVFRVGDLVQRSEQEMLRTPNFGRKSLNEIKE 298 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYED 338 VL MGL LGM+LP+WPP +E A+ ED Sbjct: 299 VLENMGLELGMDLPNWPP---QEDAEALED 325 >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 = 322 bits (825), Expect = 5e-86, Method: Composition-based stats. Identities = 124/312 (39%), Positives = 186/312 (59%), Gaps = 2/312 (0%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + KP I+ ++ + EPL RG+ TLGN+LRR+L+SSL GAA ++ I+GV Sbjct: 4 IEKPKI--QIIEESSDKRFGRFVVEPLERGYGTTLGNSLRRMLISSLPGAAARSIDIEGV 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|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 = 322 bits (825), Expect = 5e-86, Method: Composition-based stats. Identities = 138/330 (41%), Positives = 223/330 (67%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSP 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 PVAQEPREE---VDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >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 = 322 bits (825), Expect = 5e-86, 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: 10 EGVHVEEVSDSEGQFVMGPLERGYGVTIGNALRRVLLSSLRGLAITAVKIDGVQHEFSTI 69 Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVI 134 GV ED+ D+ILN+K + K + + GPG TA DI + + +VLNPD + Sbjct: 70 PGVTEDVADLILNLKEVRFKADEMQEGHLHLNLEGPGNWTAADIDEATAEYDVLNPDQHV 129 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 L DAVV ++L V G GYVP++ ++ E+DPIG+I ID++++PIK V+Y V+ R GQ Sbjct: 130 ATLAEDAVVNVDLRVGYGRGYVPSEENKREDDPIGVIAIDSIFTPIKNVNYEVKPTRVGQ 189 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF-- 252 +DY++L + ++TDGS+T E+++ + IL+D + FI EE + V E+ V Sbjct: 190 KIDYEELLLDVETDGSLTPEEAITQGASILRDHVSFFIQLEEEPEPVVEEQEVDEEVKRI 249 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 L + V+EL+LSVRS NCL+ NI +GDL++R E +ML+ NFGRKSL E+ VL Sbjct: 250 RELLAQPVDELDLSVRSHNCLKAANIKTIGDLVRREEDEMLKFRNFGRKSLQELVEVLDE 309 Query: 313 MGLFLGMNLPDWPPE 327 GL GM++ ++ E Sbjct: 310 RGLQFGMDVEEYLEE 324 >gi|257471550|ref|ZP_05635549.1| DNA-directed RNA polymerase subunit alpha [Buchnera aphidicola str. LSR1 (Acyrthosiphon pisum)] Length = 324 Score = 321 bits (824), Expect = 6e-86, Method: Composition-based stats. Identities = 143/326 (43%), Positives = 212/326 (65%), Gaps = 10/326 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + ++P ++ + Q T + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDG Sbjct: 2 DFLRPRLVD---IEQISATHTKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+ +GV ED+ +I+LN+K + +K+ G +T+ K G G +TA DI D+E+ Sbjct: 59 VLHEYSTKEGVQEDVLEILLNLKALAVKVYGKDETLLTLHKSGIGSITAADIIHDGDVEI 118 Query: 128 LNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKKV 183 + P HVIC+L D +A ++M + V +G GY+PA + PIG + +DA YSPI ++ Sbjct: 119 IKPQHVICHLTDENASIKMRIKVQRGRGYIPASSRVHLEEDARPIGCLLVDACYSPINRI 178 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ Sbjct: 179 SYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDIREPE-- 236 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 237 -FKEEKPEFEPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 295 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESI 329 EIK VL + L LGM L +WPP SI Sbjct: 296 TEIKDVLASRSLSLGMRLENWPPSSI 321 >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 = 321 bits (824), Expect = 7e-86, 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 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF-- 252 +DY++L + ++TDGS+T E+++ + IL+D + FI EE + V E+ V Sbjct: 183 KIDYEELLLDVETDGSLTPEEAITQGASILRDHVSFFIQLEEEPEPVVEEQEVDEEVKRI 242 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 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|294842678|ref|ZP_06787361.1| DNA-directed RNA polymerase subunit alpha [Acinetobacter sp. 6014059] Length = 335 Score = 321 bits (824), Expect = 7e-86, Method: Composition-based stats. Identities = 140/330 (42%), Positives = 223/330 (67%), 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSP 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 PVAQEPREE---VDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >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 = 321 bits (824), Expect = 7e-86, Method: Composition-based stats. Identities = 128/309 (41%), Positives = 187/309 (60%), Gaps = 2/309 (0%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + KP I+ ++ + EPL RG+ TLGN+LRR+L+SSL GAA ++ I GV Sbjct: 4 IEKPKI--QIIEESSDKRFGRFVVEPLERGYGTTLGNSLRRMLISSLPGAAARSIDIQGV 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|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 = 321 bits (824), Expect = 7e-86, Method: Composition-based stats. Identities = 146/329 (44%), Positives = 215/329 (65%), Gaps = 7/329 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q+ ++L+ P ++ + + + EPL RGF HTLGNALRR+L+SS+ GAAI Sbjct: 1 MQEMLEQLLTPRLVDIKTVNGFN---SRVTLEPLERGFGHTLGNALRRILLSSMPGAAIV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT-ENDPIGLITIDALYSPI 180 +D E++NPD VI +L A + M+L V KG GY A E+ IG++ +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 VQEE---EENEFDPIFLQPVDDLELTVRSANCLKAEQIYYIGDLVQRAESSLLKTPNLGK 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 KSL EIK VL GL LG L +WPP S+ Sbjct: 295 KSLQEIKDVLAQRGLGLGTKLENWPPSSL 323 >gi|171911662|ref|ZP_02927132.1| DNA-directed RNA polymerase subunit alpha [Verrucomicrobium spinosum DSM 4136] Length = 371 Score = 321 bits (823), Expect = 9e-86, Method: Composition-based stats. Identities = 132/328 (40%), Positives = 194/328 (59%), Gaps = 8/328 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 PN + + +AEP RG+ HT+GN+LRRVL+SSL GA+IT+V+I G Sbjct: 8 FEMPNRL-VKNEATATDYYAQFVAEPFDRGYGHTIGNSLRRVLLSSLEGASITSVRIKGA 66 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK-MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 HE +++ GV ED+T I+LN+K + + + + + GVVTAGDI+ +V Sbjct: 67 EHEFTTLPGVLEDVTQIVLNLKKVKFRHFENKETRLLQVSVDKEGVVTAGDIKDDTSYQV 126 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N D VIC LD EL V G G+ + ++ + PIG+I ID+++SP+ +V Y V Sbjct: 127 INKDQVICTLDRKGKFEAELEVKVGRGFATNEDNKRPDMPIGVIPIDSIFSPVTRVKYGV 186 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK---ED 244 E+ R GQ DYDKL + + TDG IT +D++ +S IL+ L +F+N+++ + E + E Sbjct: 187 EATRVGQNTDYDKLLIDVWTDGRITPQDALLQSSAILRKHLDVFVNYDDNQVEFEVAPEA 246 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + ++L L V E+ELSVR+ NCL NI +G L ++EA+MLR NFG+KSL Sbjct: 247 QSEENLELRKLLNMSVNEIELSVRAANCLNNANITSVGQLAMKSEAEMLRYRNFGKKSLT 306 Query: 305 EIKGVLGTMGLFLGMNLPDWPPESIEEL 332 EIK L +GL LGM L P +E L Sbjct: 307 EIKEKLSELGLTLGMKL---DPSLLEPL 331 >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 = 321 bits (823), Expect = 9e-86, Method: Composition-based stats. Identities = 132/306 (43%), Positives = 196/306 (64%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 IV E+ N + PL RG+ TLGN+LRRVL+SSL GAAI+ + I GV HE+S+IKG Sbjct: 11 IVELDEQNNYGKFVIMPLERGYGTTLGNSLRRVLLSSLPGAAISKINIQGVAHEMSTIKG 70 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +IILN+KGI +K + + + +GP V+TA DI D+EV NPDH I L Sbjct: 71 VKEDVPEIILNLKGIAVKKYNEEPISLNVDIKGPCVLTAKDILVDTDLEVKNPDHYIATL 130 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + DA + M++TV G GY ++ ++T+ D IG I ID+L+SP+KKV++TV++AR GQV+D Sbjct: 131 NEDASLEMQITVINGKGYKISEFNKTDEDIIGDIAIDSLFSPVKKVNFTVDNARVGQVID 190 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 YDKL++ + T+G+I +D+++ S IL + L +F + D + Sbjct: 191 YDKLTIEVWTNGTIRPQDALSEGSNILINCLELFSELPNYECNTNSDDEDNQKDKETQMG 250 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+ S+RS NCL+ NI +GD++ T+ADM+++ NFG+KSL E++ L MGL Sbjct: 251 INIEELDFSLRSFNCLKRANINTVGDIVSHTKADMMKIKNFGKKSLDEVEEKLQEMGLAF 310 Query: 318 GMNLPD 323 + D Sbjct: 311 KEEIKD 316 >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 = 321 bits (823), Expect = 1e-85, Method: Composition-based stats. Identities = 139/330 (42%), Positives = 222/330 (67%), Gaps = 8/330 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + E + P I+ + +I EPL RGF HTLGNALRR+L+SSL GAA+ Sbjct: 1 MTRTANEFLTPQAIK---VEAASGTSAKVILEPLERGFGHTLGNALRRILLSSLPGAAVV 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSP 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 PVAQEPREE---VDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >gi|190341325|gb|ACE74739.1| RpoA [Enterobacter cowanii] Length = 308 Score = 321 bits (823), Expect = 1e-85, Method: Composition-based stats. Identities = 138/314 (43%), Positives = 208/314 (66%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 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|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 = 321 bits (822), Expect = 1e-85, 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 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +V Y VE R GQ ++DKL M I T G+I + ++ A++IL+ L F+ + EP + Sbjct: 180 RVEYRVEETRVGQKTNFDKLIMRIWTTGTIRPDMALVEAAKILRKHLNPFVQYFEPGPGL 239 Query: 242 KED----------INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 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|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 = 321 bits (822), Expect = 1e-85, Method: Composition-based stats. Identities = 138/314 (43%), Positives = 208/314 (66%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 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|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 = 321 bits (822), Expect = 1e-85, Method: Composition-based stats. Identities = 130/315 (41%), Positives = 203/315 (64%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP IE + E++ + EPL RG+ TLGN+LRR+++SSL G+A++ V+I+G Sbjct: 3 DFNKP-KIEITEIS-EDKKFGRFVVEPLERGYGTTLGNSLRRIMLSSLPGSAVSQVKIEG 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 VEIKGVLGTMGLFLG 318 E+ L +GL L Sbjct: 301 EEVLAKLNELGLSLS 315 >gi|190341367|gb|ACE74760.1| RpoA [Enterobacter radicincitans] Length = 308 Score = 320 bits (821), Expect = 1e-85, Method: Composition-based stats. Identities = 138/314 (43%), Positives = 208/314 (66%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 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|190341399|gb|ACE74776.1| RpoA [Cronobacter genomosp. 1] Length = 308 Score = 320 bits (821), Expect = 2e-85, Method: Composition-based stats. Identities = 138/314 (43%), Positives = 208/314 (66%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 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 = 320 bits (821), Expect = 2e-85, Method: Composition-based stats. Identities = 138/314 (43%), Positives = 208/314 (66%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 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|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 = 320 bits (821), Expect = 2e-85, Method: Composition-based stats. Identities = 132/318 (41%), Positives = 205/318 (64%), Gaps = 10/318 (3%) Query: 8 ELIKPN-NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E KP IE I E++ + EPL RG+ TLGN+LRR+++SSL G+A++ V+ID Sbjct: 3 EFEKPTIRIEEI---SEDKRYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGSAVSQVKID 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRG---PGVVTAGDIQTVN 123 GVLHE S I GV ED++DII+NIK + +K S DS++ + GVVTAGDI T + Sbjct: 60 GVLHEFSPIPGVKEDVSDIIMNIKNLAIKNSSDSNEPKIAYIECDGREGVVTAGDIHTDS 119 Query: 124 DIEVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 DIE++NPD I L+ + MELT++ G GYV A+ ++ E+ PIG+++ID++Y+P++ Sbjct: 120 DIEIMNPDLPIATLNGGNDCKLFMELTITNGRGYVSAEKNKHEDTPIGVLSIDSIYTPVE 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +V+ TV++ R GQV D+DKL++ + T+G++ +D+V+LA+++L + L +F++ + K+V Sbjct: 180 RVNMTVQNTRVGQVTDFDKLTLEVYTNGTLAPDDAVSLAAKVLCEHLNLFVDLSDNTKDV 239 Query: 242 KED-INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 I ++ELELSVRS NCL+ I + +L +T DM+++ N GR Sbjct: 240 VGTFIEKPEDEKVKTGAINIDELELSVRSYNCLKRAGINTVEELCSKTAEDMMKVRNLGR 299 Query: 301 KSLVEIKGVLGTMGLFLG 318 KSL E+ L +GL L Sbjct: 300 KSLEEVLAKLKELGLELS 317 >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 = 320 bits (820), Expect = 2e-85, Method: Composition-based stats. Identities = 110/311 (35%), Positives = 193/311 (62%), Gaps = 4/311 (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 GVLGTMGLFLG 318 L +G L Sbjct: 299 HKLHELGFTLK 309 >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 = 320 bits (820), Expect = 2e-85, Method: Composition-based stats. Identities = 138/314 (43%), Positives = 208/314 (66%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 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|190341307|gb|ACE74730.1| RpoA [Citrobacter koseri] gi|190341309|gb|ACE74731.1| RpoA [Citrobacter koseri] Length = 308 Score = 320 bits (820), Expect = 2e-85, Method: Composition-based stats. Identities = 138/314 (43%), Positives = 208/314 (66%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 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|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 = 320 bits (820), Expect = 2e-85, Method: Composition-based stats. Identities = 133/333 (39%), Positives = 195/333 (58%), 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 KE---DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + +++ + L 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|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 = 320 bits (820), Expect = 2e-85, Method: Composition-based stats. Identities = 138/314 (43%), Positives = 208/314 (66%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 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|168701504|ref|ZP_02733781.1| DNA-directed RNA polymerase subunit alpha [Gemmata obscuriglobus UQM 2246] Length = 336 Score = 320 bits (820), Expect = 2e-85, 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|190341387|gb|ACE74770.1| RpoA [Pantoea sp. E147] Length = 308 Score = 320 bits (820), Expect = 2e-85, 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+IDGV Sbjct: 1 FLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 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|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 = 319 bits (819), Expect = 3e-85, Method: Composition-based stats. Identities = 126/314 (40%), Positives = 179/314 (57%), Gaps = 4/314 (1%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P ++ + +AEP G+ +T+GN+LRRVL+SSL GAAIT+V+I G HE Sbjct: 2 PKSL-VKDDASRTDTYAKFVAEPFEAGYGNTIGNSLRRVLLSSLEGAAITSVKITGAQHE 60 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ V +D+TDI+LN+K + K + + +TI G VTAGDI+ + EVLN D Sbjct: 61 FQTLPHVVDDVTDIVLNLKKVKFKANDHEIRNLTINVNKEGAVTAGDIEDSSQCEVLNKD 120 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 +IC LD EL V G G+ ++ + PIG+I ID+++SP+ +V YTV + R Sbjct: 121 QIICTLDKKTKFEAELEVKVGRGFSTGDENKHPDQPIGVIAIDSIFSPVTRVKYTVGNTR 180 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 GQ DYDKL + I TDG +T E+++ AS IL+ F ++E + E +S Sbjct: 181 VGQRTDYDKLELEIWTDGRLTPEEALVQASSILKKHFEPFYAYDENAVQFDETPQAQSQE 240 Query: 252 FNPAL---LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 V E+ELSVR+ NCL NI +G L +TEA+ML+ NFG+KSL EIK Sbjct: 241 NQKMKKLLNMSVNEIELSVRAANCLNNANITTVGQLAMKTEAEMLKYRNFGKKSLNEIKD 300 Query: 309 VLGTMGLFLGMNLP 322 L +GL LGM Sbjct: 301 KLTQLGLSLGMKFE 314 >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 = 319 bits (819), Expect = 3e-85, 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|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 = 319 bits (819), Expect = 3e-85, Method: Composition-based stats. Identities = 114/308 (37%), Positives = 174/308 (56%), Gaps = 11/308 (3%) Query: 18 IVLGQEEEN---RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISS 74 V ++N PL RG T+GNALRRVL+S+L G A+TAV+I GV HE S+ Sbjct: 28 CVESHRDDNGVHYGKFALGPLERGQGITVGNALRRVLLSNLEGTAVTAVRIAGVTHEFST 87 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 + GV ED+ +I+LN+K + L+ S + + +GPG VTA +Q +D+EV+NP H I Sbjct: 88 VPGVREDVMEILLNMKELVLRSSSPETQVGRLVAQGPGEVTAEKLQLPSDVEVINPRHHI 147 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 L A++ ME + +GHGY + ++ I + ID+++ P++KV+Y VE+AR GQ Sbjct: 148 ATLAEGAILEMEFMIGRGHGYRAVDYSDSKAMAIDFLQIDSVFMPVRKVNYAVEAARVGQ 207 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 L+ D+L + I T+GS+T +++++ A+RIL + K N Sbjct: 208 FLEKDRLVLEIWTNGSLTPQEALSQAARILVGLFAPLQEVS-----FDAPVPPKPDEDNQ 262 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +EEL+LSVR+ NCL+ I + DL+ TE D+L + NFG+KS E+ L Sbjct: 263 KNQIPIEELQLSVRAYNCLKRAQINTVADLLLYTEEDLLEIKNFGQKSAEEVVQALKA-- 320 Query: 315 LFLGMNLP 322 G+ LP Sbjct: 321 -RFGLTLP 327 >gi|190341305|gb|ACE74729.1| RpoA [Citrobacter koseri] Length = 308 Score = 319 bits (819), Expect = 3e-85, 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+IDGV Sbjct: 1 FLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 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 VKEEKPEFAPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >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 = 319 bits (819), Expect = 3e-85, Method: Composition-based stats. Identities = 128/319 (40%), Positives = 192/319 (60%), Gaps = 9/319 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 +E+ KP+ + I + + EPL RG+ TLGN+LRRVL+SSL G A+T ++I Sbjct: 1 MKEIEKPSLV--IDEISPDGRYGKFVWEPLERGYGITLGNSLRRVLLSSLSGMAVTGIKI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-----SHKRVTIFKRGPGVVTAGDIQ 120 DGVLHE S+I+GV ED+ DI+LNIK + K++ D K I K G G VT DI Sbjct: 59 DGVLHEFSTIEGVREDVADIVLNIKALCFKVNLDDQGTYEPKTFYIKKSGEGEVTGADII 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T D EVLNP+ I LD +A + ME+ V G GYV A +++++ PIG I +D++YSPI Sbjct: 119 TDQDTEVLNPELHIATLDKNANLNMEIYVDIGRGYVSADKNKSKDQPIGFIPVDSIYSPI 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +V + V R G V +YD+L++ + TDGS+ +++V A+ IL + L +F PK + Sbjct: 179 TRVKFGVTDTRVGNVTNYDRLTLEVWTDGSLGPDEAVTSAAEILINYLALFKTTNVPKIQ 238 Query: 241 VKEDINV--KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E+ + + L +++L+L+VRS NCLR I + D+I +TE +++ + N Sbjct: 239 GSEESGKPDEEGTKSSVLQMSIDDLDLTVRSNNCLRRAGINTVEDIINKTEDELICVRNL 298 Query: 299 GRKSLVEIKGVLGTMGLFL 317 G KSL E+K + +GL L Sbjct: 299 GSKSLEEVKNKIEELGLHL 317 >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 = 319 bits (818), Expect = 3e-85, Method: Composition-based stats. Identities = 143/333 (42%), Positives = 220/333 (66%), Gaps = 11/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q E R + EPL RGF HTLGNALRR+L+SS+ G AIT Sbjct: 1 MQNSVIEFLKPRLVD---IEQITETRAKVTLEPLERGFGHTLGNALRRILLSSMPGYAIT 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 VN-DIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 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 IHQPEHKE---EKPEFDPILLRLVDDLELTVRSANCLKAESIHYIGDLVQRTEIELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LG L +WPP +I Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGTRLENWPPTNI 327 >gi|190341453|gb|ACE74803.1| RpoA [Cronobacter sakazakii] Length = 308 Score = 319 bits (818), Expect = 4e-85, Method: Composition-based stats. Identities = 139/314 (44%), Positives = 208/314 (66%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 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|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 = 319 bits (818), Expect = 4e-85, 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 MMLNATEFLTPNAIHVDTVN---ETHAKVTLEPLERGFGHTLGNALRRILLSSLPGAAVI 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|328813947|gb|AEB52089.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 267 Score = 319 bits (817), Expect = 4e-85, 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|45644721|gb|AAS73109.1| predicted DNA-directed RNA polymerase alpha subunit [uncultured marine gamma proteobacterium EBAC20E09] Length = 321 Score = 319 bits (817), Expect = 4e-85, Method: Composition-based stats. Identities = 133/327 (40%), Positives = 204/327 (62%), Gaps = 6/327 (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 SLVEIKGVLGTMGLFLGMNLPDWPPES 328 SL EIK VL + L LGMN+ +WPP Sbjct: 295 SLNEIKDVLASKNLSLGMNVENWPPVG 321 >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 = 319 bits (817), Expect = 4e-85, Method: Composition-based stats. Identities = 148/330 (44%), Positives = 218/330 (66%), Gaps = 8/330 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + E +KP ++ + Q + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MHNSATEFLKPRLVD---IEQISKTHAKITLEPLERGFGHTLGNALRRILLSSMPGYAVT 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+ + +K Sbjct: 178 IERISYNVEAARVEQRTDLDKLIIEMETNGTIDPESAIRRAATILSEQLEAFIDLRDIRK 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +I + F+P LL+ V++LEL+VRS NCL+ E+I Y+GDL+QRTE ++L+ N G Sbjct: 238 P---EIKEEKPEFDPVLLRPVDDLELTVRSANCLKAESIHYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL T L LGM + +WPP SI Sbjct: 295 KKSLTEIKDVLSTRNLTLGMRIENWPPVSI 324 >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 = 319 bits (817), Expect = 5e-85, 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|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 = 319 bits (817), Expect = 5e-85, 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|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 = 318 bits (816), Expect = 6e-85, Method: Composition-based stats. Identities = 113/308 (36%), Positives = 175/308 (56%), Gaps = 11/308 (3%) Query: 18 IVLGQEEEN---RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISS 74 V +E N PL RG T+GNALRRVL+S+L G A+TAV+I GV HE S+ Sbjct: 26 CVESHQEANGVHYGKFALGPLERGQGITVGNALRRVLLSNLEGTAVTAVRIAGVTHEFST 85 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 + GV ED+ +I+LN+K + L+ + + + +GPG VTA +Q +++EV+NP H I Sbjct: 86 VPGVREDVMEILLNMKELVLRSNAPDTQVGRLVAQGPGEVTAEKLQLPSEVEVINPRHHI 145 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 L A++ ME + +G GY + +++ I + ID+++ P++KV+YTVE+AR GQ Sbjct: 146 ATLAEGAILEMEFMIGRGRGYRAVDYSDSKSMAIDFLQIDSVFMPVRKVNYTVEAARVGQ 205 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 L+ D+L + I T+GS+T +++++ A+RIL + N Sbjct: 206 SLEKDRLILEIWTNGSLTPQEALSQAARILVGLFSPLQEVS-----FDTPPEPRQAEDNQ 260 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +EEL+LSVR+ NCL+ I + DL+ TE D+L + NFG+KS E+ L Sbjct: 261 KNQIPIEELQLSVRAYNCLKRAQINTVADLLVYTEEDLLEIKNFGQKSAEEVVQALKN-- 318 Query: 315 LFLGMNLP 322 LG+ LP Sbjct: 319 -RLGLTLP 325 >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 = 318 bits (816), Expect = 7e-85, Method: Composition-based stats. Identities = 121/329 (36%), Positives = 188/329 (57%), Gaps = 8/329 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P E ++ Q R+ EPL GF +TLGN+LRR L+SS+ G+A+T+++I+G LH Sbjct: 6 QPQLTEEVINNQ----RSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGSAVTSIKIEGALH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+T ++LNIK I L D + + K G G VT GDI + + NP Sbjct: 62 EFTTLPGVKEDVTQVVLNIKEIVLSSDNDEPVVMYLRKTGEGEVTVGDIMPPAGVVIHNP 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 +H I L+ D + +ELTV +G GYV A ++ I I +D++YSP+ KVSY VE+ Sbjct: 122 EHHIATLNKDGKLEIELTVERGRGYVSAAQNKDPEAEISRIPVDSIYSPVLKVSYHVEAT 181 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R Q D+D+L + ++T +I+ D++A A + L + G+ + ++ + Sbjct: 182 RVEQRTDFDRLIVDVETKKAISPRDAMASAGKTLVELFGLARALNADAEGIELGSSNTDS 241 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L VE+LEL+ R+ NCL E I +GDL+ R++AD+L + NFG KS+ EIK L Sbjct: 242 ALAEDLAMSVEDLELTSRALNCLNREGIKTVGDLVARSQADLLDIRNFGHKSIDEIKEKL 301 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYEDK 339 TM GM+L D + ++ D+ Sbjct: 302 ATM----GMSLKDSQNPETDSGVPQFSDE 326 >gi|148793282|gb|ABR12705.1| DNA-directed RNA polymerase alpha subunit [Photobacterium kishitanii] Length = 308 Score = 318 bits (816), Expect = 7e-85, Method: Composition-based stats. Identities = 140/314 (44%), Positives = 205/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVD---IEQVSSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 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 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE--- 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|190341335|gb|ACE74744.1| RpoA [Enterobacter helveticus] Length = 307 Score = 318 bits (815), Expect = 8e-85, Method: Composition-based stats. Identities = 138/313 (44%), Positives = 208/313 (66%), Gaps = 10/313 (3%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVL Sbjct: 1 LKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVL 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|254701949|ref|ZP_05163777.1| DNA-directed RNA polymerase subunit alpha [Brucella suis bv. 5 str. 513] Length = 267 Score = 318 bits (815), Expect = 8e-85, 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|328813951|gb|AEB52091.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 260 Score = 318 bits (815), Expect = 8e-85, 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|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 = 318 bits (815), Expect = 8e-85, Method: Composition-based stats. Identities = 124/314 (39%), Positives = 197/314 (62%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + PN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA+T V+I+G Sbjct: 3 DFKIPN-IEIAEIS-EDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVTTVKIEG 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 EVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 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 VEIKGVLGTMGLFL 317 EIK + +GL L Sbjct: 301 EEIKAKIKALGLSL 314 >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 = 318 bits (815), Expect = 8e-85, Method: Composition-based stats. Identities = 141/319 (44%), Positives = 207/319 (64%), 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 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 VPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFL 317 G+KSL EIK VL + GL L Sbjct: 295 GKKSLTEIKDVLASRGLSL 313 >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 = 318 bits (814), Expect = 9e-85, Method: Composition-based stats. Identities = 140/334 (41%), Positives = 213/334 (63%), Gaps = 12/334 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQSSVTEFLIPRLVN---IEQISMTHVKITLEPLERGFGHTLGNALRRILLSSMPGFAVT 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-VDAVVRMELTVSKGHGYVPAKHHR-----TENDPIGLITIDA 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 DIREPE---IKEEKPEFDPILLRPVDDLELTVRSANCLKAEMIHYIGDLVQKTEVELLRT 294 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL L LGMNL +WPP++I Sbjct: 295 PNLGKKSLTEIKDVLAAKNLSLGMNLENWPPDNI 328 >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 = 318 bits (814), Expect = 9e-85, Method: Composition-based stats. Identities = 138/314 (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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 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 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE--- 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|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 = 318 bits (814), Expect = 1e-84, Method: Composition-based stats. Identities = 130/302 (43%), Positives = 187/302 (61%), Gaps = 5/302 (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 LG 318 Sbjct: 315 FK 316 >gi|190341379|gb|ACE74766.1| RpoA [Escherichia vulneris] Length = 308 Score = 318 bits (814), Expect = 1e-84, Method: Composition-based stats. Identities = 137/313 (43%), Positives = 207/313 (66%), Gaps = 10/313 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 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|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 = 318 bits (814), Expect = 1e-84, Method: Composition-based stats. Identities = 139/314 (44%), 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---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 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 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE--- 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|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 = 318 bits (814), Expect = 1e-84, 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|328813955|gb|AEB52093.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 261 Score = 317 bits (813), Expect = 1e-84, 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|90194010|gb|ABD92566.1| RpoA [Actinobacillus minor NM305] Length = 303 Score = 317 bits (813), Expect = 1e-84, Method: Composition-based stats. Identities = 138/304 (45%), Positives = 206/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+ +T+ K G G VTAGDI D+E++NPDHVIC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVQSKDDVVLTLNKSGIGPVTAGDITHDGDVEIVNPDHVICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D +A + M + V +G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Sbjct: 122 TDKNASINMRIRVQRGRGYVPASARVHTQDDDRPIGRLLVDARFSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ V + + F+ Sbjct: 182 QRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQPV---VKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >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 = 317 bits (813), Expect = 1e-84, Method: Composition-based stats. Identities = 113/312 (36%), Positives = 174/312 (55%), Gaps = 10/312 (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 + + + +V Sbjct: 185 VGGSLEKDRLILDIWTNGSLTPQEALSQAATILVDLFVPLKDITLESIKTDQTDDV---- 240 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL+LSVR+ NCL+ I + DL T+ D+L + NFG+KS E+ L Sbjct: 241 -DPTSQIPIEELQLSVRAYNCLKRAQINSVADLRDYTQEDLLEIKNFGQKSAEEVIEAL- 298 Query: 312 TMGLFLGMNLPD 323 LG+ LP Sbjct: 299 --QKRLGITLPQ 308 >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 = 317 bits (813), Expect = 1e-84, Method: Composition-based stats. Identities = 127/310 (40%), Positives = 204/310 (65%), Gaps = 4/310 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 K IE + E+ + EPL RG+ TLGN+LRR+++SSL G A+++++I+GVLH Sbjct: 9 KMPKIE-MTEKSEDGKYGKFVVEPLERGYGLTLGNSLRRIMLSSLVGTAVSSIKIEGVLH 67 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 E SSI GV ED+T+I++NIK +++K +G+ K I G GVV A DIQ DIE++ Sbjct: 68 EFSSIPGVKEDVTEIVMNIKQLSIKNNGNSVEPKEAHIDFVGEGVVRASDIQVDPDIEII 127 Query: 129 NPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 NPD VI +L+ D+ + MELT++ G GYV ++ ++ ++ P G+I ID++Y+P+++V+ V Sbjct: 128 NPDLVIAHLNGADSKLTMELTITNGRGYVSSEKNKRDDQPAGVIAIDSIYTPVERVNMAV 187 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ++ R GQ D+DKL++ I T+G+I +++++LA+++L + L FIN E ++V+ + Sbjct: 188 QNTRVGQDTDFDKLTLDIFTNGTIEPDEALSLAAKVLSEHLKGFINLSENAQKVEIMVEQ 247 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +E+LELSVRS+NCLR I + +L +T DM+++ N G+KSL E+ Sbjct: 248 EEDETTKVLSMSIEDLELSVRSSNCLRRAGINTVEELCNKTSDDMMKVRNLGKKSLDEVL 307 Query: 308 GVLGTMGLFL 317 L MGL L Sbjct: 308 LKLKEMGLHL 317 >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 = 317 bits (813), Expect = 1e-84, 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 EVKEDINVKSLPFNPALLKK-VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 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|58416032|emb|CAH57430.1| RNA polymerase alpha-subunit [Vibrio sp. R-21419] Length = 308 Score = 317 bits (813), Expect = 1e-84, Method: Composition-based stats. Identities = 138/314 (43%), Positives = 203/314 (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 YAVEAARVEQRTDLDKLVIDMQTNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE--- 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|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 = 317 bits (813), Expect = 1e-84, Method: Composition-based stats. Identities = 128/302 (42%), Positives = 187/302 (61%), Gaps = 5/302 (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 LG 318 Sbjct: 315 FK 316 >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 = 317 bits (813), Expect = 1e-84, Method: Composition-based stats. Identities = 135/330 (40%), Positives = 209/330 (63%), Gaps = 8/330 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + N E + PN I + E + EPL RGF HTLGNALRR+L+SSL GAA+ Sbjct: 1 MMLNATEFLTPNAINVDTVN---ETIAKVTLEPLERGFGHTLGNALRRILLSSLPGAAVI 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGV HE S+++G+ ED+ D++LN+KG+ + + + +T+ K+GPG +TA DI Sbjct: 58 EAEIDGVDHEYSTLEGLQEDVLDLLLNLKGLAITLHDQNEVFLTLDKQGPGTITAADITL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI--GLITIDALYSP 179 ++++++NP+ V+ L ++M L V G GY PA R + D G + +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 VLRVAYQVENARVEQRTDLDRLIIELETNGTIDPEEAIRKAATILQQQISIFVDLE---A 234 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 E + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QR+E ++L+ N G Sbjct: 235 EEAPEPVKEKEEVDPVLLRPVDDLELTVRSANCLKAENIYYIGDLVQRSETELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + L LGM L +WPP + Sbjct: 295 KKSLTEIKDVLASKDLELGMRLDNWPPADL 324 >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 = 317 bits (812), Expect = 2e-84, Method: Composition-based stats. Identities = 119/303 (39%), Positives = 177/303 (58%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + +NR+ I EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGV HE S++ GV Sbjct: 20 TEEKVSDNRSRFILEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVQHEFSTVPGV 79 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ +IILNIK I L D + + K G GVVTAGDI +E+ NP+ + L Sbjct: 80 KEDVAEIILNIKNIVLSSENDEPVVMYLRKTGAGVVTAGDITPPAGVEIHNPELELATLS 139 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 V +ELTV +G GYV A ++ N I I ID++YSP+ KV+Y VE+ R Q D+ Sbjct: 140 EKGKVEIELTVERGRGYVSAMQNKDPNAEISRIPIDSIYSPVLKVTYKVEATRVEQRTDF 199 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 D+L + ++T +IT D++A A + L + G+ + ++ + L Sbjct: 200 DRLIVDVETKPAITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSATDETLAADLAL 259 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E L L RS N LR I+ +G+L+ +EAD+L + NFG KS+ EIK L +G+ L Sbjct: 260 PIENLGLQSRSYNALRRRGILSVGELVAHSEADLLDIRNFGLKSIEEIKEKLAGLGMTLK 319 Query: 319 MNL 321 ++ Sbjct: 320 DSV 322 >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 = 317 bits (812), Expect = 2e-84, 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|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 = 317 bits (812), Expect = 2e-84, Method: Composition-based stats. Identities = 134/330 (40%), Positives = 211/330 (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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI--GLITIDALYSP 179 ++++++NP+ V+ L ++M L V G GY PA R + D G + +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 VSRVAYQVENARVEQRTDLDRLIIELETNGTIDPEEAIRKAATILQQQISIFVDLE---A 234 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 E + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QR+E ++L+ N G Sbjct: 235 EEAPEPVKEKEEVDPVLLRPVDDLELTVRSANCLKAENIYYIGDLVQRSETELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL L M L +WPP + Sbjct: 295 KKSLTEIKDVLASKGLELDMRLENWPPADL 324 >gi|58415734|emb|CAH57281.1| RNA polymerase alpha-subunit [Salinivibrio costicola subsp. costicola] Length = 308 Score = 316 bits (811), Expect = 2e-84, Method: Composition-based stats. Identities = 136/314 (43%), Positives = 203/314 (64%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 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-DAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKKVS 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 YNVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE--- 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 + GLFLG Sbjct: 295 EIKDVLASRGLFLG 308 >gi|90194012|gb|ABD92567.1| RpoA [Actinobacillus porcitonsillarum] Length = 303 Score = 316 bits (811), Expect = 2e-84, Method: Composition-based stats. Identities = 136/304 (44%), Positives = 205/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+ +T+ K G G VTAGDI D+E++NPDHVIC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVQSKDDVVLTLNKSGIGPVTAGDITHDGDVEIVNPDHVICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D +A + M + V +G GYVPA + ++ PIG + +DA +SP+ +++Y VE+AR Sbjct: 122 TDKNASINMRIRVQRGRGYVPASARVHAQDDDRPIGRLLVDARFSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >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 = 316 bits (811), Expect = 2e-84, Method: Composition-based stats. Identities = 137/314 (43%), 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 FLKPRLVDIEQVST---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 YSP+ +++ Sbjct: 118 NPEHVICHITDDNAELSMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDRIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + Sbjct: 178 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE--- 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|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 = 316 bits (811), Expect = 2e-84, Method: Composition-based stats. Identities = 129/322 (40%), Positives = 200/322 (62%), Gaps = 6/322 (1%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I+ ++N + IA+PL RG+ TLGNA+RRVL++SL G AIT ++IDGV HE Sbjct: 8 PEKIDVDEGTHNDKN-GIFIAQPLERGYGVTLGNAMRRVLLASLPGTAITGIKIDGVFHE 66 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNP 130 S+I GV ED+ DIILN+K + + S + T+ GP VTAGDI + EVLN Sbjct: 67 FSAIDGVREDVPDIILNLKKVRFRSSTKRSCKTTVTVDGPADVTAGDIVAQEGEFEVLNT 126 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I ++ + + M++ + +G GYVPA+ +R + P+G I ID++++PIK V ++VE+ Sbjct: 127 DLHIATVNEGSRLSMDVYIGRGRGYVPAEDNRGDGMPLGFIAIDSIFTPIKNVKFSVENT 186 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI----N 246 R GQ DY+K+ + ++TDGS++ +DS++LA +I+ + + +F NF +E E+ + Sbjct: 187 RVGQRTDYEKMILDVETDGSVSPDDSISLAGKIINEHVSLFANFSPTDEEFTEEEYKQQD 246 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + LL ++E+L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL E+ Sbjct: 247 DEFENMRKMLLTRIEDLDLSVRSHNCLRLAEIDTLGDLVSRKEDELLTYKNFGKKSLTEL 306 Query: 307 KGVLGTMGLFLGMNLPDWPPES 328 K L L GM++ + + Sbjct: 307 KEQLEKFELKFGMDITKYQMKG 328 >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 = 316 bits (811), Expect = 2e-84, Method: Composition-based stats. Identities = 140/314 (44%), 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 FLKPRLVDIEQVSQ---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE--- 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|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 = 316 bits (811), Expect = 3e-84, Method: Composition-based stats. Identities = 122/321 (38%), Positives = 188/321 (58%), Gaps = 11/321 (3%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E ++P + + + I EPL RGF +TLGN +RRVL+SSL GA TA+QI Sbjct: 1 MAEFMRPT----VTTEEVNDTIARFIVEPLERGFGYTLGNCMRRVLLSSLDGARATAIQI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +GV HE ++ +GV ED+TDI LN+KG+ + + T+ GP VT DIQ Sbjct: 57 EGVQHEFTTAEGVIEDVTDIALNVKGLVFQALSEDYTEATATVSVEGPCTVTGADIQVPT 116 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 + ++NP+HVIC + + M + + G GYVPA+ ++ DPIG+I +D+L+SP+++ Sbjct: 117 EFTLVNPEHVICTVADGGTLNMTIRIGVGRGYVPAERNKRSEDPIGIIHVDSLFSPVQRC 176 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + V S R GQ D+DKL + + TDGSIT +++V A+ I+ +G F+ + E ++ Sbjct: 177 TADVSSTRVGQRTDFDKLVLEVATDGSITPDEAVCRAANIINQYMGSFMALADIAGEDED 236 Query: 244 DI-----NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + N L K++E+L+LSVRS NCL+ I + L++ +E D+L + NF Sbjct: 237 GEIPSIFAPEGQESNAELDKQIEDLDLSVRSYNCLKRAGIHSVRQLVEFSENDLLNIRNF 296 Query: 299 GRKSLVEIKGVLGTMGLFLGM 319 G KS+ E+K L +MGL L Sbjct: 297 GAKSIEEVKDKLISMGLNLKQ 317 >gi|190341313|gb|ACE74733.1| RpoA [Enterobacter amnigenus] Length = 308 Score = 316 bits (811), Expect = 3e-84, Method: Composition-based stats. Identities = 137/314 (43%), Positives = 207/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + P ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLNPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 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|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 = 316 bits (811), Expect = 3e-84, Method: Composition-based stats. Identities = 129/333 (38%), Positives = 195/333 (58%), 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 KE---DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + +++ + L 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|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 = 316 bits (810), Expect = 3e-84, Method: Composition-based stats. Identities = 136/314 (43%), Positives = 203/314 (64%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 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 YNVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE--- 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|328813991|gb|AEB52111.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 269 Score = 316 bits (810), Expect = 3e-84, Method: Composition-based stats. Identities = 122/269 (45%), Positives = 178/269 (66%), 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 VRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 M +T + G GYV A+ ++ ++ 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|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 = 316 bits (810), Expect = 3e-84, Method: Composition-based stats. Identities = 138/314 (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 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 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE--- 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|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 = 316 bits (810), Expect = 3e-84, 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 MADHWNKLTRPSSIKVV--GGKEPCVMELVIEPLESGFALTLGNALRRVMMSSLRGFAVY 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|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 = 316 bits (810), Expect = 3e-84, Method: Composition-based stats. Identities = 113/306 (36%), Positives = 179/306 (58%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + R+ PL GF +TLGN+LRR L+SS+ GAA+T++ IDGVLHE S+I+GV Sbjct: 10 TEEKISDTRSRFTLNPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIHIDGVLHEFSTIEGV 69 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ IILN+K + + D ++ + K GPG VTA DI +E+ NP+ +I L+ Sbjct: 70 KEDVAQIILNLKDLVVTSENDEPVQMYLRKAGPGQVTAEDITPPAGVEIHNPELLIATLN 129 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + ++LTV +G GYV A+ + + + IG I +D++YSP+ KVSY VE+ R GQ D+ Sbjct: 130 EKGKLEIDLTVERGRGYVSAQQNNSPDYEIGRIPVDSIYSPVVKVSYKVEATRVGQRTDF 189 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T S+ D+ A A + L + G+ + + ++ + L + Sbjct: 190 DKLIVDVETKPSMAPRDAFASAGKTLVELFGLTTELNQEVEGLELKEAPVVEQQSSDLQR 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 + L L RS NCL+ E I +G+L+ R+EAD+L + NFG KS+ ++K L + L L Sbjct: 250 PITILNLPARSQNCLQREGIHTIGELVLRSEADLLDIRNFGAKSIEDVKDELAKLDLRLK 309 Query: 319 MNLPDW 324 + + Sbjct: 310 DSPAGF 315 >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 = 316 bits (810), Expect = 3e-84, Method: Composition-based stats. Identities = 144/333 (43%), Positives = 218/333 (65%), Gaps = 9/333 (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 APVEVE---EKPEFDPILLRPVNDLELTVRSANCLKAESIYYIGDLVQRTEVELLKMPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK L + GL+LGM L +WPP S+ E Sbjct: 295 GRKSLTEIKDDLVSRGLYLGMRLENWPPASLIE 327 >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 = 316 bits (810), Expect = 3e-84, Method: Composition-based stats. Identities = 138/314 (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---IEQVNSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 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 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE--- 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|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 = 316 bits (810), Expect = 3e-84, Method: Composition-based stats. Identities = 129/314 (41%), Positives = 201/314 (64%), Gaps = 5/314 (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 KGVLGTMGLFLGMN 320 K L + L L Sbjct: 299 KDKLDELELELKDT 312 >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 = 316 bits (810), Expect = 3e-84, Method: Composition-based stats. Identities = 133/313 (42%), Positives = 209/313 (66%), Gaps = 2/313 (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 GVLGTMGLFLGMN 320 L + L L + Sbjct: 301 QKLANLELSLRQD 313 >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 = 316 bits (809), Expect = 4e-84, Method: Composition-based stats. Identities = 139/314 (44%), Positives = 204/314 (64%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQVSQ---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 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 YSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE--- 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|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 = 316 bits (809), Expect = 4e-84, Method: Composition-based stats. Identities = 160/306 (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 AKH----HRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 A ++ + 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|179184358|gb|ACB78144.1| RNA polymerase alpha subunit [Vibrio gallaecicus] Length = 315 Score = 316 bits (809), Expect = 4e-84, Method: Composition-based stats. Identities = 140/321 (43%), Positives = 207/321 (64%), Gaps = 11/321 (3%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 QGSVTEFLKPRLVD---IEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTE 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLG 318 G+KSL EIK VL + GL LG Sbjct: 295 LGKKSLTEIKDVLASRGLSLG 315 >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 = 315 bits (808), Expect = 5e-84, Method: Composition-based stats. Identities = 144/339 (42%), Positives = 212/339 (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-AVVRMELTVSKGHGYVPA--KHHRTENDPIGLITI---- 173 + ++++NP HVIC + D A++ M + V +G GYVPA K + ++ I I Sbjct: 118 DSSIVKIVNPAHVICVITDDHAILSMRIKVQRGRGYVPAFSKFNSILDEQQTAIPIGRLV 177 Query: 174 -DALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 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|295315349|gb|ADF97760.1| RpoA [Vibrio sp. KTW-12] Length = 311 Score = 315 bits (808), Expect = 6e-84, Method: Composition-based stats. Identities = 137/316 (43%), Positives = 205/316 (64%), 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 YAVEAARVEQRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE--- 235 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRT+ ++L+ N G+KSL Sbjct: 236 EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTDVELLKTPNLGKKSLT 295 Query: 305 EIKGVLGTMGLFLGMN 320 EIK VL + GL LGM Sbjct: 296 EIKDVLASRGLSLGMR 311 >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 = 315 bits (807), Expect = 6e-84, Method: Composition-based stats. Identities = 125/319 (39%), Positives = 189/319 (59%), Gaps = 9/319 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 +E+ KP+ + + + + EPL RG+ TLGN+LRRVL+SSL G A+T ++I Sbjct: 1 MKEIEKPSLV--VDEISPDGRYGKFVWEPLERGYGITLGNSLRRVLLSSLSGMAVTGIKI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-----SHKRVTIFKRGPGVVTAGDIQ 120 DGVLHE S+I+GV ED+ DI+LNIK + K+ D K I K G G VT D+ Sbjct: 59 DGVLHEFSTIEGVREDVADIVLNIKALCFKVGLDDQASFEPKTFYIKKAGEGEVTGADVI 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T D EVLNP+ I LD + + ME+ V G GYV A+ +++++ PIG I +D++YSPI Sbjct: 119 TDQDTEVLNPELHIATLDKNGALNMEIYVDVGRGYVQAEKNKSKDQPIGFIPVDSIYSPI 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +V + V R G V +YD+L++ + TDGS+ +++V A+ IL L +F P+ + Sbjct: 179 TRVKFGVTDTRVGNVTNYDRLTLEVWTDGSLGPDEAVTSAAEILIKYLALFKTTNVPRIQ 238 Query: 241 VKEDINV--KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 ED + L +++L+L+VRS NCLR I + D+I +TE +++ + N Sbjct: 239 GDEDGTKTSDEGSKSSVLQMSIDDLDLTVRSNNCLRRAGINTVEDIINKTEDELICVRNL 298 Query: 299 GRKSLVEIKGVLGTMGLFL 317 G KSL E+K + +GL L Sbjct: 299 GSKSLEEVKNKIEELGLHL 317 >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 = 315 bits (807), Expect = 7e-84, Method: Composition-based stats. Identities = 140/314 (44%), 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 FLKPRLVDIEQVSQ---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 YSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE--- 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|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 = 314 bits (806), Expect = 8e-84, 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 DGVLHEISSIKGVHEDLTDIILNIKGINLKMS--GDSHKRVTIFKRGPGVVTAGDIQTVN 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|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 = 314 bits (806), Expect = 9e-84, Method: Composition-based stats. Identities = 140/314 (44%), Positives = 204/314 (64%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQVSQ---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE--- 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|164608414|gb|ABY62510.1| DNA-directed RNA polymerase alpha subunit [Aliivibrio wodanis] Length = 308 Score = 314 bits (806), Expect = 9e-84, Method: Composition-based stats. Identities = 140/314 (44%), Positives = 204/314 (64%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQVSQ---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE--- 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|179184569|gb|ACB78152.1| RNA polymerase alpha subunit [Vibrio crassostreae] Length = 315 Score = 314 bits (806), Expect = 9e-84, Method: Composition-based stats. Identities = 138/321 (42%), Positives = 205/321 (63%), 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLG 318 G+KSL EIK VL + GL LG Sbjct: 295 LGKKSLTEIKDVLASRGLSLG 315 >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 = 314 bits (805), Expect = 1e-83, Method: Composition-based stats. Identities = 123/298 (41%), Positives = 183/298 (61%), Gaps = 1/298 (0%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + +E+E + +AEPLPRG HTLGNALRRV++S L GAA+T ++I+GV HE S+I+GV Sbjct: 12 VEEEDERHGIFVAEPLPRGLGHTLGNALRRVMLSGLPGAAVTKLRIEGVQHEFSTIEGVR 71 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+ DIILN+K + ++ D + I K GPG V DI+ D+EV+NPD I +L Sbjct: 72 EDVVDIILNVKQLKFRLERDEPIELQISKDGPGEVRGSDIELKADVEVVNPDAYIASLSE 131 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M LTV +G GYVPA+ ++++ DPIG+I +D+L+SP++KV Y V R G +D D Sbjct: 132 GGHLDMTLTVERGQGYVPAEQNKSDADPIGVIAVDSLFSPVEKVQYRVSETRAGARVDLD 191 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 L++ + TDG + +++ ASR L D G+F + +E P + Sbjct: 192 ALTLEVFTDGRLGPREALREASRKLIDFFGLFAEGYQGAGAAEEPGRSGGRPVI-TDERP 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+LEL+VRS NCL+ E + +G L TE +++ + N G KS+ EI+ L G L Sbjct: 251 IEDLELTVRSYNCLKREGVDTIGQLATMTEEELMNIRNLGMKSVDEIRSKLEEYGYTL 308 >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 = 314 bits (805), Expect = 1e-83, Method: Composition-based stats. Identities = 135/340 (39%), Positives = 208/340 (61%), Gaps = 9/340 (2%) 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 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYS 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+ K Sbjct: 178 PILRATYSVENARVEQRTDLDKLVIDLETNGTIDPEEAIRRAATIIQEQLRTFVEL---K 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 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 G+ SL EIK L GL LGM +P S+++ + E+ Sbjct: 295 GKVSLWEIKTALQKRGLSLGMEVPIQQLASLKKSLEATEE 334 >gi|40063201|gb|AAR38038.1| DNA-directed RNA polymerase, alpha subunit [uncultured marine bacterium 562] Length = 321 Score = 314 bits (805), Expect = 1e-83, Method: Composition-based stats. Identities = 133/327 (40%), Positives = 204/327 (62%), Gaps = 6/327 (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 SLVEIKGVLGTMGLFLGMNLPDWPPES 328 SL EIK VL + L LGMN+ +WPP Sbjct: 295 SLNEIKDVLASKELSLGMNVDNWPPVG 321 >gi|328814007|gb|AEB52119.1| DNA-directed RNA polymerase alpha chain [Lactobacillus rhamnosus] Length = 258 Score = 314 bits (804), Expect = 1e-83, 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|58415862|emb|CAH57345.1| RNA polymerase alpha-subunit [Vibrio gazogenes] Length = 309 Score = 314 bits (804), Expect = 1e-83, Method: Composition-based stats. Identities = 141/315 (44%), Positives = 208/315 (66%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYTVEAARVEQRTDLDKLVIDMETNGTIEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >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 = 314 bits (804), Expect = 1e-83, Method: Composition-based stats. Identities = 138/314 (43%), Positives = 203/314 (64%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQVST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE--- 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|168334324|ref|ZP_02692511.1| DNA-directed RNA polymerase, alpha subunit [Epulopiscium sp. 'N.t. morphotype B'] Length = 319 Score = 314 bits (804), Expect = 2e-83, Method: Composition-based stats. Identities = 122/314 (38%), Positives = 189/314 (60%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP+ IE L E+ + EPL RG+ TLGN LRR+L+S+L G+A++ V+ +G Sbjct: 3 EFEKPS-IEIKALS-EDGKYGCFVIEPLERGYGMTLGNGLRRILLSTLPGSAVSNVKFEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE S+I GV ED+ +IILN+KG+ ++ + 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|161511875|emb|CAP16948.1| DNA-directed RNA polymerase subunit alpha [Pediococcus siamensis] Length = 275 Score = 313 bits (803), Expect = 2e-83, Method: Composition-based stats. Identities = 119/266 (44%), Positives = 175/266 (65%), Gaps = 2/266 (0%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E EN + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED Sbjct: 7 DENENYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVED 66 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILNIK ++LK+ D K + I +GP VTAGDIQ +D+E+LNPD IC + Sbjct: 67 VTQIILNIKKVSLKIESDDEKSLEINVKGPATVTAGDIQGDSDVEILNPDQYICTVADGV 126 Query: 142 VVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 LT G GYV A ++ ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYD Sbjct: 127 TFHAVLTADTGRGYVSADENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRNDYD 186 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL++ + TDGSI+ ++ +L+++IL + L +F+N + +E + + + L Sbjct: 187 KLTLDVWTDGSISPSEATSLSAKILTEHLALFVNLTDEAQEAEIMVEKEETHKEKMLEMS 246 Query: 260 VEELELSVRSTNCLRGENIVYMGDLI 285 +EEL+LSVRS NCL+ I + +L Sbjct: 247 IEELDLSVRSYNCLKRAGINTVQELT 272 >gi|328814021|gb|AEB52126.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 262 Score = 313 bits (803), Expect = 2e-83, 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|179184592|gb|ACB78153.1| RNA polymerase alpha subunit [Vibrio breoganii] Length = 314 Score = 313 bits (803), Expect = 2e-83, Method: Composition-based stats. Identities = 139/320 (43%), Positives = 207/320 (64%), Gaps = 11/320 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V Sbjct: 1 GSVTEFLKPRLVD---IEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEV 57 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTV 122 +I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHD 117 Query: 123 NDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YS Sbjct: 118 GDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ K++Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + Sbjct: 178 PVDKIAYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVR 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 VPE---KEEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLG 318 G+KSL EIK VL + GL LG Sbjct: 295 GKKSLTEIKDVLASRGLSLG 314 >gi|251772518|gb|EES53084.1| DNA-directed RNA polymerase, alpha subunit [Leptospirillum ferrodiazotrophum] Length = 322 Score = 313 bits (803), Expect = 2e-83, Method: Composition-based stats. Identities = 131/307 (42%), Positives = 190/307 (61%), Gaps = 2/307 (0%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + + ++ EP RGF T+GNALRRVL+SS+ G AITA++ V HE S+I GV Sbjct: 15 VSHSSARSSRVVVEPFERGFGITVGNALRRVLLSSIPGVAITAIRAKNVFHEFSNIPGVV 74 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+TDIILN+K + +K + + +GP +V A DI TV +E+++PDHVI LD Sbjct: 75 EDVTDIILNLKSLRMKPLLQGEHWLHLKVKGPRIVKASDIDTVGAVEMMDPDHVIATLDE 134 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M+L G GYVPA H R+ +G+I IDA+++PI KV+Y VES R G++ DYD Sbjct: 135 GGHLDMDLKTEFGRGYVPADHSRSTETEVGIIPIDAIFTPINKVNYFVESTRVGRITDYD 194 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFI--NFEEPKKEVKEDINVKSLPFNPALL 257 +L I+TDGSIT ++++ A++IL+ L +F+ + + S + Sbjct: 195 RLIFEIETDGSITPGEALSEAAKILRTHLDLFVSSDLHLANDSSPLSLESNSSKEETIMD 254 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 K V ELELSVR+ NCL+ +I +G+L+ RTE ++L+ NFG+KSL EIK L +GL L Sbjct: 255 KSVNELELSVRAANCLKSSDIKKIGELVIRTEDELLQTKNFGKKSLDEIKEALENIGLSL 314 Query: 318 GMNLPDW 324 GM+L Sbjct: 315 GMDLSKK 321 >gi|90194018|gb|ABD92570.1| RpoA [Actinobacillus ureae ATCC 25976] Length = 302 Score = 313 bits (803), Expect = 2e-83, Method: Composition-based stats. Identities = 137/304 (45%), Positives = 206/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVKIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 + ED+ +++LN+KG+ +K+S +T+ K G G VTA DI D+E++NPDHVIC+L Sbjct: 62 IQEDILEVLLNLKGLAVKVSNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPDHVICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D +A + M + V +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 122 TDKNASINMCIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >gi|90194052|gb|ABD92587.1| RpoA [Mannheimia glucosida] Length = 304 Score = 313 bits (803), Expect = 2e-83, Method: Composition-based stats. Identities = 135/304 (44%), Positives = 205/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VNIEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+ +T+ K G G VTA DI D+E++NPDHVIC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVQNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPDHVICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D +A + M + V +G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Sbjct: 122 TDKNASINMRIRVQRGRGYVPASARLHTQNDDRPIGRLLVDARFSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >gi|197288305|gb|ACH57435.1| RpoA [Aliivibrio finisterrensis] Length = 313 Score = 313 bits (803), Expect = 2e-83, Method: Composition-based stats. Identities = 141/319 (44%), Positives = 206/319 (64%), Gaps = 10/319 (3%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E +K ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I Sbjct: 1 VTEFLKLRLVD---IEQVSMTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEI 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 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+K Sbjct: 238 ---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKK 294 Query: 302 SLVEIKGVLGTMGLFLGMN 320 SL EIK VL + GL LGM Sbjct: 295 SLTEIKDVLASRGLSLGMR 313 >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 = 313 bits (803), Expect = 2e-83, Method: Composition-based stats. Identities = 128/311 (41%), Positives = 200/311 (64%), Gaps = 3/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP V N + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EMEKPRI--DCVEKNSSSNYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH-HRTENDPIGLITIDALYSPIKKVSYT 186 LNPD + +LD D V +E+TV +G GYV + + +D +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|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 = 313 bits (802), Expect = 2e-83, Method: Composition-based stats. Identities = 140/336 (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 MYTEINEMLTPNVLKVQA---ESPFKAKIVLEPLERGFGHTLGNALRRILLSSMPGSVIT 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 SFSPVRKVAYYVDSARVENRTDLDKLTIELETNGTIDSEEAIRISASILQRQLHAFVDMR 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + + + F+P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ Sbjct: 238 FEESRSDQ---KERNDFDPILLRSVDDLELTVRSANCLKAENIHYIGDLVQRTENELLKT 294 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + L LGM L +WPP ++ E Sbjct: 295 PNLGKKSLTEIKDVLASRSLSLGMKLENWPPANLGE 330 >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 = 313 bits (802), Expect = 2e-83, Method: Composition-based stats. Identities = 122/302 (40%), Positives = 183/302 (60%), Gaps = 5/302 (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 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK-SLPFNPAL 256 YD+L M + T+GSI + +++L S+IL D L + ++ E + I S 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 LG 318 Sbjct: 315 FK 316 >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 = 313 bits (802), Expect = 2e-83, Method: Composition-based stats. Identities = 123/301 (40%), Positives = 180/301 (59%), Gaps = 5/301 (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 VRMELTVSKGHGYVPAKHHRT----ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 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 Query: 318 G 318 Sbjct: 318 K 318 >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 = 313 bits (802), Expect = 2e-83, Method: Composition-based stats. Identities = 139/314 (44%), Positives = 204/314 (64%), 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 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE--- 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|179184612|gb|ACB78154.1| RNA polymerase alpha subunit [Vibrio breoganii] Length = 314 Score = 313 bits (802), Expect = 2e-83, Method: Composition-based stats. Identities = 139/320 (43%), Positives = 207/320 (64%), Gaps = 11/320 (3%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 QGSVTEFLKPRLVD---IEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTE 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPE---KEEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFL 317 G+KSL EIK VL + GL L Sbjct: 295 LGKKSLTEIKDVLASRGLSL 314 >gi|190341461|gb|ACE74807.1| RpoA [Cronobacter sakazakii] Length = 301 Score = 313 bits (802), Expect = 2e-83, 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|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 = 313 bits (802), Expect = 2e-83, Method: Composition-based stats. Identities = 119/320 (37%), Positives = 191/320 (59%), Gaps = 10/320 (3%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E ++P I + + + +PL RG+ +TLGN +RRVL++SL GAA TA+QI Sbjct: 1 MTEFMRPT----ITTEEVSDTVARFVVDPLERGYGYTLGNTMRRVLLNSLDGAAATAIQI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQTVN 123 DGV HE ++ +GV ED+TDI+LN+KG+ + + + GP VT D+Q Sbjct: 57 DGVQHEFATAEGVIEDITDIVLNVKGLVFSVFAEDAIEATAHVSAEGPCTVTGADLQVPT 116 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 + ++NPDHVI + + M + + G GYV A+ ++ DPIG+I +D+L+SP+++ Sbjct: 117 EFTLVNPDHVIATVADGGQLDMTIRIGVGRGYVVAERNKRNEDPIGIIHVDSLFSPVRRC 176 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + +V R GQ DYDKL + ++TDGS+T D+V A+ I+ +G F++ E ++E + Sbjct: 177 ALSVTDTRVGQSTDYDKLILEVETDGSLTPTDAVCQAANIVTQYMGAFLSLNESEEEEEG 236 Query: 244 DIN----VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 ++ + N L K++E+L+LSVRS NCL+ I + L++ +E D+L + NFG Sbjct: 237 EVPSIFAPEGEETNAELDKQIEDLDLSVRSYNCLKRAGIHSVRQLVEYSENDLLNIRNFG 296 Query: 300 RKSLVEIKGVLGTMGLFLGM 319 KS+ E+K L +MGL L Sbjct: 297 AKSIEEVKDKLISMGLNLKQ 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 = 313 bits (802), Expect = 3e-83, Method: Composition-based stats. Identities = 124/313 (39%), Positives = 198/313 (63%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP+ IE L E+ + + + EPL G+ T+GN+LRRVL+SSL GA+++ V I G Sbjct: 3 EIEKPS-IEIQELS-EDGKKGIFVVEPLESGYGITIGNSLRRVLLSSLPGASVSFVNIRG 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|179184539|gb|ACB78151.1| RNA polymerase alpha subunit [Vibrio gigantis] Length = 314 Score = 313 bits (802), Expect = 3e-83, Method: Composition-based stats. Identities = 139/320 (43%), Positives = 206/320 (64%), Gaps = 11/320 (3%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 QGSVTEFLKPRLVD---IEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTE 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFL 317 G+KSL EIK VL + GL L Sbjct: 295 LGKKSLTEIKDVLASRGLSL 314 >gi|90194008|gb|ABD92565.1| RpoA [Bibersteinia trehalosi] Length = 302 Score = 313 bits (802), Expect = 3e-83, Method: Composition-based stats. Identities = 136/304 (44%), Positives = 205/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VNIEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+ +T+ K G G VTA DI D+E++NPDHVIC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVQNKDDIILTLTKSGIGPVTAADITADADVEIVNPDHVICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D +A + M + V +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 122 TDKNASISMRIRVQRGRGYVPASARVHSQHEDRPIGRLLVDARFSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >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 = 313 bits (802), Expect = 3e-83, Method: Composition-based stats. Identities = 115/301 (38%), Positives = 179/301 (59%), Gaps = 5/301 (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 VRMELTVSKGHGYVPAKHHRTENDPI----GLITIDALYSPIKKVSYTVESAREGQVLDY 198 + MEL G GY+ A ++ N G + 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 Query: 318 G 318 Sbjct: 316 K 316 >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 = 313 bits (802), Expect = 3e-83, Method: Composition-based stats. Identities = 142/336 (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 MYTEINEMLTPKVLKVQA---ESPYKARIVLEPLERGFGHTLGNALRRILLSSMPGSAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 IDGVLHE S+I+GV ED+ D++LN+K + +K++ + +VT+ K GP VTAGDIQ Sbjct: 58 EASIDGVLHEYSTIEGVQEDVVDLLLNLKSVAIKLTVGNEAQVTLNKEGPCQVTAGDIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK------HHRTENDPIGLITIDA 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 SFSPVKKVAYFVDSARVENRTDLDKLTIELETNGTIDAEEAIRISASILQRQLHAFVDMK 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + N + F+P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE+++L+ Sbjct: 238 FEESRAD---NKERNDFDPVLLRSVDDLELTVRSANCLKAENIHYIGDLVQRTESELLKT 294 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + L LGM L +WPP S+ E Sbjct: 295 PNLGKKSLTEIKDVLASRSLSLGMKLENWPPASLGE 330 >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 = 313 bits (801), Expect = 3e-83, Method: Composition-based stats. Identities = 142/336 (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 MYTEINEMLTPKVLKVQA---ESPYKARIVLEPLERGFGHTLGNALRRILLSSMPGSAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 IDGVLHE S+I+GV ED+ D++LN+K + +K++ + +VT+ K GP VTAGDIQ Sbjct: 58 EASIDGVLHEYSTIEGVQEDVVDLLLNLKSVAIKLTVGNEAQVTLNKEGPCQVTAGDIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK------HHRTENDPIGLITIDA 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 SFSPVKKVAYFVDSARVENRTDLDKLTIELETNGTIDAEEAIRISASILQRQLHAFVDMK 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + N + F+P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE+++L+ Sbjct: 238 FEESRAD---NKERNDFDPVLLRSVDDLELTVRSANCLKAENIHYIGDLVQRTESELLKT 294 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + L LGM L +WPP S+ E Sbjct: 295 PNLGKKSLTEIKDVLASRSLSLGMKLENWPPASLGE 330 >gi|90194054|gb|ABD92588.1| RpoA [Mannheimia varigena] Length = 302 Score = 313 bits (801), Expect = 3e-83, Method: Composition-based stats. Identities = 136/304 (44%), Positives = 206/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTDVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+ +T+ K G G VTA DI D+E++NPDHVICNL Sbjct: 62 VQEDILEVLLNLKGLAVKVQNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPDHVICNL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D +A + M + V +G GYVPA H ++++ PIG + +DA +SP+ +++Y VE+AR Sbjct: 122 TDKNASINMRIRVQRGRGYVPASARLHTQSDDRPIGRLLVDARFSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >gi|58416068|emb|CAH57448.1| RNA polymerase alpha-subunit [Vibrio sp. R-23695] Length = 308 Score = 313 bits (801), Expect = 3e-83, Method: Composition-based stats. Identities = 140/314 (44%), 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---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 YSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE--- 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|90194062|gb|ABD92592.1| RpoA [Pasteurella multocida subsp. septica] Length = 304 Score = 313 bits (801), Expect = 3e-83, Method: Composition-based stats. Identities = 137/305 (44%), Positives = 203/305 (66%), Gaps = 7/305 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 3 VDIEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 62 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+ +T+ K G G V A DI D+E++NP+HVIC+L Sbjct: 63 VQEDILEVLLNLKGLAVKVQNKDDVFLTLNKSGIGPVVAADITHDGDVEIVNPEHVICHL 122 Query: 138 -DVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D A + M + V +G GYVPA + E PIG + +DA YSP+ +++Y VE+AR Sbjct: 123 TDESASINMRIRVQRGRGYVPASARVHAQDEERPIGRLLVDACYSPVDRIAYNVEAARVE 182 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 183 QRTDLDKLVIELETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEFD 239 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 240 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 299 Query: 314 GLFLG 318 GL LG Sbjct: 300 GLSLG 304 >gi|90194032|gb|ABD92577.1| RpoA [Actinobacillus lignieresii] Length = 302 Score = 313 bits (801), Expect = 3e-83, Method: Composition-based stats. Identities = 139/304 (45%), Positives = 206/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VNIEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+SG +T+ K G G VTA DI D+E++NP HVIC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVSGKDDIILTLNKSGIGPVTAADITHDGDVEIVNPHHVICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D DA + M + V +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 122 TDKDASISMRIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >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 = 313 bits (801), Expect = 3e-83, Method: Composition-based stats. Identities = 131/323 (40%), Positives = 204/323 (63%), Gaps = 6/323 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 Q++ P +E IA+PL RG+ T+GNA+RRVL+SSL G AIT ++I+ Sbjct: 3 QQMQMPEKLEVDEAS-YSNYYGKFIAQPLERGYGVTIGNAIRRVLLSSLPGTAITGIKIE 61 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV-NDI 125 GVLHE S+I GV ED+ DI+LN+K I + + VT+ RGP AGDI + D Sbjct: 62 GVLHEFSTIDGVKEDVPDIVLNLKQIRFRSISKRNAVVTLVLRGPKDFVAGDIVSPEGDF 121 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+H I L+ DA ++++++V +G GY+PA+ ++ E PIG I++D++++PI+ V Y Sbjct: 122 EVLNPEHHIATLNEDATLKIDVSVGRGRGYMPAEDNKPETMPIGYISVDSIFTPIRNVKY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKKEV 241 +VE+ R GQ DY+KLS+ ++TDGSI +++V++A +I+ D + +F F E +E Sbjct: 182 SVENTRVGQRTDYEKLSLEVETDGSIAPDEAVSMAGKIINDHVRLFSLFSPTQEEEVEEE 241 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + + L+ ++E+LELSVRS NCLR I +G L+ + E ++L NFG+K Sbjct: 242 VQQEDEEFENMRKLLMTRIEDLELSVRSHNCLRSAEIDTLGQLVSKREDELLGYKNFGKK 301 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+K +L + L GM + + Sbjct: 302 SLAELKELLESKNLSFGMEVTKY 324 >gi|90194006|gb|ABD92564.1| RpoA [Mannheimia haemolytica] Length = 302 Score = 313 bits (801), Expect = 3e-83, Method: Composition-based stats. Identities = 135/304 (44%), Positives = 205/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VNIEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+ +T+ K G G VTA DI D+E++NPDHVIC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVQNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPDHVICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D +A + M + V +G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Sbjct: 122 TDKNASINMRIRVQRGRGYVPASARLHTQNDDRPIGRLLVDARFSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >gi|90194056|gb|ABD92589.1| RpoA [Mannheimia ruminalis] Length = 302 Score = 313 bits (801), Expect = 4e-83, Method: Composition-based stats. Identities = 136/304 (44%), Positives = 206/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VNIEQVSSTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+ +T+ K G G VTA DI D+E++NPDH+IC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVQNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPDHIICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D +A + M + V +G GYVPA H + ++ PIG + +DA YSP+ +++Y VE+AR Sbjct: 122 TDKNASISMRIRVQRGRGYVPASARLHTQNDDRPIGRLLVDARYSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >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 = 312 bits (800), Expect = 4e-83, Method: Composition-based stats. Identities = 141/336 (41%), Positives = 214/336 (63%), Gaps = 12/336 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + E++ P ++ E + ++ EPL RGF HTLGNALRR+L+SS+ G+AIT Sbjct: 1 MYTEINEMLTPKVLKVQA---ESPYKARIVLEPLERGFGHTLGNALRRILLSSMPGSAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 IDGVLHE S+I+GV ED+ D++LN+K + +K++ + ++T+ K GP VTAGDIQ Sbjct: 58 EASIDGVLHEYSTIEGVQEDVVDLLLNLKSVAIKLTVGNEAQITLNKEGPCQVTAGDIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK------HHRTENDPIGLITIDA 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 SFSPVKKVAYFVDSARVENRTDLDKLTIELETNGTIDAEEAIRISASILQRQLHAFVDMK 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + N + F+P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE+++L+ Sbjct: 238 FEESRAD---NKERNDFDPVLLRSVDDLELTVRSANCLKAENIHYIGDLVQRTESELLKT 294 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + L LGM L +WPP S+ E Sbjct: 295 PNLGKKSLTEIKDVLASRSLSLGMKLENWPPASLGE 330 >gi|328814009|gb|AEB52120.1| DNA-directed RNA polymerase alpha chain [Lactobacillus rhamnosus] Length = 257 Score = 312 bits (800), Expect = 4e-83, 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|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 = 312 bits (800), Expect = 4e-83, Method: Composition-based stats. Identities = 103/310 (33%), Positives = 168/310 (54%), Gaps = 9/310 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 +E L + + + + EPL RG T+GNALRRVL+S+L G AITAV+I GV HE Sbjct: 7 ECVESKTLKNQSQ-YSKFVLEPLDRGQGTTVGNALRRVLLSNLEGTAITAVRIAGVNHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I G+ ED+ +I+LN+K + LK + GP V + +D+E ++P Sbjct: 66 ATIAGIREDVLEILLNMKEVVLKSYTPGPHIGRVMITGPSTVRSAQFDLPSDVEFVDPGQ 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L A + ME + +G GY + R E + + +DA++ P+ KV+Y+VE R Sbjct: 126 YIATLADGAKLEMEFRIERGKGYRSVERGRDETSSVDFLQLDAVFMPVTKVNYSVEDTRV 185 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 L+ D+L + + T+GS++ +++++ A+ IL D + E + V + Sbjct: 186 DGSLEKDRLILDVWTNGSVSPQEALSQAANILVDLFNPLKDIELKPEPVGRPEDE----- 240 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L Sbjct: 241 DPTSQIPIEELQLSVRAYNCLKRAQINSVADLLDYSQEDLLEIKNFGQKSAEEVIDAL-- 298 Query: 313 MGLFLGMNLP 322 LG+ LP Sbjct: 299 -QKRLGITLP 307 >gi|91200694|emb|CAJ73745.1| strongly similar to DNA-directed RNA polymerase, alpha chain [Candidatus Kuenenia stuttgartiensis] Length = 338 Score = 312 bits (800), Expect = 4e-83, 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|90194004|gb|ABD92563.1| RpoA [Lonepinella koalarum] Length = 302 Score = 312 bits (800), Expect = 4e-83, Method: Composition-based stats. Identities = 138/304 (45%), Positives = 204/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE SS +G Sbjct: 2 VDIEQISPTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+ +T+ K G G V A DI D+E++NPDHVIC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVQNKDDVFLTLNKSGIGPVVAADITHDGDVEIVNPDHVICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D +A V M + V +G GYVPA H + E PIG + +DA YSP+ +++Y VE+AR Sbjct: 122 TDENASVNMRIRVQRGRGYVPASARVHTQDEERPIGRLLVDACYSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLVIELETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >gi|90194046|gb|ABD92584.1| RpoA [Actinobacillus indolicus] Length = 303 Score = 312 bits (800), Expect = 4e-83, Method: Composition-based stats. Identities = 136/304 (44%), Positives = 205/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+ +T+ K G G VTA DI D+E++NPDHVICNL Sbjct: 62 VQEDILEVLLNLKGLAVKVQNKDDIILTLTKSGIGPVTAADITHDGDVEIVNPDHVICNL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D +A + M + V +G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Sbjct: 122 TDKNASINMRIRVQRGRGYVPASARVHTQDDDRPIGRLLVDARFSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >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 = 312 bits (799), Expect = 5e-83, Method: Composition-based stats. Identities = 125/312 (40%), Positives = 192/312 (61%), Gaps = 5/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP IE I + + PL RG+ TLGN+LRR+++SSL G A T+V+I+G Sbjct: 3 EFEKP-AIERI---ESTDTYGKFAITPLERGYGITLGNSLRRIMLSSLPGTAPTSVKIEG 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 KGVLGTMGLFLG 318 K L + L L Sbjct: 299 KDKLDELDLSLK 310 >gi|90194024|gb|ABD92573.1| RpoA [Actinobacillus genomosp. 1] Length = 303 Score = 312 bits (799), Expect = 6e-83, Method: Composition-based stats. Identities = 139/304 (45%), Positives = 206/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+SG +T+ K G G VTA DI D+E++NP HVIC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVSGKDDIILTLNKSGIGPVTAADITHDGDVEIVNPHHVICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D DA + M + V +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 122 TDKDAAISMRIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >gi|90193996|gb|ABD92559.1| RpoA [Volucribacter psittacicida] Length = 302 Score = 312 bits (799), Expect = 6e-83, Method: Composition-based stats. Identities = 138/304 (45%), Positives = 205/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VDIEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+ +T+ K G G V AGDI D+E++NP+HVIC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVQNKDDVLLTLSKSGIGPVVAGDIIHDGDVEIVNPEHVICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D +A ++M + V +G GYVPA + E PIG + +DA YSP+ +++Y VE+AR Sbjct: 122 TDENASIQMRIRVQRGRGYVPASARVHAQDEERPIGRLLVDACYSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G+I ED++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLVIELETNGTIDPEDAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >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 = 311 bits (798), Expect = 7e-83, 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-IEINEIS-EDNRFGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSSVKIKG 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|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 = 311 bits (798), Expect = 7e-83, Method: Composition-based stats. Identities = 124/324 (38%), Positives = 206/324 (63%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 IKP+ + +L +E + PL GF T+GNALRRVL+SSL G AI++++I+GV Sbjct: 6 FIKPDKV---ILLNSDEFKGQFEFRPLEPGFGLTIGNALRRVLLSSLEGYAISSIKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE S+I GV ED+T+IILN+K + LK + + +++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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E++ ++ + GL G ++ + Sbjct: 303 SLTELEELVHSKGLNFGFDVAKYK 326 >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 = 311 bits (798), Expect = 7e-83, Method: Composition-based stats. Identities = 119/301 (39%), Positives = 174/301 (57%), Gaps = 1/301 (0%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 LG E +NR PL GF H++GNALRRVL+SS+ GAAIT V+ D LHE ++I Sbjct: 9 VESLGDEVDNRQRFAIGPLEPGFGHSIGNALRRVLISSVPGAAITQVRFDDALHEFTTIP 68 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ DIILN+K I + + V + RGP VTAGD +D+EV+N D I + Sbjct: 69 GVKEDVIDIILNLKDIVWRSWSEEPVTVRLDVRGPKEVTAGDFMLPSDVEVINRDLHIAS 128 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + + ++ V +G GYV A+ ++ IG+I IDA++SP++ V+Y VE R GQ Sbjct: 129 VSEHGRLGLDAVVEQGRGYVSAEGNKR-TTTIGIIAIDAIFSPVRHVNYRVEPVRVGQST 187 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D+D++ + ++TDGS+T ++VA A+R L G+ ++ Sbjct: 188 DFDQVVLEVETDGSVTPREAVASAARTLTSLFGLVAELATDVNALEVAATADDSVRPAEY 247 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +EELEL+ R NCL+ +I +GDL++RT D+L + NFG+KSL E+ L GL Sbjct: 248 DLPIEELELTERPRNCLKRASINTIGDLVERTPEDLLSITNFGQKSLDEVVERLTQRGLE 307 Query: 317 L 317 L Sbjct: 308 L 308 >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 = 311 bits (798), Expect = 7e-83, Method: Composition-based stats. Identities = 142/334 (42%), Positives = 211/334 (63%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q ++ +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGFVEDFLKPRLVDIQQIS---ATHAKITLEPLERGFGHTLGNALRRILLSSISGCAVT 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-VDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALY 177 N E++N H+ICNL DA + + + V++G GY+ AK + D G + +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 ++ I + F P LL+ V++LEL+VRS NCL+ E+I Y+GDL+Q+TE ++L+ N Sbjct: 238 REPE---IKEEKPEFEPVLLRPVDDLELTVRSANCLKAESIHYIGDLVQKTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP+S+ E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMKLDNWPPKSLLE 328 >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 = 311 bits (798), Expect = 7e-83, Method: Composition-based stats. Identities = 105/317 (33%), Positives = 171/317 (53%), Gaps = 10/317 (3%) Query: 14 NIEYIVLGQEEEN--RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE I +++ 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 VGGSTEKDRLIMEIWTNGSLTPQEALSQAASILVDLFSPLKDITLESLRSDVGSDA---- 247 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL+LSVR+ NCL+ I + DL+ T+ D+L + NFG+KS E+ L Sbjct: 248 -DPTSQIPIEELQLSVRAYNCLKRAQINSVADLLDYTQEDLLEIKNFGQKSAEEVIEAL- 305 Query: 312 TMGLFLGMNLPDWPPES 328 LG+ LP ++ Sbjct: 306 --QKRLGITLPQEKAKT 320 >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 = 311 bits (798), Expect = 8e-83, Method: Composition-based stats. Identities = 114/312 (36%), Positives = 175/312 (56%), 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 DGGSLEKDRLTLEIWTSGSLTPQEAISQAAAILVDLFGALKDI-----NLESITSDQRDD 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 N---RLGITLPK 308 >gi|90194016|gb|ABD92569.1| RpoA [Actinobacillus hominis] Length = 302 Score = 311 bits (798), Expect = 8e-83, Method: Composition-based stats. Identities = 137/304 (45%), Positives = 206/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+S +T+ K G G VTA DI D+E++NP+HVIC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVSNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPNHVICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D +A + M + V +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 122 TDKNASINMRIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >gi|90194022|gb|ABD92572.1| RpoA [Actinobacillus suis ATCC 33415] Length = 302 Score = 311 bits (798), Expect = 8e-83, Method: Composition-based stats. Identities = 138/304 (45%), Positives = 206/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + L Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VNLEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+S +T+ K G G VTA DI D+E++NP+HVIC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVSNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPNHVICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D +A + M + V +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 122 TDKNASINMRIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >gi|328814013|gb|AEB52122.1| DNA-directed RNA polymerase alpha chain [Lactobacillus rhamnosus] Length = 260 Score = 311 bits (798), Expect = 8e-83, 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|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 = 311 bits (798), Expect = 8e-83, Method: Composition-based stats. Identities = 131/321 (40%), Positives = 196/321 (61%), Gaps = 6/321 (1%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P IE ++ IA+PL RG+ TLGN +RRVL++SL G AIT ++IDGV HE Sbjct: 8 PAKIEVDE-ANHTDSFGRFIAQPLERGYGVTLGNVMRRVLLASLPGTAITGLKIDGVFHE 66 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNP 130 +++ GV ED+ +I+LN+K + K + + + T+ GP TAGDI + EVLN Sbjct: 67 FAAVDGVREDVPEIVLNLKRVRFKSTCKRNCKTTLAIVGPKEFTAGDIIAQEGEFEVLNK 126 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I ++ A ++++L V +G GYVPA+ +R E PIG I IDA+Y+PI+ V +TVE+ Sbjct: 127 DMHIATVNAGATLKIDLYVGRGRGYVPAEENRPEGMPIGYIAIDAIYTPIRNVRFTVENT 186 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKKEVKEDIN 246 R GQ DY+K+ + ++TDGS+T +DS++LA +I+ D + F NF E +E + + Sbjct: 187 RVGQRTDYEKMILDVETDGSVTPDDSISLAGKIITDHVTFFANFSPTEEEFTEEEFKQQD 246 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L K+E+L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL E+ Sbjct: 247 DEFETMRRLLHTKIEDLDLSVRSHNCLRLAEIDTIGDLVSRKEDELLNYKNFGKKSLTEL 306 Query: 307 KGVLGTMGLFLGMNLPDWPPE 327 K L L GM++ + + Sbjct: 307 KEQLEKFDLKFGMDITKYQMK 327 >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 = 311 bits (797), Expect = 9e-83, 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---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >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 = 311 bits (797), Expect = 9e-83, Method: Composition-based stats. Identities = 112/312 (35%), Positives = 179/312 (57%), Gaps = 8/312 (2%) Query: 14 NIEYIVLGQEEEN--RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE + E +N + EPL RG TLGNALRRVL+S+L G A+TAV+I GV HE Sbjct: 5 TIECVETRTEADNGQYGKFVLEPLERGQGTTLGNALRRVLLSNLEGTAVTAVRITGVNHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 +++KG+ ED+ DI+LN+K + L+ + + +GP VTA D++ +++V++P Sbjct: 65 FATMKGIREDVLDILLNMKELVLRSYTSDIQIGRLAVQGPKRVTAADLELPTEVQVVHPR 124 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 H I L D + ME + +G GY + + I ++IDA++ P++KV++TVES R Sbjct: 125 HYIATLAEDGQLEMEFQIERGKGYRAIERGSEDGAAIDYLSIDAIFMPVRKVNWTVESER 184 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++ D+L++ I T GS++ +++++ A++IL DQL + + Sbjct: 185 SAANVEQDRLTLEIWTSGSLSPQEALSQAAKILVDQLRPLQEIT-----FEPPAEPQRSA 239 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL- 310 N +EEL+LSVR+ NCL+ I + DL++ TE D+L + NFG+KS E+ L Sbjct: 240 PNTVGQVPIEELQLSVRAYNCLKRAQINTVADLLEYTEEDLLEIKNFGQKSAEEVIEALQ 299 Query: 311 GTMGLFLGMNLP 322 MGL L + P Sbjct: 300 DKMGLSLPKDKP 311 >gi|90194030|gb|ABD92576.1| RpoA [Actinobacillus equuli subsp. haemolyticus] Length = 303 Score = 311 bits (797), Expect = 9e-83, Method: Composition-based stats. Identities = 137/304 (45%), Positives = 206/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+S +T+ K G G VTA DI D+E++NP+HVIC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVSNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPNHVICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D +A + M + V +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 122 TDKNASINMRIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >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 = 311 bits (797), Expect = 1e-82, Method: Composition-based stats. Identities = 100/312 (32%), Positives = 168/312 (53%), Gaps = 10/312 (3%) Query: 14 NIEYIVLGQEEEN--RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE + EE + + 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 TMGLFLGMNLPD 323 LG+ LP Sbjct: 300 R---RLGITLPQ 308 >gi|309389906|gb|ADO77786.1| DNA-directed RNA polymerase subunit alpha [Halanaerobium praevalens DSM 2228] Length = 315 Score = 311 bits (797), Expect = 1e-82, Method: Composition-based stats. Identities = 128/315 (40%), Positives = 202/315 (64%), Gaps = 6/315 (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 IKGVLGTMGLFLGMN 320 I+ L + L L N Sbjct: 299 IEKKLDELELDLKEN 313 >gi|90194014|gb|ABD92568.1| RpoA [Actinobacillus genomosp. 2] Length = 303 Score = 311 bits (797), Expect = 1e-82, Method: Composition-based stats. Identities = 139/304 (45%), Positives = 206/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+SG +T+ K G G VTA DI D+E++NP HVIC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVSGKDDIILTLNKSGIGPVTAADITHDGDVEIVNPHHVICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D DA + M + + +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 122 TDKDASISMRIRIQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ +I + F+ Sbjct: 182 QRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EIKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >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 = 311 bits (797), Expect = 1e-82, Method: Composition-based stats. Identities = 121/322 (37%), Positives = 192/322 (59%), Gaps = 6/322 (1%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P IE + +A+PL RG+ TLGN +RR L++SL G AIT ++IDGV HE Sbjct: 8 PAKIEVDE-ATHTDRFGRFVAQPLERGYGVTLGNVMRRALLASLPGTAITGLKIDGVFHE 66 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNP 130 S+I GV ED+ +I+LN+K + + + + + ++ G TAGDI + EVLN Sbjct: 67 FSTINGVREDVPEIVLNLKKVRFRSNCKRNCKTSLVLNGQKEFTAGDIIAQEGEFEVLNK 126 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I ++ A +++++ V +G GY+P++ +R + PIG I IDA+++PI+ V +TVE+ Sbjct: 127 DLHIATVNEGATLKIDIFVGRGRGYLPSEENRPDGMPIGFIAIDAIFTPIRNVKFTVENT 186 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKKEVKEDIN 246 R GQ DY+K+ + ++TDGSIT +DS++LA +I+ + + F +F E +E + + Sbjct: 187 RVGQRTDYEKMILDVETDGSITPDDSISLAGKIINEHVTFFADFSPTEEEFTEEEFKQQD 246 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + K+E+L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL E+ Sbjct: 247 DEFENMRKLFNTKIEDLDLSVRSHNCLRLAEIDTIGDLVSRKEDELLNYKNFGKKSLTEL 306 Query: 307 KGVLGTMGLFLGMNLPDWPPES 328 K L L GM++ + + Sbjct: 307 KEQLEKFDLKFGMDITKYQMKG 328 >gi|164608448|gb|ABY62527.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae] Length = 309 Score = 311 bits (797), Expect = 1e-82, Method: Composition-based stats. Identities = 136/315 (43%), Positives = 207/315 (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---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDVFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 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 = 311 bits (797), Expect = 1e-82, Method: Composition-based stats. Identities = 138/315 (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---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >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 = 311 bits (796), Expect = 1e-82, Method: Composition-based stats. Identities = 127/322 (39%), Positives = 193/322 (59%), Gaps = 6/322 (1%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P IE ++ IA+PL RG+ TLGN +RRVL++SL G AIT +++DGV HE Sbjct: 8 PAKIEVDEATHTDQ-YGRFIAQPLERGYGVTLGNMMRRVLLASLPGTAITGIKVDGVFHE 66 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNP 130 SSI+GV ED+ +I+LN+K + K + + T+ GP TAGDI + EVLN Sbjct: 67 FSSIEGVREDVPEIVLNLKKVRFKSTCKRSCKTTLSIVGPKDFTAGDIVAQEGEFEVLNK 126 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I ++ + + +++ + +G GY PA+ R ++ PIG I IDA+Y+PI+ V + VE+ Sbjct: 127 DLYIATVNEGSTLNIDVYIGRGRGYTPAEESRPDSMPIGYIAIDAIYTPIRNVKFAVENT 186 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK----EDIN 246 R GQ DY+K+ + ++TDGSIT +DS++LA RI+ + + F NF ++E + + Sbjct: 187 RVGQRTDYEKMVLDVETDGSITPDDSISLAGRIINEHVTFFANFSPTEEEFTEEEYKQQD 246 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L K+E+L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL E+ Sbjct: 247 DEFETMRRLLNTKIEDLDLSVRSHNCLRLAEIDTIGDLVSRKEDELLNYKNFGKKSLTEL 306 Query: 307 KGVLGTMGLFLGMNLPDWPPES 328 K L L GM++ + + Sbjct: 307 KEQLEKFELKFGMDITRYQMKG 328 >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 = 311 bits (796), Expect = 1e-82, Method: Composition-based stats. Identities = 124/311 (39%), Positives = 191/311 (61%), Gaps = 2/311 (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 GVLGTMGLFLG 318 L +GL L Sbjct: 301 EKLDELGLSLK 311 >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 = 311 bits (796), Expect = 1e-82, Method: Composition-based stats. Identities = 138/303 (45%), Positives = 205/303 (67%), Gaps = 7/303 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VNIEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+SG +T+ K G G VTA DI D+E++NP HVIC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVSGKDDIILTLNKSGIGPVTAADITHDGDVEIVNPHHVICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D DA + M + V +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 122 TDKDASISMRIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLF 316 GL Sbjct: 299 GLS 301 >gi|90193994|gb|ABD92558.1| RpoA [Gallibacterium anatis] Length = 300 Score = 311 bits (796), Expect = 1e-82, Method: Composition-based stats. Identities = 134/302 (44%), Positives = 201/302 (66%), Gaps = 5/302 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VDIEQISPTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+ +T+ K G G V A DI D+E++NPDH+IC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVQNKDDVFLTLTKSGIGPVVAADITHDGDVEIVNPDHIICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAKHH-RTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 D +A + M + V +G GYVPA E PIG + +DA YSP+ +++Y VE+AR Q Sbjct: 122 TDENASINMRIRVQRGRGYVPASSRTHDEERPIGRLLVDACYSPVDRIAYNVEAARVEQR 181 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F+P Sbjct: 182 TDLDKLVIEMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRQP---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 LLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGL 298 Query: 316 FL 317 L Sbjct: 299 SL 300 >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 = 311 bits (796), Expect = 1e-82, 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---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >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 = 311 bits (796), Expect = 1e-82, Method: Composition-based stats. Identities = 136/315 (43%), Positives = 203/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQVST---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 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 AYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|90194002|gb|ABD92562.1| RpoA [Phocoenobacter uteri] Length = 302 Score = 311 bits (796), Expect = 1e-82, Method: Composition-based stats. Identities = 134/304 (44%), Positives = 205/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VNIEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+ +T+ K G G V A DI D+E++NP+HVIC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVQNKDDIVLTLNKSGIGPVIAADITHDGDVEIVNPEHVICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D DA + M + V +G GYVPA H ++++ PIG + +DA +SP+ +++Y VE+AR Sbjct: 122 TDKDASINMRIRVQRGRGYVPASARVHSQSDDRPIGRLLVDARFSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLIIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >gi|90194020|gb|ABD92571.1| RpoA [Actinobacillus arthritidis] Length = 303 Score = 311 bits (796), Expect = 1e-82, Method: Composition-based stats. Identities = 138/304 (45%), Positives = 206/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+SG +T+ K G G VTA DI D+E++NP H+IC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVSGKDDIILTLNKSGIGPVTAADITHDGDVEIVNPHHIICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D DA + M + + +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 122 TDKDASISMRIRIQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ +I + F+ Sbjct: 182 QRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EIKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >gi|90193998|gb|ABD92560.1| RpoA [Avibacterium gallinarum] Length = 302 Score = 311 bits (796), Expect = 1e-82, Method: Composition-based stats. Identities = 136/304 (44%), Positives = 205/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VDIEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+ + +T+ K G G V A DI D+E++NP+HVIC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVQNKDNVFLTLSKSGIGPVVAADITYDGDVEIVNPEHVICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D +A + M + V +G GYVPA H + E PIG + +DA YSP+++++Y VE+ R Sbjct: 122 TDENASINMCIRVQRGRGYVPASARVHSQDEERPIGRLLVDACYSPVQRIAYNVEATRVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLVIELETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >gi|179184326|gb|ACB78143.1| RNA polymerase alpha subunit [Vibrio breoganii] Length = 311 Score = 310 bits (795), Expect = 1e-82, Method: Composition-based stats. Identities = 139/317 (43%), Positives = 206/317 (64%), Gaps = 11/317 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+ Sbjct: 1 TEFLKPRLVD---IEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIE 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 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+K Sbjct: 238 ---KEEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKK 294 Query: 302 SLVEIKGVLGTMGLFLG 318 SL EIK VL + GL LG Sbjct: 295 SLTEIKDVLASRGLSLG 311 >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 = 310 bits (795), Expect = 1e-82, Method: Composition-based stats. Identities = 130/310 (41%), Positives = 202/310 (65%), Gaps = 10/310 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 FGRKSLVEIK 307 G+ L +K Sbjct: 295 LGKNLLPRLK 304 >gi|197288307|gb|ACH57436.1| RpoA [Vibrio gallaecicus] Length = 311 Score = 310 bits (795), Expect = 2e-82, Method: Composition-based stats. Identities = 140/317 (44%), Positives = 206/317 (64%), Gaps = 11/317 (3%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVL Sbjct: 1 LKPRLVD---IEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVL 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 YAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE--- 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 EIKGVLGTMGLFLGMNL 321 EIK VL + GL LGM L Sbjct: 295 EIKDVLASRGLSLGMRL 311 >gi|90194064|gb|ABD92593.1| RpoA [Pasteurella canis] Length = 302 Score = 310 bits (795), Expect = 2e-82, Method: Composition-based stats. Identities = 135/304 (44%), Positives = 202/304 (66%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VDIEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+ +T+ K G G V A DI D+E++NP+H+IC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVQNKDDVFLTLNKSGIGPVVAADITHDGDVEIVNPEHIICHL 121 Query: 138 DVD-AVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D A + M + V +G GYVPA + E PIG + +DA YSP+ +++Y VE+AR Sbjct: 122 TDDNASINMRIRVQRGRGYVPASARVHAQDEERPIGRLLVDACYSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLVIELETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 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 = 310 bits (795), Expect = 2e-82, 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 FLKPRLVDIEQVST---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 AYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >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 = 310 bits (795), Expect = 2e-82, Method: Composition-based stats. Identities = 129/323 (39%), Positives = 196/323 (60%), Gaps = 11/323 (3%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 IE + Q EN EPL G+ HTLGNALRRVL+SS+ G+AIT ++IDGV HE S Sbjct: 8 KIEVV---QAAENYGRFKIEPLDPGYGHTLGNALRRVLVSSIPGSAITKIKIDGVFHEFS 64 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 +I+GV ED+T+I+LNIKG+ L+ + +V + KRGPG+VTA DI ++IE++NP+H Sbjct: 65 TIEGVKEDVTEIVLNIKGVRLRSYAERPVKVLLTKRGPGIVTAKDIDVPSNIELVNPNHY 124 Query: 134 ICNLDVD-AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 IC LD + A + +E+TV +G GYV A + PIG I +DA+++P+ +V+Y VE+ R Sbjct: 125 ICTLDSEVARLEIEMTVERGRGYVSADQR--DILPIGEIPVDAIFTPVPRVNYVVENTRI 182 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP- 251 GQ D+D+L + I TDG++ D+++ A+++L +F E +E L Sbjct: 183 GQATDFDRLLLEIWTDGTVKPGDALSHAAQVLVQYSQTIADFNRLAVEEEESPTPSGLTI 242 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 + +E+L+LS R+ NCL+ +I +G ++Q E +L + N G+KS+ EI+ L Sbjct: 243 PSDIYDTPIEDLDLSTRTYNCLKRADITKVGQVLQMDEKALLSVRNLGQKSMEEIRDRLV 302 Query: 312 TMGLFLGM----NLPDWPPESIE 330 G +L D P +IE Sbjct: 303 ERGYISRQAGNGSLSDSEPVTIE 325 >gi|90194000|gb|ABD92561.1| RpoA [Nicoletella semolina] Length = 302 Score = 310 bits (794), Expect = 2e-82, Method: Composition-based stats. Identities = 134/304 (44%), Positives = 203/304 (66%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VSIEQVSLTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+ +T+ K G G V A DI D+E++NP+HVIC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVQNKDDVILTLTKSGIGPVIAADIVHDGDVEIVNPNHVICHL 121 Query: 138 DV-DAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 +A + M + V +G GYVPA H + +N PIG + +DA +SP+ ++SY VE+AR Sbjct: 122 TDNNASINMRIRVRRGRGYVPASALVHTQDDNRPIGRLLVDARFSPVDRISYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >gi|328814017|gb|AEB52124.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 263 Score = 310 bits (794), Expect = 2e-82, 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|58415844|emb|CAH57336.1| RNA polymerase alpha-subunit [Vibrio fluvialis] Length = 309 Score = 310 bits (794), Expect = 2e-82, Method: Composition-based stats. Identities = 136/315 (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---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFGPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|90194048|gb|ABD92585.1| RpoA [Actinobacillus porcinus] Length = 303 Score = 310 bits (794), Expect = 2e-82, Method: Composition-based stats. Identities = 136/304 (44%), Positives = 204/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE SS +G Sbjct: 2 VNIEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+ +T+ K G G V A DI D+E++NPDHV+C+L Sbjct: 62 VQEDILEVLLNLKGLAVKVQNKDDVFLTLNKSGIGPVVAADITHDGDVEIVNPDHVLCHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D +A + M + V +G GYVPA H + E PIG + +DA YSP+ +++Y VE+AR Sbjct: 122 TDENASINMRIRVQRGRGYVPASARAHTQDEERPIGRLLVDACYSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLVIELETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >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 = 310 bits (794), Expect = 2e-82, Method: Composition-based stats. Identities = 118/320 (36%), Positives = 184/320 (57%), Gaps = 10/320 (3%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E ++P + + + + EPL RGF +TLGN +RRVL+SSL GA TA+QI Sbjct: 1 MAEFMRPT----VTTEEVSDTDARFVVEPLERGFGYTLGNCMRRVLLSSLDGARATAIQI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +GV HE ++ +GV ED+TDI+LN+KG+ + TI GP VT DIQ Sbjct: 57 EGVQHEFTTAEGVIEDVTDIVLNVKGLVFAALTEDYTEATATISVEGPCTVTGADIQVPT 116 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 + ++NP+HVI + + M + + G GYV A+ ++ DPIG+I +D+L+SP+++ Sbjct: 117 EFTLINPEHVIATVADGGTLNMSIRIGVGRGYVSAERNKRTEDPIGIIPVDSLFSPVRRC 176 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + V R GQ D+D+L + ++TDGSI ++V A+ I+ +G F+ + E + Sbjct: 177 TLAVNDTRVGQRTDFDQLLLEVETDGSIAPNEAVCRAANIINQYMGAFLTLADITDEDEG 236 Query: 244 DIN----VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 DI + N L K++E+L+LSVRS NCL+ I + L++ +E D+L + NFG Sbjct: 237 DIPSIFATEGQESNAELDKQIEDLDLSVRSYNCLKRAGIHSVRQLVEFSENDLLNIRNFG 296 Query: 300 RKSLVEIKGVLGTMGLFLGM 319 KS+ E+K L +M L L Sbjct: 297 AKSIEEVKDKLISMDLNLKQ 316 >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 = 310 bits (794), Expect = 2e-82, Method: Composition-based stats. Identities = 134/315 (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 FLKPRLVDIEQVST---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 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 AYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|328813997|gb|AEB52114.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 270 Score = 310 bits (794), Expect = 2e-82, Method: Composition-based stats. Identities = 123/273 (45%), Positives = 177/273 (64%), Gaps = 6/273 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KPN I E +N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLH Sbjct: 2 KPN----IHKIDENDNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLH 57 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S+I+GV ED+T IILN+K I LK+ D K + I +GP VTAGDI D+EVLNP Sbjct: 58 EFSTIEGVTEDVTAIILNVKKIALKLESDETKTLEIDVKGPANVTAGDIIGDADVEVLNP 117 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVE 188 D IC + A M +T + G GYV A+ ++ ++ PIG++ +D+LYSPI++V+Y VE Sbjct: 118 DLPICTVADGAHFHMRMTANTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNYQVE 177 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + R GQ D+DKL++ + T+GSIT ++++L+++IL D L +F+N + K + + Sbjct: 178 NTRVGQRDDFDKLTLDVWTNGSITPSEAISLSAKILTDHLSIFVNLTDEAKNTDVMVEKE 237 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYM 281 L +EEL+LSVRS NCL+ I + Sbjct: 238 ETHKEKMLEMTIEELDLSVRSYNCLKRAGINTV 270 >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 = 310 bits (794), Expect = 2e-82, Method: Composition-based stats. Identities = 135/327 (41%), Positives = 207/327 (63%), 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 E Sbjct: 180 VAYDVENARVEQRTDLDKLIIELETNGTIDPEEAIRKAATILQQQIAIFVDLE---AEEA 236 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QR+E ++L+ N G+KS Sbjct: 237 PEPIKEKEEIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLVQRSETELLKTPNLGKKS 296 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESI 329 L EIK VL + L LGM L +WPP + Sbjct: 297 LTEIKDVLASKNLELGMRLDNWPPSDL 323 >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 = 310 bits (794), Expect = 2e-82, Method: Composition-based stats. Identities = 134/327 (40%), Positives = 207/327 (63%), 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 E Sbjct: 180 VAYDVENARVEQRTDLDKLIIELETNGTIDPEEAIRKAATILQQQIAIFVDLE---AEEA 236 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QR+E ++L+ N G+KS Sbjct: 237 PEPIKEKEEIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLVQRSETELLKTPNLGKKS 296 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESI 329 L EIK VL + L LGM L +WPP + Sbjct: 297 LTEIKDVLASKNLELGMRLDNWPPSDL 323 >gi|58415758|emb|CAH57293.1| RNA polymerase alpha-subunit [Vibrio campbellii] Length = 309 Score = 310 bits (794), Expect = 2e-82, 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---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|58416062|emb|CAH57445.1| RNA polymerase alpha-subunit [Vibrio sp. R-23692] Length = 309 Score = 310 bits (794), Expect = 2e-82, 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---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|90193990|gb|ABD92556.1| RpoA [Pasteurella multocida] gi|90194060|gb|ABD92591.1| RpoA [Pasteurella multocida subsp. gallicida] Length = 302 Score = 309 bits (793), Expect = 3e-82, Method: Composition-based stats. Identities = 136/304 (44%), Positives = 202/304 (66%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VDIEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+ +T+ K G G V A DI D+E++NP+HVIC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVQNKDDVFLTLNKSGIGPVVAADITHDGDVEIVNPEHVICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D A + M + V +G GYVPA + E PIG + +DA YSP+ +++Y VE+AR Sbjct: 122 TDESASINMRIRVQRGRGYVPASARVHAQDEERPIGRLLVDACYSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLVIELETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >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 = 309 bits (793), Expect = 3e-82, Method: Composition-based stats. Identities = 112/312 (35%), Positives = 173/312 (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 DGGSLEKDRLTLEIWTSGSLTPQEAISQAAAILVDLFGALKDI-----NLESITSDQRDD 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 N---RLGITLPK 308 >gi|90194026|gb|ABD92574.1| RpoA [Actinobacillus capsulatus] Length = 303 Score = 309 bits (793), Expect = 3e-82, Method: Composition-based stats. Identities = 135/304 (44%), Positives = 203/304 (66%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+S +T+ K G G VTA DI D+E++NP+HVIC+L Sbjct: 62 VQEDILEVLLNLKGLAVKVSNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPNHVICHL 121 Query: 138 DVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 A + M + V +G GYV A H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 122 TDKSASINMRIRVQRGRGYVSASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 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 = 309 bits (793), Expect = 3e-82, Method: Composition-based stats. Identities = 124/324 (38%), Positives = 202/324 (62%), Gaps = 10/324 (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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E++ ++ GL G ++ + Sbjct: 303 SLTELEELVHAKGLNFGFDVAKYK 326 >gi|58384667|gb|AAW72682.1| DNA-directed RNA polymerase alpha chain [Buchnera aphidicola (Cinara cedri)] Length = 329 Score = 309 bits (793), Expect = 3e-82, Method: Composition-based stats. Identities = 142/334 (42%), Positives = 211/334 (63%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q ++ +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGFVEDFLKPGLVDIQQIS---ATHAKITLEPLERGFGHTLGNALRRILLSSISGCAVT 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-VDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALY 177 N E++N H+ICNL DA + + + V++G GY+ AK + D G + +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 ++ I + F P LL+ V++LEL+VRS NCL+ E+I Y+GDL+Q+TE ++L+ N Sbjct: 238 REPE---IKEEKPEFEPVLLRPVDDLELTVRSANCLKAESIHYIGDLVQKTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP+S+ E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMKLDNWPPKSLLE 328 >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 = 309 bits (793), Expect = 3e-82, 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---IEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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-AVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA + 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 E---EKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >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 = 309 bits (793), Expect = 3e-82, Method: Composition-based stats. Identities = 105/312 (33%), Positives = 171/312 (54%), Gaps = 11/312 (3%) Query: 14 NIEYIVLGQEEEN--RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE + EE + + 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 + + DI P Sbjct: 185 -GDGSLKDRLLLEVWTNGSISPQEALSSAAGILVDLFNPLKDISLEPTDTGSDI-----P 238 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL+LSVR+ NCL+ + + DL+ T+ D+L + NFG+KS E+ L Sbjct: 239 DDPTAQIPIEELQLSVRAYNCLKRAQVNSVADLLDYTQEDLLEIKNFGQKSAEEVVEALQ 298 Query: 312 TMGLFLGMNLPD 323 LG+ LP Sbjct: 299 R---RLGITLPQ 307 >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 = 309 bits (793), Expect = 3e-82, Method: Composition-based stats. Identities = 132/324 (40%), Positives = 188/324 (58%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + E IAEP +GF HTLGN LRRVL+ SL G A+T ++IDGVLHE + Sbjct: 15 VLDEATATEKYGKFIAEPFEKGFGHTLGNGLRRVLLHSLEGVAVTWIKIDGVLHEYAQAA 74 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 V ED+T+I+LN K + GD +++ + G VTA DI T +V+NP+ IC Sbjct: 75 DVVEDVTEIVLNFKNVRFTAEGDLPRKLELRANTKGPVTAADIVTDGVTQVVNPEQYICT 134 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 LD D +R+E V+ G G+ A ++ PIGLI +D+L+SPI++VSY V R GQ+ Sbjct: 135 LDKDTPLRIEFEVASGRGWKSADDNKPSEAPIGLIPVDSLFSPIERVSYDVSDTRVGQMT 194 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 DYDKL + I TDG I+ ED++ ++ IL+D L +F + + + Sbjct: 195 DYDKLELEIWTDGRISPEDALRKSAIILRDHLCVFTDDNPEDSTASLIQTPEDEAILSKM 254 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 L V +ELSVR+ NCLR I Y+G+LIQ++E++ML+ NFG+KSL EIK + MG+ Sbjct: 255 LIPVTSVELSVRAQNCLRNAEIKYLGELIQKSESEMLKYRNFGKKSLDEIKDKMLEMGIT 314 Query: 317 LGMNLPDWPPESIEELAKKYEDKC 340 L M L D + + +K E K Sbjct: 315 LNMKLKDEVRVAFNKKLEKEEMKS 338 >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 = 309 bits (792), Expect = 3e-82, Method: Composition-based stats. Identities = 137/315 (43%), Positives = 203/315 (64%), 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-AVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA + 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 AYAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRSATILAEQLDAFVDLRDIRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >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 = 309 bits (792), Expect = 3e-82, 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---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYSVDAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >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 = 309 bits (792), Expect = 3e-82, 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---IEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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-AVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA + 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 E---EKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|58415948|emb|CAH57388.1| RNA polymerase alpha-subunit [Vibrio navarrensis] Length = 309 Score = 309 bits (792), Expect = 3e-82, Method: Composition-based stats. Identities = 137/315 (43%), Positives = 204/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 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 = 309 bits (792), Expect = 4e-82, Method: Composition-based stats. Identities = 134/315 (42%), 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---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|58415962|emb|CAH57395.1| RNA polymerase alpha-subunit [Vibrio nereis] Length = 309 Score = 309 bits (792), Expect = 4e-82, 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 FLKPRLVDIEQVST---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 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + Sbjct: 178 AYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|58416028|emb|CAH57428.1| RNA polymerase alpha-subunit [Vibrio sp. R-21415] Length = 309 Score = 309 bits (792), Expect = 4e-82, Method: Composition-based stats. Identities = 137/315 (43%), Positives = 203/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQVST---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 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >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 = 309 bits (792), Expect = 4e-82, Method: Composition-based stats. Identities = 103/312 (33%), Positives = 169/312 (54%), Gaps = 10/312 (3%) Query: 14 NIEYIVLGQEEEN--RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE + EE + 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 + + DI P Sbjct: 185 ADGSIPKDRLLLEVWTNGSISPQEALSSAAGILVDLFNPLKDISLEPTDTNSDI-----P 239 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL+LSVR+ NCL+ + + DL+ T+ D+L + NFG+KS E+ L Sbjct: 240 DDPTAQIPIEELQLSVRAYNCLKRAQVNSVADLLDYTQEDLLEIKNFGQKSAEEVVEALQ 299 Query: 312 TMGLFLGMNLPD 323 LG+ LP Sbjct: 300 R---RLGITLPQ 308 >gi|58415744|emb|CAH57286.1| RNA polymerase alpha-subunit [Vibrio alginolyticus] Length = 309 Score = 309 bits (792), Expect = 4e-82, 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---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASCGLSLG 309 >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 = 309 bits (791), Expect = 4e-82, Method: Composition-based stats. Identities = 138/315 (43%), Positives = 204/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >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 = 309 bits (791), Expect = 4e-82, Method: Composition-based stats. Identities = 138/315 (43%), Positives = 204/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >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 = 309 bits (791), Expect = 4e-82, Method: Composition-based stats. Identities = 103/312 (33%), Positives = 169/312 (54%), Gaps = 10/312 (3%) Query: 14 NIEYIVLGQEEEN--RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE + EE + 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 + + DI P Sbjct: 185 ADGSIPKDRLLLEVWTNGSISPQEALSSAAGILVDLFNPLKDISLEPTDTNSDI-----P 239 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL+LSVR+ NCL+ + + DL+ T+ D+L + NFG+KS E+ L Sbjct: 240 DDPTAQIPIEELQLSVRAYNCLKRAQVNSVADLLDYTQEDLLEIKNFGQKSAEEVVEALQ 299 Query: 312 TMGLFLGMNLPD 323 LG+ LP Sbjct: 300 R---RLGITLPQ 308 >gi|90194028|gb|ABD92575.1| RpoA [Actinobacillus equuli subsp. equuli] Length = 300 Score = 309 bits (791), Expect = 4e-82, 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|58416002|emb|CAH57415.1| RNA polymerase alpha-subunit [Vibrio proteolyticus] gi|58416004|emb|CAH57416.1| RNA polymerase alpha-subunit [Vibrio proteolyticus] Length = 309 Score = 309 bits (791), Expect = 4e-82, Method: Composition-based stats. Identities = 138/315 (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---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|328813953|gb|AEB52092.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 250 Score = 309 bits (791), Expect = 5e-82, 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|58415996|emb|CAH57412.1| RNA polymerase alpha-subunit [Vibrio penaeicida] Length = 309 Score = 309 bits (791), Expect = 5e-82, Method: Composition-based stats. Identities = 137/315 (43%), Positives = 203/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQVST---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-AVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA + 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 AYTVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRSATILAEQLDAFVDLRDIRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >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 = 309 bits (791), Expect = 5e-82, Method: Composition-based stats. Identities = 101/312 (32%), Positives = 168/312 (53%), Gaps = 11/312 (3%) Query: 14 NIEYIVLGQEEEN--RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE + EE + 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 -GDGSLKDRLLLEVWTNGSISPQEALSSSAAILVELFNPLKDIS-----LEPTDMGLDMP 238 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL+LSVR+ NCL+ + + DL+ T+ D+L + NFG+KS E+ L Sbjct: 239 DDPTAQIPIEELQLSVRAYNCLKRAQVNSVADLLDYTQEDLLEIKNFGQKSAEEVVEALQ 298 Query: 312 TMGLFLGMNLPD 323 LG+ LP Sbjct: 299 R---RLGITLPQ 307 >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 = 309 bits (791), Expect = 5e-82, Method: Composition-based stats. Identities = 121/301 (40%), Positives = 179/301 (59%), Gaps = 5/301 (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 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-FNPALL 257 D+L+M + TDGSI + +++LA++IL D L + + I + 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 Query: 318 G 318 Sbjct: 316 K 316 >gi|58415822|emb|CAH57325.1| RNA polymerase alpha-subunit [Vibrio diazotrophicus] Length = 309 Score = 309 bits (791), Expect = 5e-82, Method: Composition-based stats. Identities = 135/315 (42%), Positives = 204/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYSVDPARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|328813987|gb|AEB52109.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 262 Score = 308 bits (790), Expect = 6e-82, Method: Composition-based stats. Identities = 118/261 (45%), Positives = 171/261 (65%), Gaps = 2/261 (0%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED Sbjct: 2 DGNDNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVTED 61 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILN+K I LK+ D K + I +GP VTAGDI D+EVLNPD IC + A Sbjct: 62 VTAIILNVKKIALKLESDETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLPICTVADGA 121 Query: 142 VVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 M +T + G GYV A+ ++ ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+D Sbjct: 122 HFHMRMTANTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFD 181 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL++ + T+GSIT ++++L+++IL D L +F+N + K + + L Sbjct: 182 KLTLDVWTNGSITPSEAISLSAKILTDHLSIFVNLTDEAKNTDVMVEKEETHKEKMLEMT 241 Query: 260 VEELELSVRSTNCLRGENIVY 280 +EEL+LSVRS NCL+ I Sbjct: 242 IEELDLSVRSYNCLKRAGINT 262 >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 = 308 bits (790), Expect = 6e-82, Method: Composition-based stats. Identities = 135/313 (43%), Positives = 203/313 (64%), Gaps = 11/313 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T +I+GVLHE Sbjct: 1 PRLVD---IEQISATHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEAEIEGVLHE 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 VAAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EK 234 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EI Sbjct: 235 EEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEI 294 Query: 307 KGVLGTMGLFLGM 319 K VL + GL LGM Sbjct: 295 KDVLASRGLSLGM 307 >gi|300244653|gb|ADJ93835.1| RNA polymerase alpha subunit [Vibrio sp. G21] Length = 309 Score = 308 bits (790), Expect = 6e-82, 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---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATVLAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|58415964|emb|CAH57396.1| RNA polymerase alpha-subunit [Vibrio nigripulchritudo] Length = 309 Score = 308 bits (790), Expect = 6e-82, Method: Composition-based stats. Identities = 138/315 (43%), Positives = 204/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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-AVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA + 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 AYTVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRSATILAEQLDAFVDLRDIRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 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 = 308 bits (790), Expect = 6e-82, Method: Composition-based stats. Identities = 125/320 (39%), Positives = 188/320 (58%), Gaps = 8/320 (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 VDIVSLDQPIATLDSEDATLSMQLTVQKGRGYVPAES--QDFFEIGRIPVDAIYSPVTKV 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 VEIKGVLGTMGLFLGMNLPD 323 E++ L G +L +LP+ Sbjct: 315 HELEAKLKEFG-YLPSDLPE 333 >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 = 308 bits (790), Expect = 6e-82, 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 FLKPRLVDIEQVST---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 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 AYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >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 = 308 bits (790), Expect = 7e-82, Method: Composition-based stats. Identities = 101/312 (32%), Positives = 168/312 (53%), Gaps = 11/312 (3%) Query: 14 NIEYIVLGQEEEN--RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE + EE + 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 -GDGSLKDRLLLEVWTNGSISPQEALSSSAAILVELFNPLKDIS-----LEPTDMGLDMP 238 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL+LSVR+ NCL+ + + DL+ T+ D+L + NFG+KS E+ L Sbjct: 239 DDPTAQIPIEELQLSVRAYNCLKRAQVNSVADLLDYTQEDLLEIKNFGQKSAEEVVEALQ 298 Query: 312 TMGLFLGMNLPD 323 LG+ LP Sbjct: 299 R---RLGITLPQ 307 >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 = 308 bits (790), Expect = 7e-82, Method: Composition-based stats. Identities = 138/315 (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---IEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -KEEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 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 = 308 bits (790), Expect = 7e-82, Method: Composition-based stats. Identities = 137/315 (43%), Positives = 204/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >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 = 308 bits (790), Expect = 7e-82, 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---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >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 = 308 bits (790), Expect = 7e-82, Method: Composition-based stats. Identities = 125/325 (38%), Positives = 194/325 (59%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT+V+I+G Sbjct: 5 NFQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGFAITSVRIEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VND 124 V HE S+I GV ED+T+IILN+K + K D ++ VTI G +TAG Q ++ Sbjct: 62 VDHEFSTIAGVVEDVTEIILNLKQVRFKRQIDEIDNESVTISVSGEEQLTAGHFQKFISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNPD VIC++D + ME+T+ KG GYVPA+ ++ N P+G I +D++Y+PIK V Sbjct: 122 FQVLNPDQVICHMDKKVSLNMEITIEKGRGYVPAEENKKANAPLGTIFVDSIYTPIKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y++E+ R Q DY+KL I +DGSI +D++ A++ L +F I E + Sbjct: 182 YSIENFRVEQKTDYEKLVFEIISDGSIHPKDALTEAAKTLIHHFMLFSDERITLEADEIA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+ Sbjct: 242 QTETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSYNKNDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E++ ++ GL GM+L + Sbjct: 302 KSLTELEELVSNKGLNFGMDLSKYK 326 >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 = 308 bits (790), Expect = 7e-82, Method: Composition-based stats. Identities = 135/315 (42%), 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---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|58415738|emb|CAH57283.1| RNA polymerase alpha-subunit [Vibrio aestuarianus] Length = 309 Score = 308 bits (790), Expect = 7e-82, 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---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >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 = 308 bits (789), Expect = 7e-82, Method: Composition-based stats. Identities = 102/311 (32%), Positives = 171/311 (54%), Gaps = 10/311 (3%) Query: 14 NIEYIVLGQEEEN--RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE + EE + + 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 + + DI P Sbjct: 185 GEGLIPKDRLLLEVWTNGSISPQEALSSAAGILVDLFNPLKDISLEPTDTGSDI-----P 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 R---RLGITLP 307 >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 = 308 bits (789), Expect = 8e-82, Method: Composition-based stats. Identities = 140/327 (42%), Positives = 219/327 (66%), Gaps = 9/327 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E IKP + + + + + EPL RGF HT+GNALRR+L+SS+ G A+T V+IDG Sbjct: 22 EFIKPKLADIQKISK---TQARITLEPLERGFGHTIGNALRRILLSSMPGFAVTEVEIDG 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 K++ Sbjct: 199 YKVEATRVEQRTDLDKLIIEIETNGTIDPKEAIHKSATILANQLESFVELQN---EDKKE 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|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 = 308 bits (789), Expect = 8e-82, Method: Composition-based stats. Identities = 101/302 (33%), Positives = 168/302 (55%), Gaps = 7/302 (2%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 I EPL RG T+GNALRRVL+S+L GAA+TA++I GV HE ++I GV ED+ ++I Sbjct: 20 YGKFILEPLDRGQGTTVGNALRRVLLSNLEGAAVTALRIAGVNHEFATISGVREDVMELI 79 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+K I LK + + GP VTAG +++E+++P + L + + ME Sbjct: 80 LNMKEITLKSYTSQPQIGRLVATGPATVTAGQFDLPSEVEIVDPSQYVATLAEGSKLEME 139 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 + KG GY + + ++ + + ID+++ P+ KV+Y+VE R D+L++ I Sbjct: 140 FRIEKGKGYRAIERGKDDSTSLDFLQIDSVFMPVTKVNYSVEDVRVDGTSSKDRLTIEIW 199 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+GS+ +++++ A+ I+ D + E ++ + NP +EEL+LS Sbjct: 200 TNGSVNPKEALSEAAAIIVDLFSPLRDLNE----LEATQSDYPDEVNPESQIPIEELQLS 255 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 VR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L LG+ LP Sbjct: 256 VRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEEVIEAL---QKRLGITLPQEKA 312 Query: 327 ES 328 ++ Sbjct: 313 KT 314 >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 = 308 bits (789), Expect = 8e-82, Method: Composition-based stats. Identities = 138/315 (43%), Positives = 204/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >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 = 308 bits (789), Expect = 9e-82, Method: Composition-based stats. Identities = 128/307 (41%), Positives = 192/307 (62%), Gaps = 3/307 (0%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + AEP G+ HT+GN+LRR+L+SS+ GAAI++V+I+GV HE S+ G+ ED+TDI+LN Sbjct: 1 MFHAEPFEAGYGHTIGNSLRRILLSSIEGAAISSVKIEGVSHEFQSVDGIVEDITDIVLN 60 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 +K + L ++ I G +TA DIQ +++EV+NPD +IC LD + EL Sbjct: 61 LKKVLLVCHKREGVKLMINTNRSGAITAADIQPDSNVEVINPDQIICTLDREMPFTAELE 120 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + G GY P ++ E DPIG+I ID+L+SP+ V Y VE+ GQ+ DYDKL + + TD Sbjct: 121 IKVGRGYCPGDDNKDEEDPIGVIAIDSLFSPVSLVKYAVEATLVGQITDYDKLLLEVWTD 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKE---DINVKSLPFNPALLKKVEELEL 265 G IT +D++ A+ IL+ L +F N + E ++ +++ + L V E+EL Sbjct: 181 GRITPDDALKQAAAILKHHLDVFDNVSDENYEFEDEGGEVSEEQNKLRKLLNMSVNEIEL 240 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 SVR+ NCL NI +G+L ++E +ML+ NFG+KSL EIK L ++GL LGM + Sbjct: 241 SVRAANCLNNANITTVGELAMKSEQEMLKYRNFGKKSLNEIKDKLESLGLSLGMKFDERL 300 Query: 326 PESIEEL 332 +S +EL Sbjct: 301 LDSKKEL 307 >gi|179184854|gb|ACB78162.1| RNA polymerase alpha subunit [Aliivibrio finisterrensis] Length = 306 Score = 308 bits (788), Expect = 9e-82, Method: Composition-based stats. Identities = 140/312 (44%), Positives = 204/312 (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 EAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKE 234 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK Sbjct: 235 EKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIK 294 Query: 308 GVLGTMGLFLGM 319 VL + GL LGM Sbjct: 295 DVLASRGLSLGM 306 >gi|126643071|ref|YP_001086055.1| DNA-directed RNA polymerase subunit alpha [Acinetobacter baumannii ATCC 17978] Length = 310 Score = 308 bits (788), Expect = 1e-81, Method: Composition-based stats. Identities = 137/301 (45%), Positives = 214/301 (71%), 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 KGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 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 GTVDPEEAIRKAATILQQQIAIFVDLQKDQTPVAQEPREE---VDPILLRPVDDLELTVR 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|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 = 308 bits (788), Expect = 1e-81, Method: Composition-based stats. Identities = 109/310 (35%), Positives = 170/310 (54%), Gaps = 9/310 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 +E V + + + EPL RG T+GNALRRVL+S+L+G A+TAV+I GV HE Sbjct: 6 ECVESRVEADYSQ-YSQFVLEPLERGQGTTVGNALRRVLLSNLKGTAVTAVRIAGVNHEF 64 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED DI+L +K + L+ + +F +GP VTA + + D+EV+N DH Sbjct: 65 ATIPGVREDALDILLRMKELVLRSYSPDPQIGRLFIQGPATVTAINFEVSPDVEVINLDH 124 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L DA + ME + +G GY + + E+ + + IDA++ P++KV+YTVE AR Sbjct: 125 YIATLSADATLEMEFKIEQGKGYRAIERGKDESASLDFLQIDAIFMPVRKVNYTVEDARS 184 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 G +++ D+L + I T+GS+T ++++ + IL D + E Sbjct: 185 GGLVEKDRLVLEIWTNGSLTPQEALNQGASILVDLFNPLKDVPFRSSEPSHSTEEDET-- 242 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +E L LSVR+ NCL+ I + DL++ ++ D+L + NFG KS E+ L Sbjct: 243 ---NQIPIESLNLSVRAYNCLKRAQINTVADLLEYSQEDLLEIKNFGAKSAEEVIEALH- 298 Query: 313 MGLFLGMNLP 322 LG+ LP Sbjct: 299 --KNLGITLP 306 >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 = 308 bits (788), Expect = 1e-81, Method: Composition-based stats. Identities = 124/304 (40%), Positives = 182/304 (59%), Gaps = 7/304 (2%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 IE + EN EPL G+ HTLGNALRRVL+SS+ GAAIT ++I+GV HE S Sbjct: 8 KIEVVT---AAENYGRFKIEPLDPGYGHTLGNALRRVLLSSIPGAAITKIKIEGVFHEFS 64 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 +I GV ED+T+I+LNIKGI L+ + ++++ KRG GVV A DI +++E++NP+H Sbjct: 65 TIPGVKEDVTEIVLNIKGIRLRSYAERPVKISLSKRGAGVVRAADIDAPSNVEIVNPNHY 124 Query: 134 ICNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 IC +D DA + ME+TV +G GY+PA + PIG I IDA+++P+ KV+Y VE R Sbjct: 125 ICTIDRDDAAIDMEMTVERGRGYLPADQR--DALPIGEIPIDAIFTPVPKVNYVVEHIRV 182 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP- 251 GQ D D L + I TDG+I D+++ A+++L +F E + L Sbjct: 183 GQATDIDSLLIEIWTDGTIKPGDALSHAAQVLVQYSQTIADFNRLSTEAEPTTAPNGLAI 242 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL+LS R+ NCL+ +I +G +++ E +L + N G+KS+ EI+ L Sbjct: 243 PADIYDTPIEELDLSTRTYNCLKRADITKVGQVLEMDEKALLSVRNLGQKSMEEIRDKLI 302 Query: 312 TMGL 315 G Sbjct: 303 ERGY 306 >gi|90193992|gb|ABD92557.1| RpoA [Histophilus somni] Length = 302 Score = 307 bits (787), Expect = 1e-81, Method: Composition-based stats. Identities = 137/304 (45%), Positives = 204/304 (67%), Gaps = 7/304 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VDIEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGYAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+ + +T+ K G G V A DI D+E++NPDHVIC+L Sbjct: 62 VQEDIIEVLLNLKGLAVKVQNKDNVFLTLSKSGIGPVVAADITHDGDVEIVNPDHVICHL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D +A + M + V +G GYVPA H E PIG + +DA YSP+ +++Y V++AR Sbjct: 122 TDENASINMRIRVQRGRGYVPASSRVHSLDEERPIGRLLVDACYSPVDRIAYNVQAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLVIELETNGTIEPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLVSR 298 Query: 314 GLFL 317 GL L Sbjct: 299 GLSL 302 >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 = 307 bits (787), Expect = 1e-81, Method: Composition-based stats. Identities = 127/322 (39%), Positives = 197/322 (61%), Gaps = 6/322 (1%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P IE E+ +A+PL RG+ TLGNA+RRVL++SL G AIT ++IDGV HE Sbjct: 8 PERIEVDE-ATHSESIGQFVAQPLERGYGVTLGNAMRRVLLASLPGTAITGIKIDGVFHE 66 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNP 130 S+I GV ED+ +I+LN+K + K + + ++ GP AGDI + EVLN Sbjct: 67 FSTIDGVREDVPEIVLNLKKVRFKSTTKRSCKTSLSIEGPADFKAGDIVAQEGEFEVLNK 126 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I L+ DA + +++ + +G GYVPA+ +R E PIG I ID++++PIK V ++VE+ Sbjct: 127 DMHIATLNGDAKLNIDIYIGRGRGYVPAEENRGEGMPIGFIAIDSIFTPIKNVKFSVENT 186 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK----EDIN 246 R GQ DY+K+ + ++TDGSI+ +DS++LA +++ + + +F NF ++E + + Sbjct: 187 RVGQRTDYEKMILDVETDGSISPDDSISLAGKVINEHVSLFANFSPTEEEFAEEEYKQQD 246 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L ++E+L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL E+ Sbjct: 247 DEFENMRKLLQTRIEDLDLSVRSHNCLRLAEIDTLGDLVSRKEDELLTYKNFGKKSLTEL 306 Query: 307 KGVLGTMGLFLGMNLPDWPPES 328 K L L GM++ + +S Sbjct: 307 KEQLDKCELKFGMDITKYQMKS 328 >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 = 307 bits (787), Expect = 1e-81, Method: Composition-based stats. Identities = 134/319 (42%), Positives = 196/319 (61%), Gaps = 7/319 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 EL+ P ++ +G N + + EPL RGF +TLG ALRRVL+SS+ GAA+T +ID Sbjct: 4 SELLTPRIVKIQEMG---LNTSRVTLEPLERGFGYTLGTALRRVLLSSIEGAAVTECEID 60 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE S I+GV ED+ D++LN+KG+ L + + + G V A D +++E Sbjct: 61 GVLHEYSGIEGVSEDVIDVLLNLKGLALILHEGERAEMRLSVNKAGEVKASDFSAPSNVE 120 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH-RTENDPIGLITIDALYSPIKKVSY 185 + NPDHVI +L D M + V KG GY A T ++ +DA +SPIK+++Y Sbjct: 121 ICNPDHVIAHLTQDVSFSMTVVVEKGRGYRVATQEIDTATHAPNVLRVDASFSPIKRIAY 180 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+AR Q D DKL + I+++G+I E ++ A+ IL Q+ +F+N E E Sbjct: 181 RVEAARVEQHTDLDKLVIDIESNGTIDPEQAIREAATILHKQIAVFVNLE---STEVEAE 237 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + + +P LL+ V++LEL+VRS NCL+ ENI +GDL++RTE ++L+ N G+KSL E Sbjct: 238 YEEEVQVDPVLLRPVDDLELTVRSANCLKAENINNIGDLVRRTEVELLKTPNLGKKSLNE 297 Query: 306 IKGVLGTMGLFLGMNLPDW 324 IK VL GL LGM+L +W Sbjct: 298 IKEVLAAHGLELGMDLENW 316 >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 = 307 bits (787), Expect = 1e-81, Method: Composition-based stats. Identities = 132/325 (40%), Positives = 191/325 (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 KEDINVKSLPFN---PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + S N L 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|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 = 307 bits (787), Expect = 2e-81, Method: Composition-based stats. Identities = 130/322 (40%), Positives = 195/322 (60%), Gaps = 6/322 (1%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I+ + IA+PL RG+ TLGNA+RRVL++SL G AIT ++IDGV HE Sbjct: 8 PTKIDVDE-ATHTGSFGRFIAQPLERGYGVTLGNAMRRVLLASLPGTAITGIKIDGVFHE 66 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNP 130 S+I GV ED+ +I+LN+K + K + + T+ GP AGDI + EVLN Sbjct: 67 FSTIDGVREDVPEIVLNLKKVRFKSNCKRSCKTTLTLAGPKDFLAGDIVAQEGEFEVLNK 126 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I ++ +A V +++ + +G GYVPA+ +R++ PIG I ID++Y+PIK V TVE+ Sbjct: 127 DLHIATINSEATVTIDIYIGRGRGYVPAEENRSDGMPIGFIAIDSIYTPIKNVKLTVENT 186 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI----N 246 R GQ DY+K+ + ++TDGSIT +D+++LA +I+ D + F NF ++E E+ + Sbjct: 187 RVGQKTDYEKMILDVETDGSITPDDAISLAGKIINDHITFFANFSPTEEEFSEEEYKQLD 246 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L K+E+L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL E+ Sbjct: 247 DEFESMRKLLQTKIEDLDLSVRSHNCLRLAEIDSLGDLVSRREEELLNYKNFGKKSLTEL 306 Query: 307 KGVLGTMGLFLGMNLPDWPPES 328 K L L GM++ + + Sbjct: 307 KEQLEKFNLKFGMDITRYQLKG 328 >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 = 307 bits (787), Expect = 2e-81, Method: Composition-based stats. Identities = 125/325 (38%), Positives = 193/325 (59%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT+V+I+G Sbjct: 5 NFQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGFAITSVRIEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VND 124 V HE S+I GV ED+T+IILN+K + K D ++ VTI G +TAG Q ++ Sbjct: 62 VDHEFSTIPGVVEDVTEIILNLKQVRFKRQIDEIDNEAVTISVSGEEELTAGHFQKFISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNP+ VIC+LD + ME+T+ KG GYVPA+ ++ N P+G I D++Y+PIK V Sbjct: 122 FQVLNPELVICHLDSKVNINMEITIEKGRGYVPAEENKKANAPLGTIFTDSIYTPIKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y++E+ R Q DY+KL I +DGSI +D++ A++ L +F I E + Sbjct: 182 YSIENYRVEQKTDYEKLVFEIISDGSIHPKDALTEAAKTLIHHFMLFSDERITLEADEIA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+ Sbjct: 242 QTETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSYNKNDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E++ ++ GL GM+L + Sbjct: 302 KSLTELEELVSNKGLNFGMDLSKYK 326 >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 = 307 bits (787), Expect = 2e-81, Method: Composition-based stats. Identities = 107/317 (33%), Positives = 172/317 (54%), Gaps = 9/317 (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 TMGLFLGMNLPDWPPES 328 LG+ LP ++ Sbjct: 300 --QKRLGITLPQEKAKT 314 >gi|58415894|emb|CAH57361.1| RNA polymerase alpha-subunit [Vibrio hispanicus] Length = 309 Score = 307 bits (786), Expect = 2e-81, Method: Composition-based stats. Identities = 134/315 (42%), 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---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >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 = 307 bits (786), Expect = 2e-81, Method: Composition-based stats. Identities = 111/311 (35%), Positives = 172/311 (55%), Gaps = 8/311 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 IE + + + + EPL RG T+GNALRRVL+++L G A+TA++I GV HE Sbjct: 7 ECIESKTQKNQSQ-YSKFVLEPLERGQGTTVGNALRRVLLANLEGTAVTAIRIGGVNHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ +I+LN+K I LK D + + G VTAG +++EV+NP Sbjct: 66 ATIPGVREDVLEIMLNMKEIVLKSYTDQPQIGRLVATGAAHVTAGQFDLPSEVEVINPTQ 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L A + ME + KG GYVP + E + + IDA++ P+ KV+Y+VES R Sbjct: 126 PIATLTEGAKLEMEFRIEKGVGYVPVERSSDEPTALDFLQIDAVFMPVTKVNYSVESIRG 185 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 + D+L + I T+GS +++++ A+ IL D + + + V E + + Sbjct: 186 EEGEAKDRLMLEIWTNGSFNPKEALSRAADILVDLFNPLKDLNQLETAVPEYPDEE---- 241 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 NP +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L Sbjct: 242 NPQSQIPIEELQLSVRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEEVIEAL-- 299 Query: 313 MGLFLGMNLPD 323 LG+ LP Sbjct: 300 -QKRLGITLPQ 309 >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 = 307 bits (786), Expect = 2e-81, Method: Composition-based stats. Identities = 126/322 (39%), Positives = 190/322 (59%), Gaps = 10/322 (3%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 IE + EN EPL G+ HTLGNALRRVL+SS+ GAAIT ++IDGV HE S Sbjct: 8 KIEVVT---AAENYGRFKIEPLDPGYGHTLGNALRRVLLSSIPGAAITKIKIDGVFHEFS 64 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 +I G+ ED+T+I+LNIKG+ L+ + ++++ KRG G+V A DI +++E++NP H Sbjct: 65 TISGIKEDVTEIVLNIKGVRLRSYAERPVKISLSKRGSGIVRAADIDAPSNVEIVNPFHY 124 Query: 134 ICNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 IC +D DA++ ME+TV +G GY+PA + PIG I IDA+++P+ KV+Y VE+ R Sbjct: 125 ICTIDRDDAMLEMEMTVERGRGYLPADQR--DALPIGEIPIDAIFTPVPKVNYVVENIRV 182 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP- 251 GQ D+D L + I TDG+I D+++ A+++L +F E + L Sbjct: 183 GQATDFDSLLIEIWTDGTIKPGDALSHAAQVLVQYSQTIADFNRLSTETESTAAPNGLAI 242 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL+LS R+ NCL+ +I +G +++ E +L + N G+KS+ EI+ L Sbjct: 243 PADIYDTPIEELDLSTRTYNCLKRADITKVGQVLEMDEKALLSVRNLGQKSMEEIRDKLI 302 Query: 312 TMGL--FLGMNLPDWPPESIEE 331 G +G + P IE Sbjct: 303 ERGYIPRIGQT-TNSSPAGIES 323 >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 = 306 bits (785), Expect = 2e-81, Method: Composition-based stats. Identities = 137/306 (44%), Positives = 200/306 (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++ + + + F+P Sbjct: 183 TDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPI 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|58415864|emb|CAH57346.1| RNA polymerase alpha-subunit [Vibrio halioticoli] Length = 309 Score = 306 bits (785), Expect = 2e-81, Method: Composition-based stats. Identities = 136/315 (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---IEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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-AVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA + 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 E---EKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPSLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >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 = 306 bits (785), Expect = 2e-81, Method: Composition-based stats. Identities = 126/311 (40%), Positives = 194/311 (62%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP ++ E+ + + EPL RG+ TLGN+LRRVL+S+L GAA+T+++IDG Sbjct: 3 NIEKPTI--KMLHDNEKASEGRFVIEPLERGYGITLGNSLRRVLLSTLPGAAVTSIRIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 +LHE S+I GV ED+T+IILNIK + ++ + TI GP +TA DI +++++ Sbjct: 61 ILHEFSTIPGVTEDVTEIILNIKRLAIRAWSEEPIVATIKASGPCEITAADIDCGSEVKI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 N DH I LD DA + MEL + +G GY A+ ++ ++DPI I ID+++SP++K ++ V Sbjct: 121 FNEDHHIATLDKDAELDMELVIDRGRGYSSAEQNKGKDDPISTIAIDSIFSPVEKANFIV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 R GQV D+DKL + + TDGSI+ D+VA+A+RI+Q+ L +F+ E E + Sbjct: 181 SDTRVGQVTDFDKLELEVRTDGSISANDAVAVAARIMQEHLALFVELSEEATEYSIMLEH 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L K +E+LEL+VRS N L I + DL+ TE ++ + N G+KSL EIK Sbjct: 241 EDIEQTRVLEKNIEDLELTVRSLNALTQAGIDTVSDLVSMTEGELNSVKNLGKKSLSEIK 300 Query: 308 GVLGTMGLFLG 318 + +GL L Sbjct: 301 DKIRELGLSLS 311 >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 = 306 bits (785), Expect = 3e-81, Method: Composition-based stats. Identities = 110/311 (35%), Positives = 175/311 (56%), Gaps = 8/311 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 IE + + + + EPL RG T+GN+LRRVL+++L GAA+TA++I GV HE Sbjct: 7 ECIESKTQKNQSQ-YSKFVLEPLERGQGTTVGNSLRRVLLANLEGAAVTAIRIGGVNHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ +I+LN+K I LK + + + G VTAG + +++EV+NP Sbjct: 66 ATIPGVREDVLEIMLNMKEIVLKSYTEQPQIGRLVATGAAHVTAGQFELPSEVEVVNPTQ 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L A + ME + KG GYVP + E + + IDA++ P+ KV+Y+VES R Sbjct: 126 PIATLTEGAKLEMEFRIEKGVGYVPVERSSEEPAALDFLQIDAVFMPVTKVNYSVESIRG 185 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 + D+L + I T+GS +++++ A+ IL D + + + V+E + + Sbjct: 186 EEGEAKDRLMLEIWTNGSFNPKEALSKAADILVDLFNPLKDLNQLETAVQEYPDEE---- 241 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 NP +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L Sbjct: 242 NPQSQIPIEELQLSVRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEEVIEAL-- 299 Query: 313 MGLFLGMNLPD 323 LG+ LP Sbjct: 300 -QKRLGITLPQ 309 >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 = 306 bits (785), Expect = 3e-81, Method: Composition-based stats. Identities = 130/325 (40%), Positives = 195/325 (60%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT+V+I+G Sbjct: 5 NFQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGFAITSVRIEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VND 124 V HE S+I GV ED+T++ILN+K +N K D ++ VTI G +TAGD Q ++ Sbjct: 62 VDHEFSTISGVVEDVTEMILNLKQVNFKRQIDEVDNETVTISISGQEQITAGDFQKFISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLN D VICNLD + MELT+ KG GYVPA+ ++ + PIG I D++Y+PIK V Sbjct: 122 FQVLNTDLVICNLDPKVNINMELTIEKGRGYVPAEENKKASAPIGTIFTDSIYTPIKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y++E+ R Q DY+KL I TDGSI +D++ A++IL +F I E + Sbjct: 182 YSIENFRVEQKTDYEKLVFEIQTDGSINPKDALTEAAKILIHHFMLFSDERITLEADEIA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+ Sbjct: 242 QTETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E++ ++ GL GM+L + Sbjct: 302 KSLTELEELVNVKGLNFGMDLSKYK 326 >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 = 306 bits (784), Expect = 3e-81, Method: Composition-based stats. Identities = 127/321 (39%), Positives = 192/321 (59%), Gaps = 6/321 (1%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P IE E IA+PL RG+ T+GN +RRVL++SL G AIT V+I+GV HE Sbjct: 8 PAKIEVDE-ATHTEMFGRFIAQPLERGYGVTIGNVMRRVLLASLPGTAITGVKIEGVYHE 66 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNP 130 S+I+GV ED+ +I+LN+K + K + + ++ G TAGDI + EVLN Sbjct: 67 FSAIEGVREDVPEIVLNLKRVRFKSNCKRSCKTSLSIAGTKDFTAGDIIAKEGEFEVLNK 126 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I ++ +V+ +E+ + +G GY+PA+ + E PIG I IDA+++PI+ V +TVE+ Sbjct: 127 DLHIATVNDGSVLNIEIYIGRGRGYLPAEENHPEGMPIGFIAIDAIFTPIRNVKFTVENT 186 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKKEVKEDIN 246 R GQ DY+K+ + ++TDGSI +DS++LA +I+ D + F NF E +E + + Sbjct: 187 RVGQRTDYEKMILDVETDGSIAPDDSISLAGKIINDHIMYFANFSPTEEEFTEEEFKQQD 246 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L K+E+L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL E+ Sbjct: 247 DEFESMRKLLHTKIEDLDLSVRSHNCLRLAEIDTIGDLVSRKEDELLNYKNFGKKSLTEL 306 Query: 307 KGVLGTMGLFLGMNLPDWPPE 327 K L L GM++ + + Sbjct: 307 KEQLEKFDLKFGMDITRYQMK 327 >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 = 306 bits (784), Expect = 4e-81, Method: Composition-based stats. Identities = 110/311 (35%), Positives = 172/311 (55%), Gaps = 8/311 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 IE + + + + EPL RG T+GNALRRVL+++L G A+TA++I GV HE Sbjct: 7 ECIESKTQKNQSQ-YSKFVLEPLERGQGTTVGNALRRVLLANLEGTAVTAIRIGGVNHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ +I+LN+K I LK + + + G VTAG +++EV+NP Sbjct: 66 ATIPGVREDVLEIMLNMKEIVLKSYTEQPQIGRLVATGAAHVTAGQFDLPSEVEVINPTQ 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L A + ME + KG GYVP + E + + IDA++ P+ KV+Y+VES R Sbjct: 126 PIATLTEGAKLEMEFRIEKGVGYVPVERSSDEPTALDFLQIDAVFMPVTKVNYSVESIRG 185 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 + D+L + I T+GS +++++ A+ IL D + + + V E + + Sbjct: 186 EEGEAKDRLMLEIWTNGSFNPKEALSRAADILVDLFNPLKDLNQLETAVPEYPDEE---- 241 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 NP +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L Sbjct: 242 NPQSQIPIEELQLSVRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEEVIEAL-- 299 Query: 313 MGLFLGMNLPD 323 LG+ LP Sbjct: 300 -QKRLGITLPQ 309 >gi|58415728|emb|CAH57278.1| RNA polymerase alpha-subunit [Photobacterium leiognathi subsp. leiognathi] Length = 292 Score = 306 bits (783), Expect = 4e-81, Method: Composition-based stats. Identities = 135/295 (45%), Positives = 197/295 (66%), 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++ + + + F+P LL+ V++L Sbjct: 181 DMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDL 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|58416010|emb|CAH57419.1| RNA polymerase alpha-subunit [Vibrio rumoiensis] gi|58416012|emb|CAH57420.1| RNA polymerase alpha-subunit [Vibrio rumoiensis] Length = 309 Score = 306 bits (783), Expect = 4e-81, Method: Composition-based stats. Identities = 137/315 (43%), Positives = 203/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 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 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >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 = 306 bits (783), Expect = 4e-81, Method: Composition-based stats. Identities = 126/325 (38%), Positives = 193/325 (59%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ E PL G+ T+GNALRRVL+SSL G AIT+V+ID Sbjct: 5 NFQKPDKV---IMIDSSEFDGKFEFRPLEPGYGLTIGNALRRVLLSSLEGFAITSVRIDK 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VND 124 V HE S+I GV ED+T+IILN+K + K D ++ V+I G +TAGD Q ++ Sbjct: 62 VDHEFSTISGVVEDVTEIILNLKQVRFKRQIDDIDNESVSISVSGKEQLTAGDFQKFISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNPD VICN+D + ME+T+ KG GYVPA+ ++ N P+G I D++Y+P+K V Sbjct: 122 FQVLNPDLVICNMDASVNINMEITIEKGRGYVPAEENKKSNAPLGTIFTDSIYTPVKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y++E+ R Q DY+KL I TDGSI ++++ A++ L +F I E + Sbjct: 182 YSIENYRVEQKTDYEKLVFEIITDGSIHPKEALTEAAKTLIHHFMLFSDERITLEADEIA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+ Sbjct: 242 QTETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSYNKNDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E++ ++ GL GM+L + Sbjct: 302 KSLTELEELVNVKGLSFGMDLSKYK 326 >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 = 306 bits (783), Expect = 4e-81, Method: Composition-based stats. Identities = 125/322 (38%), Positives = 192/322 (59%), Gaps = 6/322 (1%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P IE + +A+PL RG+ TLGN +RRVL++SL G AIT +++DGV HE Sbjct: 8 PAKIEVDET-THTDYFGRFVAQPLERGYGVTLGNMMRRVLLASLPGTAITGIKVDGVFHE 66 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNP 130 S+I+GV ED+ +I+LN+K + + + + T+ GP TAGDI + +VLN Sbjct: 67 FSAIEGVREDVPEIVLNLKKVRFRSTCKRSCKTTLTITGPKDFTAGDIVAMEGEFDVLNK 126 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I ++ + + +++ V +G GY PA+ +R E+ PIG I IDA+Y+PI+ V VE+ Sbjct: 127 DLHIATVNEGSTLNIDVFVGRGRGYTPAEDNRPESMPIGYIAIDAIYTPIRNVKVAVENT 186 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKKEVKEDIN 246 R GQ DY+K+ + ++TDGSIT +DS++LA RI+ + + F +F E +E + + Sbjct: 187 RVGQRTDYEKMVLDVETDGSITPDDSISLAGRIINEHVAFFADFSPTEEEFTEEEFKQQD 246 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L K+E+L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL E+ Sbjct: 247 DEFEAMRKLLNTKIEDLDLSVRSHNCLRLAEIDSIGDLVSRKEDELLNYKNFGKKSLTEL 306 Query: 307 KGVLGTMGLFLGMNLPDWPPES 328 K L L GM++ + + Sbjct: 307 KEQLEKFELKFGMDITKYQMKG 328 >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 = 306 bits (783), Expect = 4e-81, Method: Composition-based stats. Identities = 122/325 (37%), Positives = 203/325 (62%), Gaps = 10/325 (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 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVND 124 V HE +++KGV ED+T+I+LN+K + K + G ++ 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 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E++ ++ + GL GMN+ + Sbjct: 302 KSLTELEDLVDSKGLNFGMNVAKYK 326 >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 = 306 bits (783), Expect = 5e-81, Method: Composition-based stats. Identities = 124/321 (38%), Positives = 193/321 (60%), Gaps = 6/321 (1%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P IE + IA+PL RG+ TLGN +RRVL++SL G AIT ++IDGV HE Sbjct: 8 PAKIEVDE-SSHTDCFGRFIAQPLERGYGVTLGNVMRRVLLASLPGTAITGIKIDGVFHE 66 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNP 130 ++I GV ED+ +I+LN+K + K + + + ++ GP TAGDI + EVLN Sbjct: 67 FAAIDGVREDVPEIVLNLKKVRFKSTCKRNCKTSLTLVGPMDFTAGDIIAQEGEFEVLNK 126 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D + ++ A V+++L + +G GY+PA+ +R E PIG I +DA+Y+PI+ V +TVE+ Sbjct: 127 DMHVATINAGATVKIDLYIGRGRGYMPAEENRPEGMPIGYIAVDAIYTPIRNVKFTVENT 186 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKKEVKEDIN 246 R GQ DY+K+ + ++TDGS++ +DS++LA +I+ D + F NF E +E + + Sbjct: 187 RVGQRTDYEKMILDVETDGSVSPDDSISLAGKIITDHVTFFANFSPTEEEFTEEEFKQQD 246 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + K+E+L+LSVRS NCLR I +G+L+ E ++L NFG+KSL E+ Sbjct: 247 DEFETMRRLFHTKIEDLDLSVRSHNCLRLAEIDTIGELVSHKEDELLNYKNFGKKSLTEL 306 Query: 307 KGVLGTMGLFLGMNLPDWPPE 327 K L L GM++ + + Sbjct: 307 KEQLEKFDLKFGMDITKYQMK 327 >gi|328813969|gb|AEB52100.1| DNA-directed RNA polymerase alpha chain [Lactobacillus fermentum] Length = 275 Score = 305 bits (782), Expect = 5e-81, Method: Composition-based stats. Identities = 119/270 (44%), Positives = 180/270 (66%), 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 VVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + +++T KG GY A ++T 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|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 = 305 bits (782), Expect = 5e-81, Method: Composition-based stats. Identities = 125/325 (38%), Positives = 204/325 (62%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 IKP+ + +L E + PL G+ T+G+ALRRVL+SSL G AIT+++I+G Sbjct: 5 NFIKPDKV---ILLNSTEFQGQFEFRPLEPGYGLTVGHALRRVLLSSLEGYAITSIKIEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVND 124 V HE S+I GV ED+T+IILN+K + LK ++ ++VT +TAGD+ + ++ Sbjct: 62 VEHEFSTIPGVIEDVTEIILNLKQLRLKAKSENAPSEQVTAKIANLEQLTAGDLGKFISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 EVLNP+ VICNL D + M +++KG GYVP++ +++ N PIG I ID++Y+PIKKV Sbjct: 122 FEVLNPELVICNLTKDVNLEMNFSINKGRGYVPSEQNKSNNAPIGTIAIDSIYTPIKKVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y+VE+ R Q DY+KL + I+TDGSI+ ++++ AS+IL +F I E + Sbjct: 182 YSVENYRVEQKTDYEKLILDIETDGSISPQNALIEASKILIYHFMLFSDERITLETEAVK 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + ++L L K+ E++LSVR+ NCL+ + +G+L+ +++D+++ NFG+ Sbjct: 242 ASIQYDEETLHTRQLLKSKLAEMDLSVRALNCLKAAEVETLGELVSYSKSDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E++ ++ + GL G ++ + Sbjct: 302 KSLTELEELVHSKGLNFGFDVSKYK 326 >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 = 305 bits (782), Expect = 5e-81, Method: Composition-based stats. Identities = 132/321 (41%), Positives = 201/321 (62%), Gaps = 8/321 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 EL+ P ++ +G N + + EPL RGF +TLG ALRRVL+SS+ GAAIT QID Sbjct: 4 TELLTPRIVQIKEIGS---NTSRVTLEPLERGFGYTLGTALRRVLLSSIEGAAITECQID 60 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV HE S+I+GV ED+ D++LN+K I L M + + G +TAGD + +E Sbjct: 61 GVSHEYSAIEGVKEDVIDVLLNLKNIALLMPDLERAEIRLSVTEKGAITAGDFELPAGVE 120 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYSPIKKVS 184 ++NPD VI +L D + V KG GY A +E+ ++ +DA +SP+++++ Sbjct: 121 IVNPDCVIAHLTRDIPFSLTAVVEKGRGYRVAPQADDNSESTRSNVLRLDASFSPVRRIA 180 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE AR Q D DKL + I+++G+I E ++ A+ IL +Q+ +F++ E ++E +E+ Sbjct: 181 YRVEQARVEQRTDLDKLIIEIESNGTIDPEQAIRDAATILHNQIKVFVDLESTEEETEEE 240 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + +P LL+ V++LEL+VRS NCL+ ENI +GDL++RTE ++L+ N G+KSL Sbjct: 241 EEI---YIDPVLLRPVDDLELTVRSANCLKAENINNIGDLVRRTEVELLKTPNLGKKSLN 297 Query: 305 EIKGVLGTMGLFLGMNLPDWP 325 EIK VL L LGM++ +WP Sbjct: 298 EIKEVLAAHNLELGMDIENWP 318 >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 = 305 bits (782), Expect = 6e-81, Method: Composition-based stats. Identities = 137/352 (38%), Positives = 206/352 (58%), Gaps = 13/352 (3%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M +KN + KP I + + + N +A P RGF T+GN LRRVL+SS++G A Sbjct: 1 MARKNLLKGFKKPRGITFE-HSELQSNYGKFVAYPFERGFGTTVGNTLRRVLLSSIQGYA 59 Query: 60 ITAVQI-----DGVLHEISS----IKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKR 109 ++AV+I +G H +SS + 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 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE-ELAKKYEDKC 340 ++ + NFG+KSL EIK L L LGM S + + K+ ED+ Sbjct: 300 EEIAKTRNFGKKSLQEIKEKLKEWNLSLGMTDYSVLKTSTKLPMNKEEEDEA 351 >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 = 305 bits (782), Expect = 6e-81, Method: Composition-based stats. Identities = 101/316 (31%), Positives = 171/316 (54%), Gaps = 8/316 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 IE + + + + EPL RG T+GNALRRVL+++L+GAA+TA++I GV HE Sbjct: 9 ECIESKTQKNQSQ-YSKFVLEPLARGQGTTVGNALRRVLLANLQGAAVTAIRIAGVNHEF 67 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ +I+LN+K I LK D + + G VTA + + +++EV++P Sbjct: 68 ATIPGVREDVLEIMLNMKEIVLKSYSDQAQIGRLVATSAGTVTAANFELPSEVEVVDPTQ 127 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 + L + + ME + G GY + + + + + IDA++ P+ KV+Y VE R Sbjct: 128 YVATLTEGSKLEMEFRIETGTGYKGVERGKDDGTSLDFLEIDAVFMPVTKVNYIVEDIRG 187 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 D+L + I T+GS +++++ A+ I+ D + + + + + + Sbjct: 188 EHGEAQDRLILEIWTNGSFNPKEALSEAAEIVVDLFSPLKDLNQLETTTPDYQDDE---- 243 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 NP +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L Sbjct: 244 NPQSQIPIEELQLSVRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEEVIEAL-- 301 Query: 313 MGLFLGMNLPDWPPES 328 LG+ LP +S Sbjct: 302 -QKRLGITLPQEKAKS 316 >gi|179184433|gb|ACB78147.1| RNA polymerase alpha subunit [Vibrio sp. CECT 7223] Length = 308 Score = 305 bits (782), Expect = 6e-81, Method: Composition-based stats. Identities = 137/314 (43%), Positives = 203/314 (64%), Gaps = 11/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFL 317 EIK VL + GL L Sbjct: 295 TEIKDVLASRGLSL 308 >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 = 305 bits (781), Expect = 6e-81, Method: Composition-based stats. Identities = 147/329 (44%), Positives = 211/329 (64%), 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 + F+P LL V+ELEL+VRS NCL+ E I Y+GDLIQ++E D+LR N GR Sbjct: 238 VSLPTSED---FDPQLLAAVDELELTVRSANCLKAEQIYYIGDLIQKSEQDLLRTPNLGR 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 KSL EIK VL GL LG N+ +WPP + Sbjct: 295 KSLNEIKEVLTEKGLSLGTNIENWPPVDL 323 >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 = 305 bits (781), Expect = 7e-81, Method: Composition-based stats. Identities = 120/316 (37%), Positives = 194/316 (61%), Gaps = 6/316 (1%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 E +V+ + ++ L +PL +G+ T+GNALRR+L+SSL G AIT+++I GVLHE S+I Sbjct: 10 EKVVMEKADDFHGLFTFKPLEKGYGVTIGNALRRILLSSLEGYAITSIKIPGVLHEFSTI 69 Query: 76 KGVHEDLTDIILNIKGINLK-MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHV 133 +GV ED+TDIILN+K + K + ++T+ + V TAGDI + + E+LNPD V Sbjct: 70 EGVVEDVTDIILNLKQVRFKKVHEAFDGKITVEIKNQSVFTAGDIAKFTSSFEILNPDLV 129 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 IC++D +E+TV KG GY+PA+ + + G I IDA+++PIK V Y+VE+ R Sbjct: 130 ICHIDESKNFEIEITVEKGRGYLPAEESKPKEQVFGQIAIDAIFTPIKNVKYSVENTRVE 189 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKS 249 Q D++KL + + TDGSI E ++ +++IL +F + + E I+ + Sbjct: 190 QKTDFEKLILEVSTDGSIHPEKALQESAKILIQHFMLFSDQTMVLDSTGIAEPEPIDEEF 249 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L L + +L+LSVR+ NCL+ ++ +GDL + +DM++ NFG+KSL E++ + Sbjct: 250 LHMRKLLKTSLSDLDLSVRAFNCLKAADVKTLGDLAKLEISDMMKFRNFGKKSLAELEQL 309 Query: 310 LGTMGLFLGMNLPDWP 325 + GL GM++ + Sbjct: 310 IQEKGLTFGMDISKYK 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 = 305 bits (781), Expect = 7e-81, Method: Composition-based stats. Identities = 129/322 (40%), Positives = 195/322 (60%), Gaps = 6/322 (1%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I+ + IA+PL RG+ TLGNA+RRVL++SL G AIT ++IDGV HE Sbjct: 8 PAKIDVDE-ATHTGSFGRFIAQPLERGYGVTLGNAMRRVLLASLPGTAITGIKIDGVFHE 66 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNP 130 S+I GV ED+ +I+LN+K + K + + T+ GP AGDI + EVLN Sbjct: 67 FSTIDGVREDVPEIVLNLKKVRFKSNCKRSCKTTLTLAGPKDFLAGDIVAQEGEFEVLNK 126 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I ++ +A V +++ + +G GYVPA+ +R++ PIG I ID++Y+PIK V TVE+ Sbjct: 127 DLHIATINSEAAVTIDIYIGRGRGYVPAEENRSDGMPIGFIAIDSIYTPIKNVKLTVENT 186 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKKEVKEDIN 246 R GQ DY+K+ + ++TDGSI+ +D+++LA RI+ D + F NF E +E + ++ Sbjct: 187 RVGQKTDYEKMILDVETDGSISPDDAISLAGRIINDHVTFFANFSPTEEEYAEEEYKQLD 246 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L K+E+L+LSVRS NCLR I + DL+ R E ++L NFG+KSL E+ Sbjct: 247 EEFENMRKKLQTKIEDLDLSVRSHNCLRLAEIDTLADLVSRREDELLNYKNFGKKSLTEL 306 Query: 307 KGVLGTMGLFLGMNLPDWPPES 328 + L GL GM++ + + Sbjct: 307 REALEKEGLKFGMDITRYQMKG 328 >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 = 305 bits (781), Expect = 8e-81, Method: Composition-based stats. Identities = 123/325 (37%), Positives = 193/325 (59%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT+V+I+G Sbjct: 5 NFQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGFAITSVRIEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VND 124 V HE S++ GV ED+T+IILN+K + K + ++ VTI G +TAGD Q ++ Sbjct: 62 VDHEFSTLAGVVEDVTEIILNLKQVRFKRQIEEIDNETVTISLSGVDQLTAGDFQKFISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNPD VI N+D + ME+T+ KG GYVPA+ ++ N P+G I D++Y+PI+ V Sbjct: 122 FQVLNPDMVIANMDKKVNLNMEITIEKGRGYVPAEENKKSNAPLGTIFTDSIYTPIRNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y++E+ R Q DY+KL I TDGSI ++++ A++ L +F I E + Sbjct: 182 YSIENYRVEQKTDYEKLVFEIITDGSIHPKEALTEAAKTLIHHFMLFSDERITLEADEIA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+ Sbjct: 242 QTETYDEESLHMRQLLKTKLIDMDLSVRALNCLKAAEVETLGDLVSYNKNDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E++ ++ GL GM+L + Sbjct: 302 KSLTELEELVNVKGLSFGMDLAKYK 326 >gi|332042695|gb|EGI78895.1| DNA-directed RNA polymerase, alpha subunit [Lacinutrix algicola 5H-3-7-4] Length = 330 Score = 304 bits (780), Expect = 8e-81, Method: Composition-based stats. Identities = 123/325 (37%), Positives = 194/325 (59%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT+++I+G Sbjct: 5 NFQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGFAITSIRIEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQT-VND 124 V HE S++ GV ED+T+IILN+K + K + ++ V+I G +TAGD Q ++ Sbjct: 62 VDHEFSTVAGVVEDVTEIILNLKQMRFKRQIEDVDNESVSISISGQDKITAGDFQKFISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLN D VICNLD + ME+T+ KG GYVPA+ ++ + PIG I D++Y+PIK V Sbjct: 122 FQVLNSDLVICNLDPKVSITMEITIEKGRGYVPAEENKKASAPIGTIFTDSIYTPIKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y++E+ R Q DY+KL I +DGSI+ +D++ A++ L +F I E + Sbjct: 182 YSIENYRVEQKTDYEKLVFEIQSDGSISPQDALTEAAKTLIHHFMLFSDERITLEADEIA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+ Sbjct: 242 QTETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E++ ++ GL GM+L + Sbjct: 302 KSLTELEELVNVKGLNFGMDLSKYK 326 >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 = 304 bits (780), Expect = 9e-81, Method: Composition-based stats. Identities = 99/297 (33%), Positives = 161/297 (54%), Gaps = 6/297 (2%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 ++ EPL RG T+GNALRRVL+S+L G A+TAV+I GV HE ++I GV E Sbjct: 13 EADQGQYGRFSIEPLARGQGTTVGNALRRVLLSNLEGTAVTAVRIGGVNHEFATIPGVRE 72 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 D+ DI+LN++ + + + + GP VTA D+ ++EV+NP+H I +L Sbjct: 73 DVLDILLNVRELVVHAHSPQPQIGRLRVVGPATVTAADVDFGPEVEVINPNHYIASLSEG 132 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 A + MEL V G GY E + + +DA++ P+++V+Y+VE AR G+ D+ Sbjct: 133 ATLEMELKVEWGTGYRAIDRSHDETTALDFLQLDAVFMPVRRVNYSVEDARVGESTAIDR 192 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + + T+GS++ +++++ A+ L N + P + Sbjct: 193 LVLEVWTNGSLSPQEALSQAASCLVALFEPLKNVSVGSTHTADP------EPTPESQTPI 246 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 E+L+LSVR+ NCL+ + + DL+ T D+L + NFG+KS E+ L +G+ L Sbjct: 247 EDLQLSVRAYNCLKRAQVNSVADLLSYTYEDLLEIKNFGQKSAEEVVEALERIGIKL 303 >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 = 304 bits (780), Expect = 9e-81, Method: Composition-based stats. Identities = 109/311 (35%), Positives = 174/311 (55%), Gaps = 9/311 (2%) Query: 14 NIEYIVLG--QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE + + ++ + 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|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 = 304 bits (780), Expect = 1e-80, Method: Composition-based stats. Identities = 118/320 (36%), Positives = 185/320 (57%), Gaps = 10/320 (3%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E ++P + + + I EPL RG+ +TLGN +RRVL+SSL GA TA+QI Sbjct: 1 MTEFMRPT----VTTEEVNDTVARFIVEPLERGYGYTLGNCMRRVLLSSLDGAKATAIQI 56 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVN 123 +GV HE ++ +GV ED+TDI+LN+KG+ D + GP VT D+ Sbjct: 57 EGVQHEFTTAEGVIEDITDIVLNVKGLVFSALNDDIEEATAHVSAEGPCTVTGADLDIPT 116 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 + ++NP+HVI + + M + + G GYV A+ ++ DPIG+I +D+L+SP+++ Sbjct: 117 EFTLVNPEHVIATVADGGQLDMTVRIGVGRGYVSAERNKRTEDPIGVIHVDSLFSPVRRC 176 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + V R GQ DYDKL + ++TDGSIT ++V AS I+ +G F++ + E + Sbjct: 177 TLNVTDTRVGQRTDYDKLVLEVETDGSITPTEAVCRASNIINQYMGAFLSLSDVVDEEEG 236 Query: 244 DIN----VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +I + N L K++E+L+LSVRS NCL+ I + L++ +E D+L + NFG Sbjct: 237 EIPSIFAPEGQESNAELDKQIEDLDLSVRSYNCLKRAGIHSVRQLVEFSENDLLNIRNFG 296 Query: 300 RKSLVEIKGVLGTMGLFLGM 319 KS+ E+K L +M L L + Sbjct: 297 AKSIEEVKDKLISMDLNLKL 316 >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 = 304 bits (779), Expect = 1e-80, Method: Composition-based stats. Identities = 121/325 (37%), Positives = 191/325 (58%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + PL G+ T+GNALRRVL+S+L G AIT+++I+G Sbjct: 5 NFQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSALEGYAITSIRIEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQT-VND 124 V HE S+I GV ED+T+IIL++K + K + ++ VTI G +TAGD Q ++ Sbjct: 62 VDHEFSTIPGVVEDVTEIILSLKQVRFKRQIEDIDNESVTIAISGKNQITAGDFQKYISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNP+ VICNLD ME+T+ KG GYVPA+ ++ +N IG I D++++P+K V Sbjct: 122 FQVLNPELVICNLDSKVNFNMEMTIEKGRGYVPAEENKKQNAAIGTIFTDSIFTPVKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y +E+ R Q DY+KL I TDGSI +D++ A+++L +F I E + Sbjct: 182 YAIENFRVEQKTDYEKLVFEIKTDGSINPKDALTEAAKVLIHHFMLFSDERITLEADEIA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+ Sbjct: 242 QTESYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E+ ++ L GM+L + Sbjct: 302 KSLTELDELVAIKNLTFGMDLAKYK 326 >gi|58415826|emb|CAH57327.1| RNA polymerase alpha-subunit [Vibrio diazotrophicus] Length = 309 Score = 304 bits (779), Expect = 1e-80, Method: Composition-based stats. Identities = 134/315 (42%), Positives = 204/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNAL R+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQISTTHAKVTLEPLERGFGHTLGNALHRILLSSMPGCAVTEVEIEGV 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 AYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|125743179|gb|ABN54790.1| RpoA [Vibrio sp. RLUH-CZ] Length = 307 Score = 304 bits (779), Expect = 1e-80, Method: Composition-based stats. Identities = 136/313 (43%), Positives = 202/313 (64%), Gaps = 11/313 (3%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T +I+GVLH Sbjct: 1 KPRLVDIEQVST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEXEIEGVLH 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 SVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE---E 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|328813995|gb|AEB52113.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 254 Score = 304 bits (779), Expect = 1e-80, Method: Composition-based stats. Identities = 117/254 (46%), Positives = 170/254 (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 SKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + G GYV A+ ++ ++ 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|90194050|gb|ABD92586.1| RpoA [Haemophilus parasuis] Length = 302 Score = 304 bits (778), Expect = 1e-80, Method: Composition-based stats. Identities = 132/292 (45%), Positives = 198/292 (67%), Gaps = 7/292 (2%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ Sbjct: 7 SSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDIL 66 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAV 142 +++LN+KG+ +K+ +T+ K G G VTA DI D+E++NPDHVICNL D +A Sbjct: 67 EVLLNLKGLAVKVQNKDDIILTLTKSGIGPVTAADITHDGDVEIVNPDHVICNLTDKNAS 126 Query: 143 VRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M + V +G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Q D D Sbjct: 127 ISMRIRVQRGRGYVPASARVHTQDDDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTDLD 186 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F+P LL+ Sbjct: 187 KLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQP---EVKEEKPEFDPILLRP 243 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL Sbjct: 244 VDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLA 295 >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 = 304 bits (778), Expect = 2e-80, Method: Composition-based stats. Identities = 130/324 (40%), Positives = 201/324 (62%), Gaps = 10/324 (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 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEV 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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL EI+ ++ + GL GMNL + Sbjct: 303 SLTEIQDLVKSKGLSFGMNLSKFK 326 >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 = 304 bits (778), Expect = 2e-80, Method: Composition-based stats. Identities = 115/309 (37%), Positives = 194/309 (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 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF----EEPKKEVKEDINVK 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|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 = 304 bits (778), Expect = 2e-80, Method: Composition-based stats. Identities = 129/324 (39%), Positives = 197/324 (60%), Gaps = 10/324 (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 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLSELDDLLESLNLSFGTDISKYK 326 >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 = 304 bits (778), Expect = 2e-80, Method: Composition-based stats. Identities = 124/325 (38%), Positives = 195/325 (60%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 IKP+ + +L + + PL G+ T+GNALRRVL+SSL G AIT+++I+G Sbjct: 5 NFIKPDKV---ILIESDTQFGQFEFRPLEPGYGITVGNALRRVLLSSLEGYAITSIKIEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDI-QTVND 124 V HE S+I GV ED+T+IILN+K + K D + VT G +TAGD+ + ++ Sbjct: 62 VEHEFSTIPGVVEDVTEIILNLKKVRFKKQIDESDAENVTATISGQDQLTAGDLGKFISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNP+ VI NLD + + T+ KG GYVPA+ ++ + PIG I ID++Y+PIK V Sbjct: 122 FQVLNPELVIANLDSKVNLTISFTIEKGRGYVPAEENKKASAPIGTIAIDSIYTPIKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y +E+ R Q DY+KL I TDGSI+ +D++ A++IL +F I E + Sbjct: 182 YAIENYRVEQKTDYEKLVFEITTDGSISPQDALTEAAKILIHHFMLFSDERITLEAEEVA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + ++L L K+ +L+LSVR+ NCL+ + +G+L+ ++D+++ NFG+ Sbjct: 242 SGEAYDEEALHMRQLLKTKLVDLDLSVRALNCLKAAEVETLGELVSFAKSDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E++ ++ + GL GM+ + Sbjct: 302 KSLSELEELVDSKGLSFGMDTSKYK 326 >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 = 303 bits (777), Expect = 2e-80, Method: Composition-based stats. Identities = 104/311 (33%), Positives = 168/311 (54%), Gaps = 9/311 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 +E + + + + EPL RG TLGN+LRR+L+S+L G A+TA++I GV HE Sbjct: 7 ECVESKTHKNQSQ-YSKFVFEPLERGQGTTLGNSLRRILLSNLEGTAVTALRIGGVNHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED +IILN+K I LK + + GPG VTA +++EV++P Sbjct: 66 ATIPGVREDALEIILNMKEIILKSYTHQPQIGRLTATGPGQVTAAQFDLPSEVEVVDPTQ 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L A + ME + KG Y + +R E + + IDA++ P+ KV+Y+V+S Sbjct: 126 YIATLADGAKLEMEFRIEKGKSYRAVQRNRDEATALDFLQIDAVFMPVTKVNYSVDSIHS 185 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 D+L++ I T+GSI E++++ A+ I + + + + + Sbjct: 186 EGDAVRDRLTLEIWTNGSIKPEEALSQAAAIAVELFNPLKDLTLEAIQDELQEDE----- 240 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L T Sbjct: 241 DPTSQIPIEELQLSVRAYNCLKRAQINSVADLLDYSQEDLLEIKNFGQKSAEEVIDALKT 300 Query: 313 MGLFLGMNLPD 323 LG+ LP+ Sbjct: 301 ---RLGITLPE 308 >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 = 303 bits (777), Expect = 2e-80, Method: Composition-based stats. Identities = 124/324 (38%), Positives = 194/324 (59%), Gaps = 10/324 (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 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLSELDDLLESLNLSFGTDISKYK 326 >gi|328813939|gb|AEB52085.1| DNA-directed RNA polymerase alpha chain [Lactobacillus brevis] Length = 265 Score = 303 bits (777), Expect = 2e-80, Method: Composition-based stats. Identities = 117/265 (44%), Positives = 175/265 (66%), 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 ELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +T KG GYV A ++T + 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|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 = 303 bits (777), Expect = 2e-80, Method: Composition-based stats. Identities = 131/324 (40%), Positives = 200/324 (61%), Gaps = 10/324 (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 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEV 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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL EI+ ++ + L GMNL + Sbjct: 303 SLTEIQELVKSKSLSFGMNLSKFK 326 >gi|328814003|gb|AEB52117.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 261 Score = 303 bits (777), Expect = 2e-80, Method: Composition-based stats. Identities = 118/257 (45%), Positives = 171/257 (66%), Gaps = 2/257 (0%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E +N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED Sbjct: 5 DENDNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVTED 64 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILN+K I LK+ D K + I +GP VTAGDI D+EVLNPD IC + A Sbjct: 65 VTAIILNVKKIALKLESDETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLPICTVADGA 124 Query: 142 VVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 M +T + G GYV A+ ++ ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+D Sbjct: 125 HFHMRMTANTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFD 184 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL++ + T+GSIT ++++L+++IL D L +F+N + K + + L Sbjct: 185 KLTLDVWTNGSITPSEAISLSAKILTDHLSIFVNLTDEAKNTDVMVEKEETHKEKMLEMT 244 Query: 260 VEELELSVRSTNCLRGE 276 +EEL+LSVRS NCL+ Sbjct: 245 IEELDLSVRSYNCLKRA 261 >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 = 303 bits (777), Expect = 2e-80, Method: Composition-based stats. Identities = 126/331 (38%), Positives = 189/331 (57%), Gaps = 12/331 (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-----DGVLHEIS----SIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKR 109 I++V+I DGV H IS +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 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 D+ + NFG+KSL EIK L GL LGM Sbjct: 300 DDITKTRNFGKKSLEEIKAKLEEHGLTLGMT 330 >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 = 303 bits (777), Expect = 2e-80, Method: Composition-based stats. Identities = 103/311 (33%), Positives = 168/311 (54%), Gaps = 16/311 (5%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + +++ PL G T+GNALRRVL+S+L G+A+TAV+I GV HE S+I GV Sbjct: 12 VEEDQGQYGQFALHPLAPGQGITVGNALRRVLLSNLPGSAVTAVRIAGVNHEFSTIPGVR 71 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGV----VTAGDIQTVNDIEVLNPDHVIC 135 ED+ DI+L +K + ++ + +F + P VTAG +Q +++EV+NP+H I Sbjct: 72 EDVMDILLQMKQLVIRSHTSEPQMGRLFAQAPENEPLTVTAGMVQLGSEVEVVNPNHYIA 131 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR---- 191 L A + ME + K GY + R + + + +DA++ P+++V+YTV+S R Sbjct: 132 TLMPGATLEMEFKIEKDRGYRSVERVRDDRLALDYLQLDAVFMPVRRVNYTVDSVRSAGA 191 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 EG D L + I T+GS+T +D++ A+ IL D +E E Sbjct: 192 EGDRQLQDYLKLEIWTNGSLTPQDALNQAATILVDLFSP---LKEVPLHTSEATATDD-- 246 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 + +E+L LSVR+ NCL+ + + DL++ ++ ++L + NFG+KS E+ L Sbjct: 247 HDETGQIPIEQLNLSVRAYNCLKRAQVNTVADLLEYSQEELLEIKNFGQKSAEEVIEAL- 305 Query: 312 TMGLFLGMNLP 322 LG+ LP Sbjct: 306 --QKHLGITLP 314 >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 = 303 bits (777), Expect = 2e-80, Method: Composition-based stats. Identities = 128/315 (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 KGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHV 133 +G+ ED+T+IILN+K + K D S 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 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKS 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|328813967|gb|AEB52099.1| DNA-directed RNA polymerase alpha chain [Lactobacillus fermentum] Length = 271 Score = 303 bits (777), Expect = 2e-80, Method: Composition-based stats. Identities = 117/268 (43%), Positives = 178/268 (66%), 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 VVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + +++T KG GY A ++T 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|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 = 303 bits (776), Expect = 2e-80, Method: Composition-based stats. Identities = 120/324 (37%), Positives = 197/324 (60%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + + PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMLEANDKFGKFEFRPLEPGFGVTIGNALRRILLSSLEGFAINTIKIGGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + +++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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLSELDDLLESLNLSFGTDISKYK 326 >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 = 303 bits (776), Expect = 3e-80, Method: Composition-based stats. Identities = 112/304 (36%), Positives = 187/304 (61%), Gaps = 5/304 (1%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 EEEN PL RG+ T+GN++RRVL+SSL G++++ + I+GVLHE S+I GV ED Sbjct: 15 DEEENYGKFALYPLERGYGTTIGNSMRRVLLSSLPGSSVSKILIEGVLHEFSTIDGVVED 74 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + +I+LNIKG+++ D + + GP +VTA DI+ + +++ NPDH I ++ + Sbjct: 75 VPEIVLNIKGLDVTKHVDEDVTLFLDIEGPKIVTAKDIKADSSVDIANPDHYIATVNEKS 134 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + + + V+ G GY + ++ E+DPIG I ID+ ++P++KV++TVE+ R G+ DYDKL Sbjct: 135 RLFIAMDVTDGKGYRVSDDNKKESDPIGAIAIDSSFTPVEKVNFTVENTRVGESTDYDKL 194 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK-----KEVKEDINVKSLPFNPAL 256 M + T+G+IT ++++A S IL + F + +E + + + + L Sbjct: 195 VMEVWTNGTITPQEALAEGSSILIENFSFFNELPNQQFPPEVEEEEIEEVEEEDSLSEDL 254 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +EEL+LS+RS NCL+ +GD+I+ +E+++ + NFG+KSL E+ L +GL Sbjct: 255 AMTIEELDLSLRSFNCLKRAGFDRVGDIIKVSESELKTIKNFGKKSLTEVIEKLDELGLS 314 Query: 317 LGMN 320 L Sbjct: 315 LKDE 318 >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 = 303 bits (776), Expect = 3e-80, Method: Composition-based stats. Identities = 133/322 (41%), Positives = 186/322 (57%), Gaps = 4/322 (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+ E + + Sbjct: 185 AARVGEETEMDSLELEIWTDGRISPQNALEEAARILRDHLQPFMG--NQVVEKDVVLTEE 242 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L VE L+LSVR+ NCL NI +G+L +TE+ ML+ NFG+KSL EIK Sbjct: 243 ETKMFKLLSHDVEILDLSVRAMNCLNSANIKLIGELCTKTESRMLKYRNFGKKSLDEIKE 302 Query: 309 VLGTMGLFLGMNLPDWPPESIE 330 + +GL LGM+ D ++E Sbjct: 303 KIEKLGLELGMSFSDRLMAALE 324 >gi|90194058|gb|ABD92590.1| RpoA [Mannheimia granulomatis] Length = 303 Score = 303 bits (776), Expect = 3e-80, Method: Composition-based stats. Identities = 132/296 (44%), Positives = 200/296 (67%), Gaps = 7/296 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +G Sbjct: 2 VNIEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +++LN+KG+ +K+ +T+ K G G VTA DI D+E++NPDHVICNL Sbjct: 62 VQEDILEVLLNLKGLAVKVQNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPDHVICNL 121 Query: 138 -DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 D +A + M + V +G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Sbjct: 122 TDKNASINMRIRVQRGRGYVPASARLHTQNDDRPIGRLLVDARFSPVDRIAYNVEAARVE 181 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F+ Sbjct: 182 QRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQP---EVKEEKPEFD 238 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK V Sbjct: 239 PILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDV 294 >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 (776), Expect = 3e-80, Method: Composition-based stats. Identities = 119/310 (38%), Positives = 196/310 (63%), 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 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF----EEPKKEVKEDINVK 248 G+ DYDKL + + TDG+IT +++++ + IL + + F + P+ E +E ++ Sbjct: 186 GESTDYDKLILEVWTDGTITPQEALSEGASILMEDIRFFKDLPGQQFPPEVEEEEVEEIE 245 Query: 249 SLPFNPALLKK-VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 N 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|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 = 303 bits (776), Expect = 3e-80, Method: Composition-based stats. Identities = 123/325 (37%), Positives = 191/325 (58%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + PL G+ T+GNALRRVL+S+L G AIT+V+I+G Sbjct: 5 NFQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSALEGYAITSVRIEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQT-VND 124 V HE S+I GV ED+T+IILN+K + K + ++ VTI G +TAGD Q ++ Sbjct: 62 VDHEFSTISGVVEDVTEIILNLKQVRFKRQIEDIDNESVTISVSGKDQLTAGDFQKFISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNPD VICNLD + +LT+ KG GYVPA+ ++ +N IG I D++++P+K V Sbjct: 122 FQVLNPDLVICNLDSKIKLNFDLTIEKGRGYVPAEENKKQNAAIGTIFTDSIFTPVKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y +E+ R Q DY+KL I TDGSI +D++ A+++L +F I E + Sbjct: 182 YAIENFRVEQKTDYEKLVFEIKTDGSINPKDALTEAAKVLIHHFMLFSDERITLEADEIA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+ Sbjct: 242 QTESYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E+ ++ L GM+L + Sbjct: 302 KSLTELDELVAVKNLTFGMDLAKYK 326 >gi|189308771|gb|ACD87087.1| RpoA [Vibrio sp. PP-200] Length = 302 Score = 303 bits (776), Expect = 3e-80, Method: Composition-based stats. Identities = 135/304 (44%), Positives = 199/304 (65%), Gaps = 8/304 (2%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV Sbjct: 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 VD-AVVRMELTVSKGHGYVPAK---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++ + + + F+P Sbjct: 182 RTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDP 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|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 = 303 bits (775), Expect = 3e-80, Method: Composition-based stats. Identities = 121/324 (37%), Positives = 195/324 (60%), Gaps = 10/324 (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 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLSELDDLLESLNLSFGTDISKYK 326 >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 = 118/313 (37%), Positives = 195/313 (62%), Gaps = 6/313 (1%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 NI+ + + +EE PL RG+ T+GN++RRVL+SSL G++++ + I+GVLHE Sbjct: 7 TNIQILDINEEEH-YGKFALYPLERGYGTTIGNSMRRVLLSSLPGSSVSKILIEGVLHEF 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|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 = 303 bits (775), Expect = 3e-80, Method: Composition-based stats. Identities = 105/304 (34%), Positives = 172/304 (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 DRLILDIWTNGNLTPQESLSQAATILVDLFNPLKD-----ATFNVVEDIELEEEDETNQI 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|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 = 303 bits (775), Expect = 3e-80, Method: Composition-based stats. Identities = 125/325 (38%), Positives = 196/325 (60%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + + PL GF T+GNALRRVL+SSL G AIT++++DG Sbjct: 5 NFQKPDKV---IMIESTDFSGRFEFRPLEPGFGLTVGNALRRVLLSSLEGFAITSLRLDG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQT-VND 124 V HE S++ GV ED+T+IILN+K + K + + V+I G TAGD+Q ++ Sbjct: 62 VEHEFSTVSGVVEDVTEIILNLKQVRFKKQIEETDRETVSISVSGQEQFTAGDLQKFISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNPD VICN+D + E+T+ KG G+VPA+ ++ + PIG I D++Y+PIK V Sbjct: 122 FQVLNPDLVICNMDKSVKLNAEITIEKGRGFVPAEENKKASAPIGTIFTDSIYTPIKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y VE+ R Q DY+KL IDTDGSI+ +D++ A++IL +F I E + Sbjct: 182 YAVENFRVEQKTDYEKLVFDIDTDGSISPKDALTEAAKILIHHFMLFSDERITLEADEIA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L ++ +++LSVR+ NCL+ + +GDL+ ++D+++ NFG+ Sbjct: 242 QTETYDEESLHMRQLLKTRLIDMDLSVRALNCLKAAEVDTLGDLVSFNKSDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E++ ++ GL GM+L + Sbjct: 302 KSLTELEELVIVKGLSFGMDLSKYK 326 >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 = 303 bits (775), Expect = 3e-80, Method: Composition-based stats. Identities = 125/324 (38%), Positives = 195/324 (60%), Gaps = 10/324 (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 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLSELDDLLESLNLSFGTDISKYK 326 >gi|161511763|emb|CAP16892.1| DNA-directed RNA polymerase subunit alpha [Pediococcus parvulus] Length = 264 Score = 303 bits (775), Expect = 3e-80, Method: Composition-based stats. Identities = 119/267 (44%), Positives = 174/267 (65%), Gaps = 6/267 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KPN I E N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLH Sbjct: 2 KPN----IHKIDENANYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLH 57 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S+I+GV ED+T IILNIK ++LK+ D K + I +GP VTAGDIQ +D+E+LNP Sbjct: 58 EFSTIEGVVEDVTQIILNIKKVSLKIESDDEKSLEINVKGPATVTAGDIQGDSDVEILNP 117 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVE 188 D IC + LT G GYV A ++ ++ PIG++ ID++Y+PI++V+Y VE Sbjct: 118 DQYICTVADGVTFHAVLTADTGRGYVSADENKARKDDMPIGVLPIDSIYTPIERVNYQVE 177 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + R GQ DYDKL++ + TDGSI+ ++ +L+++IL + L +F+N + ++ + + + Sbjct: 178 NTRVGQRDDYDKLTLDVWTDGSISPSEATSLSAKILTEHLALFVNLTDEAQDAEIMVEKE 237 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRG 275 L +EEL+LSVRS NCL+ Sbjct: 238 ETHKEKMLEMSIEELDLSVRSYNCLKR 264 >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 = 303 bits (775), Expect = 4e-80, Method: Composition-based stats. Identities = 124/316 (39%), Positives = 192/316 (60%), Gaps = 6/316 (1%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 E +V+ + + + +PL GF T+GNA+RRVL+SSL G AIT ++I GV HE SSI Sbjct: 10 EKVVMDKTTDFHGMFEFKPLEPGFGVTVGNAIRRVLLSSLEGYAITCIRIPGVQHEFSSI 69 Query: 76 KGVHEDLTDIILNIKGINLK-MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHV 133 KGV +D+ +IILN+K + K +S + ++ + +TAGDI + + E+LNPD V Sbjct: 70 KGVMQDVAEIILNLKKVRFKKISENVDSKIVVEVSNQETLTAGDIGKFTSSFEILNPDLV 129 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 ICNLD + +EL + KG GYV ++ + + IG I ID++++PIK V Y VE+ R Sbjct: 130 ICNLDESVDLEVELYIEKGRGYVSSEDQKLPDAAIGHIPIDSIFTPIKNVRYAVENTRVE 189 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKS 249 Q DY+KL + I TDGSI E+++ A+ IL +F + E KKE ++++ Sbjct: 190 QRTDYEKLLLDIQTDGSIHPEEALKGAANILIQHFMLFSDQNIILETAKKEEVQEVDEHF 249 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L L + +L+LSVR+ NCL+ +I +GDL++ ADM++ NFG+KSL E++ + Sbjct: 250 LHMRKLLKTPISDLDLSVRAYNCLKSADIRTLGDLVKLDIADMMKFRNFGKKSLTELEQL 309 Query: 310 LGTMGLFLGMNLPDWP 325 + GL GM++ + Sbjct: 310 VAEKGLSFGMDVSKYK 325 >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 = 303 bits (775), Expect = 4e-80, Method: Composition-based stats. Identities = 126/344 (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 MARKNLLKGFVLPTSITVEHLDTNAH-YGKFAAYPFERGYGVTIGNTLRRILLSSIQGYA 59 Query: 60 ITAVQI-----DGVLHEISS----IKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKR 109 I+AV+I G H +SS 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|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 = 303 bits (775), Expect = 4e-80, Method: Composition-based stats. Identities = 122/325 (37%), Positives = 189/325 (58%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + + PL G+ T+GNALRRV++SSL G AIT+V+ D Sbjct: 5 NFQKPDKV---IMIESSDFEGRFEFRPLEPGYGLTIGNALRRVMLSSLEGFAITSVKFDK 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQ-TVND 124 V HE S+I GV ED+T+IILN+K + K + + TI G +TAGD Q T++ Sbjct: 62 VDHEFSTIPGVREDVTEIILNLKQVRFKRQVEDVEDETATITVSGKKQLTAGDFQKTLSG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNPD VICN++ A ME+T+ KG GYV A+ + N IG+I D++++PIK V Sbjct: 122 FQVLNPDLVICNMETSASFTMEITIEKGRGYVSAEENAKPNAAIGVIATDSIFTPIKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 YT+E+ R Q DY+KL I TDGSI + ++ A++ L +F I E + Sbjct: 182 YTIENYRVEQKTDYEKLVFEIKTDGSIHPKQALTEAAKTLIHHFMLFSDERITLEADEVA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + +SL L K+ +++LSVR+ NCL+ + +GDL+ +AD+++ NFG+ Sbjct: 242 QTDAYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVETLGDLVSFNKADLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL+E+ ++ GL GM+ + Sbjct: 302 KSLIELDELVANKGLVFGMDTSKYK 326 >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 = 302 bits (774), Expect = 5e-80, Method: Composition-based stats. Identities = 121/324 (37%), Positives = 193/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + + PL GF T+GNALRR+L+SSL G A+ ++I GV Sbjct: 6 FQKPDKV---VMLEADNKFGKFEFRPLEPGFGVTIGNALRRILLSSLEGYAVNTIRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLSELDDLLESLNLSFGTDISKYK 326 >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 = 302 bits (774), Expect = 5e-80, Method: Composition-based stats. Identities = 121/324 (37%), Positives = 194/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + + PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMLEANDKFGKFEFRPLEPGFGVTIGNALRRILLSSLEGYAINTIRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLSELDDLLESLNLSFGTDISKYK 326 >gi|291334082|gb|ADD93755.1| DNA directed RNA polymerase alpha subunit [uncultured marine bacterium MedDCM-OCT-S05-C114] Length = 332 Score = 302 bits (774), Expect = 5e-80, Method: Composition-based stats. Identities = 125/318 (39%), Positives = 188/318 (59%), Gaps = 4/318 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + PN + ++ IA+P G+ HT+GNA RRVL+SS+ GAAI+++++DG Sbjct: 7 KFELPNRL-VKEEDTSTDSYAKFIADPFESGYGHTIGNAFRRVLLSSIEGAAISSLKLDG 65 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE SI GV ED+TDI+LN+K + + +TI G VTAGDI IE+ Sbjct: 66 VQHEFQSIDGVVEDVTDIVLNLKKVLVISHKADPVTLTIDVEKDGEVTAGDISPAEGIEI 125 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NP+ +I D V E+ V+ G G+ + +++ PIG+I +DALYSP+K V Y V Sbjct: 126 INPEQIILTTDRKLQVTGEMIVTVGRGFCLGEDSKSDEQPIGMINVDALYSPVKLVKYEV 185 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK---ED 244 ++ R GQ+ DYDKL + + TDG IT +D++ ++ IL+ L +F E + E + ++ Sbjct: 186 QNTRVGQMTDYDKLLLEVTTDGRITPDDALKQSAAILRHHLDVFDQISEEQIEFESHTKE 245 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 ++ + L V E+ELSVR+ NCL NI +G+L ++E +ML+ NFG+KSL Sbjct: 246 VSEEQNRLRNLLSMSVNEIELSVRAANCLNNANITTVGELATKSEPEMLKYRNFGKKSLN 305 Query: 305 EIKGVLGTMGLFLGMNLP 322 EIK L +GL LGM Sbjct: 306 EIKAKLEQLGLSLGMKFE 323 >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 = 302 bits (774), Expect = 5e-80, Method: Composition-based stats. Identities = 123/325 (37%), Positives = 193/325 (59%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT+++++G Sbjct: 5 SFQKPDKV---IMINSTDFEGKFEFRPLEPGYGLTIGNALRRVLLSSLEGFAITSLRVEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VND 124 V HE S+I GV ED+T+IILN+K + K D ++ VTI G V AGD Q ++ Sbjct: 62 VDHEFSTIAGVVEDVTEIILNLKQLRFKRQIDEIDNETVTISVSGNDKVVAGDFQKFISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNPD +ICN+D + ME+T+ KG GYVPA+ ++ N P+G I D++++PIK V Sbjct: 122 FQVLNPDLIICNMDSKVNLNMEITIEKGRGYVPAEENKKANAPLGTIFTDSIFTPIKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y++E+ R Q DY+KL I +DGSI +D++ A++ L +F I E + Sbjct: 182 YSIENFRVEQKTDYEKLVFEITSDGSIHPKDALTEAAKTLIHHFMLFSDERITLEADEIA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+ Sbjct: 242 QTETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E++ ++ GL GM+L + Sbjct: 302 KSLTELEELVLVKGLNFGMDLAKYK 326 >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 = 302 bits (774), Expect = 5e-80, Method: Composition-based stats. Identities = 125/325 (38%), Positives = 194/325 (59%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + + PL GF T+GNALRRVL+SSL G AIT+++IDG Sbjct: 5 NFQKPDKV---IMIESTDFSGRFEFRPLEPGFGLTVGNALRRVLLSSLEGFAITSLRIDG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGV--VTAGDIQT-VND 124 V HE S++ G+ ED+T+IILN+K + K D R T+ G TAGD+Q ++ Sbjct: 62 VEHEFSTVSGIVEDVTEIILNLKQVRFKKQIDETDRETVSVSISGQEQFTAGDLQKFISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNPD VICN+D + E+T+ KG G+VPA+ ++ + PIG I D++Y+PIK V Sbjct: 122 FQVLNPDLVICNMDKSVKLNAEITIEKGRGFVPAEENKKASAPIGTIFTDSIYTPIKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y +E+ R Q DY+KL IDTDGSI +D++ A++IL +F I E + Sbjct: 182 YAIENFRVEQKTDYEKLVFDIDTDGSINPKDALTEAAKILIHHFMLFSDERITLEADEIA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L ++ +++LSVR+ NCL+ + +GDL+ ++D+++ NFG+ Sbjct: 242 QTETYDEESLHMRQLLKTRLIDMDLSVRALNCLKAAEVDTLGDLVSFNKSDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E++ ++ GL GM+L + Sbjct: 302 KSLTELEELVIVKGLSFGMDLTKYK 326 >gi|328813993|gb|AEB52112.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 253 Score = 302 bits (774), Expect = 5e-80, Method: Composition-based stats. Identities = 117/253 (46%), Positives = 170/253 (67%), 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 MELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 M +T + G GYV A+ ++ ++ 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|179184639|gb|ACB78155.1| RNA polymerase alpha subunit [Vibrio comitans] Length = 304 Score = 302 bits (773), Expect = 5e-80, Method: Composition-based stats. Identities = 137/306 (44%), Positives = 202/306 (66%), Gaps = 9/306 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +G Sbjct: 3 VDIEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEG 62 Query: 78 VHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 V ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ NP+HVIC+ Sbjct: 63 VQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICH 122 Query: 137 LDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D A + M + V +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Sbjct: 123 LTDDNADIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARV 182 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + KE + F Sbjct: 183 EQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEKE----REPRF 238 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 DPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 298 Query: 313 MGLFLG 318 G LG Sbjct: 299 RGWSLG 304 >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 = 302 bits (773), Expect = 5e-80, Method: Composition-based stats. Identities = 115/295 (38%), Positives = 182/295 (61%), Gaps = 4/295 (1%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EN EPL G+ HTLGNALRRVL+SS+ GAA+ ++IDG+ HE S I+GV ED Sbjct: 14 AAENYGRFKIEPLDPGYGHTLGNALRRVLLSSIPGAAVIKIKIDGIFHEFSPIQGVREDA 73 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDA 141 T+I+LN+KGI L+ + ++ + K GPGVV A DI+ +++E++NPDH I LD DA Sbjct: 74 TEIVLNVKGIRLRSYAERPVKMILSKTGPGVVRASDIECPSNVEIVNPDHYIATLDSSDA 133 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + MELTV + GY+PA++ PIG I +DA+++P+ KV+Y VE R G + D+D+L Sbjct: 134 RLDMELTVERHRGYLPAENRDP--VPIGEIPVDAIFTPVHKVNYVVEHTRIGGMTDFDRL 191 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS-LPFNPALLKKV 260 + I TDG++ D+++ A+++L + +F E ++ + + + + Sbjct: 192 LLEIWTDGTVKPGDALSYAAQVLVQYSSIIADFNRFDDEQEQVGDANGLVIPSEIYDMPI 251 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 E+L+LS R+ NCL+ +I +G +++ E +L + N G+KS+ EI+ L L Sbjct: 252 EDLDLSTRTYNCLKRADITKVGQVLEMDEKQLLAVRNLGQKSMDEIREKLIERNL 306 >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 = 302 bits (773), Expect = 6e-80, Method: Composition-based stats. Identities = 121/325 (37%), Positives = 191/325 (58%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT++++D Sbjct: 5 NFQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGFAITSIRVDK 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQT-VND 124 V HE S I G+ ED+T+IILN+K + K + + V++ G +TAGD Q ++ Sbjct: 62 VEHEFSVISGIVEDVTEIILNLKQVRFKRQIEDVDSETVSVSVSGKNQLTAGDFQKFISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNPD VICN+D MEL + KG GYVPA+ ++ PIG I ID++++PIK V Sbjct: 122 FQVLNPDLVICNMDAKVNFNMELVIEKGRGYVPAEENKKSGAPIGTIAIDSIFTPIKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y++E+ R Q DY+KL I++DGSIT +D++ +++L +F I E + Sbjct: 182 YSIENFRVEQKTDYEKLVFEIESDGSITPKDALTEGAKVLIHHFMLFSDERITLEADEIA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+ Sbjct: 242 QTETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E++ ++ GL GM+L + Sbjct: 302 KSLTELEELVINKGLSFGMDLSKYK 326 >gi|179184786|gb|ACB78160.1| RNA polymerase alpha subunit [Vibrio gallaecicus] Length = 306 Score = 302 bits (773), Expect = 6e-80, Method: Composition-based stats. Identities = 137/306 (44%), Positives = 200/306 (65%), Gaps = 8/306 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + L Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +G Sbjct: 4 VGLEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEG 63 Query: 78 VHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 V ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ NP+HVIC+ Sbjct: 64 VQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICH 123 Query: 137 LDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D A + M + V +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Sbjct: 124 LTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARV 183 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + + F Sbjct: 184 EQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEF 240 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 241 DPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 300 Query: 313 MGLFLG 318 GL LG Sbjct: 301 RGLSLG 306 >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 = 301 bits (772), Expect = 7e-80, Method: Composition-based stats. Identities = 130/324 (40%), Positives = 201/324 (62%), Gaps = 10/324 (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 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEV 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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL EI+ ++ + L GMNL + Sbjct: 303 SLTEIQELVKSKSLSFGMNLSKFK 326 >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 = 301 bits (772), Expect = 7e-80, Method: Composition-based stats. Identities = 131/317 (41%), Positives = 203/317 (64%), Gaps = 4/317 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + +P IE+ N +AEP RGFA T+GN+LRR LMSS+ GAAI+A++I+ Sbjct: 8 KGFKRPKKIEFNT-EASTPNYGKFVAEPFERGFATTIGNSLRRTLMSSIEGAAISAIRIE 66 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS---HKRVTIFKRGPGVVTAGDIQTVN 123 GV HE S I+GV ED+T IILN+K + +K + K + + +G G AGD+ + Sbjct: 67 GVNHEFSFIEGVAEDVTRIILNLKQVRIKYEPEEKDQSKIIHLELKGAGYFRAGDLAVDS 126 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 IE++NPD I L+ DA + M+L + +G GYVPA+ + + + +G I +D+++SP++KV Sbjct: 127 SIEIMNPDLHIATLNEDANLVMDLEIQRGRGYVPAEEKKKDIEVLGTIPVDSIFSPVQKV 186 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + V R Q DY+KL++ + TDGS++ +D+VA A++IL++ L +FINFEE +E + Sbjct: 187 VFEVSETRVAQRSDYEKLTLEVWTDGSVSPDDAVAQAAKILKEHLTVFINFEEELEEEDD 246 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 +++ +L K VEELELSVRS N LR I ++GDL++R+E +M + ++ + L Sbjct: 247 ELDEADEKLKASLSKHVEELELSVRSLNVLRSLEIDFIGDLVKRSEEEMSKSKHYSDQCL 306 Query: 304 VEIKGVLGTMGLFLGMN 320 E+KG L T+GL GM Sbjct: 307 QELKGKLSTLGLSFGMR 323 >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 = 301 bits (772), Expect = 7e-80, Method: Composition-based stats. Identities = 114/295 (38%), Positives = 175/295 (59%), Gaps = 3/295 (1%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + N EPL G+ TLGNALRRVL+SSL GAA+T+++I+GV HE + GV ED Sbjct: 13 KTQGNYASYDIEPLEAGYGQTLGNALRRVLLSSLPGAAVTSIRIEGVQHEFQDVPGVLED 72 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VD 140 +TDI+LNIK + L+ + + + G VTA DI + +E++NP+ I +LD + Sbjct: 73 VTDIVLNIKKLRLRSFSEHPVTMRLEVNGEREVTAADIVAPSTVEIVNPELHIASLDNDN 132 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 A + MEL V G YVPA E+ PIG+I +DA+Y+P++KV+YTVE R GQ+ +YDK Sbjct: 133 AHLDMELVVETGRSYVPADS--KEDQPIGVIPVDAIYTPVQKVNYTVEHTRVGQMTNYDK 190 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 + + + TDG+IT ++++ ++ +L + N+ E ++ + Sbjct: 191 IVLEVTTDGTITPDEALRQSADVLVRHFTLLANYRASLPEPEKAPLSSLPIPQKIYDTPI 250 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 EEL+LSVR+ NCL+ NI +G ++ E D+L + NFG KSL E++ L Sbjct: 251 EELDLSVRAYNCLKRSNITKVGQVLSMNEEDLLGVRNFGEKSLQELRERLLARNF 305 >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 = 301 bits (772), Expect = 7e-80, Method: Composition-based stats. Identities = 127/325 (39%), Positives = 192/325 (59%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT+V+I+G Sbjct: 5 NFQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGYAITSVRIEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQT-VND 124 V HE S+I GV ED+T+IILN+K + K + ++ V+I G +TAGD Q ++ Sbjct: 62 VEHEFSTISGVVEDVTEIILNLKQVRFKRQIEDIDNESVSISLSGKDKITAGDFQKFISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNPD VICNLD + MEL++ KG GYVPA+ ++ N PIG I D++Y+P+K V Sbjct: 122 FQVLNPDLVICNLDSKTTLNMELSIEKGRGYVPAEENKKSNAPIGTIYTDSIYTPVKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 YT+E+ R Q DY+KL I TDGSI +D++ A++ L +F I E + Sbjct: 182 YTIENFRVEQKTDYEKLVFEIITDGSIHPKDALTEAAKTLIHHFMLFSDERITLEADEIA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+ Sbjct: 242 QTESYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E+ ++ L GM+L + Sbjct: 302 KSLTELDELVANKNLTFGMDLAKYK 326 >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 = 301 bits (772), Expect = 7e-80, Method: Composition-based stats. Identities = 122/311 (39%), Positives = 188/311 (60%), Gaps = 7/311 (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 LTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLD 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 LFLGMNLPDWP 325 L GM+L + Sbjct: 303 LNFGMDLSKYK 313 >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 = 301 bits (772), Expect = 7e-80, Method: Composition-based stats. Identities = 122/324 (37%), Positives = 195/324 (60%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + ++ PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMVEADDKFGKFEFRPLEPGFGVTIGNALRRILLSSLEGYAINTIRIGGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLSELDDLLESLNLSFGTDISKYK 326 >gi|328813937|gb|AEB52084.1| DNA-directed RNA polymerase alpha chain [Lactobacillus brevis] Length = 263 Score = 301 bits (772), Expect = 8e-80, Method: Composition-based stats. Identities = 117/263 (44%), Positives = 175/263 (66%), 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 TVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 T KG GYV A ++T + 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|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 = 301 bits (771), Expect = 9e-80, Method: Composition-based stats. Identities = 122/321 (38%), Positives = 192/321 (59%), Gaps = 6/321 (1%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P IE ++ IA+PL RG+ TLGN +RRVL++SL G AIT ++I+ V HE Sbjct: 8 PAKIELDE-SSHSDSFGKFIAQPLERGYGVTLGNLMRRVLLASLPGTAITGIKIENVYHE 66 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNP 130 S+I+GV ED+ +I+LN+K + + + T+ GP TAG IQ + EVLN Sbjct: 67 FSTIQGVREDVPEIVLNLKKVRFRSQCKRSCKTTVTLVGPMEFTAGVIQPQEGEFEVLNK 126 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I ++ V +++ + +G GYVPA+ +R E P+G I ID++++PI+ V +TVE+ Sbjct: 127 DLHIATINAGTTVTLDIFIGRGRGYVPAEENRAEGMPLGFIPIDSIFTPIRNVKFTVENT 186 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK----EDIN 246 R GQ DY+K+ + ++TDGSIT +DS++LA R++ D + +F +F ++E + + Sbjct: 187 RVGQRTDYEKMILEVETDGSITPDDSISLAGRVISDHVLLFADFSPAEEEYTEEEFKQQD 246 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L K+E+L+LSVRS NCLR I +G+L+ E ++L NFG+KSL E+ Sbjct: 247 DEFETMRRLLATKIEDLDLSVRSHNCLRLAEIDTLGELVSHKEDELLNYKNFGKKSLTEL 306 Query: 307 KGVLGTMGLFLGMNLPDWPPE 327 K L L GM++ + + Sbjct: 307 KEQLDKFDLKFGMDITRYQMK 327 >gi|328813965|gb|AEB52098.1| DNA-directed RNA polymerase alpha chain [Lactobacillus farraginis] Length = 270 Score = 301 bits (771), Expect = 9e-80, Method: Composition-based stats. Identities = 122/270 (45%), Positives = 178/270 (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 VRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 M LT ++G GYV A ++ 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|325479152|gb|EGC82249.1| DNA-directed RNA polymerase, alpha subunit [Anaerococcus prevotii ACS-065-V-Col13] Length = 318 Score = 301 bits (771), Expect = 9e-80, Method: Composition-based stats. Identities = 112/303 (36%), Positives = 195/303 (64%), Gaps = 5/303 (1%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EEEN PL RG+ T+GN++RRVL+SSL G++++ + I+GVLHE S+I GV ED+ Sbjct: 16 EEENYGKFALYPLERGYGTTIGNSMRRVLLSSLPGSSVSKILIEGVLHEFSTIDGVVEDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 +I+LNIKG+++ D + + GP +VTA DI+ + +++ NPDH I ++ + Sbjct: 76 PEIVLNIKGLDVTKHTDEDVTLFLDVEGPKIVTAKDIKADSLVDIANPDHYIATVNEKSR 135 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + + + V+ G GY +++++ E+DPIG I ID+ ++P++KV+YTVE+ R G+ DYDKL Sbjct: 136 LFIAMDVTDGKGYRISENNKDESDPIGTIAIDSSFTPVEKVNYTVENTRVGESTDYDKLI 195 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK-----KEVKEDINVKSLPFNPALL 257 + + T+G+I+ +++++L S IL + + +F N + K + ++E+ N + + L Sbjct: 196 LEVWTNGTISPQEALSLGSNILIEDVSLFNNLPDMKFPPEEEIIEEEENNEEEALSEDLS 255 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+LS+RS NCL+ + D+++ +E+++ + NFG+KSL E+ L +GL L Sbjct: 256 MTIEELDLSLRSFNCLKRAGFDKVADIVEVSESELKSIKNFGKKSLTEVMDKLDELGLSL 315 Query: 318 GMN 320 Sbjct: 316 KDE 318 >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 = 301 bits (771), Expect = 1e-79, Method: Composition-based stats. Identities = 111/312 (35%), Positives = 173/312 (55%), Gaps = 12/312 (3%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 +E ++ I EPL RG T+GNALRRVL+S+L G AIT+V+I GV HE Sbjct: 14 ECVESKT-DKDRSQYGKFIIEPLARGQGTTVGNALRRVLLSNLEGTAITSVRIAGVNHEF 72 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++IKGV ED+ +I+LN+K + LK + + + GP VTA +++EV++ Sbjct: 73 ATIKGVREDVLEILLNMKEVVLKSYSEQPQIGRLRVEGPATVTADRFDVPSEVEVIDRSQ 132 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L +++ ME + KG GY R + + + IDA++ P++KV+YT+E A Sbjct: 133 YIATLSPGSILEMEFRIEKGTGYKAVDRTRDDVATLDFLQIDAIFMPVRKVNYTIEDAHI 192 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP- 251 G L+ D+L M I T+GS T +D+++ A+ IL EP K++ ++ S Sbjct: 193 GSSLEQDRLIMDIWTNGSYTPQDALSNAAGILMSLF-------EPLKDITNMADIPSGET 245 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L Sbjct: 246 TDPTSQIPIEELQLSVRAYNCLKRAQINSVADLLDYSQEDLLEIKNFGQKSAEEVIEAL- 304 Query: 312 TMGLFLGMNLPD 323 LG+ LP Sbjct: 305 --QKRLGITLPQ 314 >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 = 301 bits (771), Expect = 1e-79, Method: Composition-based stats. Identities = 146/329 (44%), Positives = 212/329 (64%), 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 + F+P LL V+ELEL+VRS NCL+ E I Y+GDLIQ++E D+LR N GR Sbjct: 238 EALPTSED---FDPQLLAAVDELELTVRSANCLKAEQIYYIGDLIQKSEQDLLRTPNLGR 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 KSL EIK VL GL L ++ +WPP + Sbjct: 295 KSLNEIKEVLTEKGLNLATSIENWPPVDL 323 >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 = 301 bits (771), Expect = 1e-79, Method: Composition-based stats. Identities = 124/325 (38%), Positives = 193/325 (59%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT+V+I+G Sbjct: 5 NFQKPDKV---IMIDSTDFEGTFEFRPLEPGYGLTVGNALRRVLLSSLEGFAITSVRIEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VND 124 V HE S+I+GV ED+T++ILN+K I K + ++ V+I G +TAGD Q + Sbjct: 62 VDHEFSTIEGVVEDVTEMILNLKQIRFKKRAEDVDNETVSISFSGNDKMTAGDFQKYLTG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 ++LNPD IC +D + +ELTV KG GYVPA+ ++T PIG I D++++PIK V Sbjct: 122 FDILNPDLEICTMDKKVSLNLELTVQKGRGYVPAEENKTSKAPIGTIFTDSVFTPIKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y++E+ R Q DY+KL I +DGSI +D++ A++ L +F I E + Sbjct: 182 YSIENFRVEQKTDYEKLIFEIISDGSIHPKDALTEAAKTLIHHFMLFSDERITLETEEMS 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L K+ +L+LSVR+ NCL+ + +GDL+ ++D+++ NFG+ Sbjct: 242 QAETYDEESLHMRQLLKTKLVDLDLSVRALNCLKAAEVETLGDLVSHNKSDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E++ ++ GL GM+L + Sbjct: 302 KSLTELEELVENKGLDFGMDLSKYK 326 >gi|58415896|emb|CAH57362.1| RNA polymerase alpha-subunit [Vibrio ichthyoenteri ATCC 700023] Length = 297 Score = 301 bits (770), Expect = 1e-79, Method: Composition-based stats. Identities = 134/300 (44%), Positives = 198/300 (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++ + + + F+P LL+ Sbjct: 181 DKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLR 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|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 = 301 bits (770), Expect = 1e-79, Method: Composition-based stats. Identities = 122/325 (37%), Positives = 190/325 (58%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT+V+ID Sbjct: 5 NFQKPDKV---IMIDSSDFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGHAITSVRIDK 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQT-VND 124 V HE S I GV ED+T+IILN+K + K + + V+I G +TAGD Q ++ Sbjct: 62 VEHEFSVIPGVVEDVTEIILNLKQVRFKKQIEDSEAEVVSISVSGKDQLTAGDFQKFISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNPD VICN+D + ME+ + KG GYVPA+ ++ N +G I +D++++PIK V Sbjct: 122 YQVLNPDLVICNMDSKVSINMEIVIDKGRGYVPAEENKKSNAALGTIAVDSIFTPIKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y++E+ R Q DY+KL I TDGSI +D++ +++L +F I E + Sbjct: 182 YSIENFRVEQKTDYEKLVFEIVTDGSIHPKDALTEGAKVLIHHFMLFSDERITLEADEIA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+ Sbjct: 242 QTETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E++ ++ GL GM+L + Sbjct: 302 KSLTELEELVINKGLSFGMDLSKYK 326 >gi|58415736|emb|CAH57282.1| RNA polymerase alpha-subunit [Vibrio aerogenes] Length = 293 Score = 301 bits (770), Expect = 1e-79, Method: Composition-based stats. Identities = 135/296 (45%), Positives = 198/296 (66%), 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++ + + + F+P LL+ V++ Sbjct: 181 IDMETNGTIEPEEAIRRAATVLAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDD 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|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 = 301 bits (770), Expect = 1e-79, Method: Composition-based stats. Identities = 126/327 (38%), Positives = 196/327 (59%), Gaps = 10/327 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + E PL G+ T+GNALRRV++SSL G AIT+V+ID Sbjct: 5 NFQKPDKV---IMIESSEFEGKFEFRPLEPGYGLTIGNALRRVMLSSLEGYAITSVKIDS 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQT-VND 124 V HE S+I GV ED+T+IILN+K + K+ + H++ +I G +TAGD Q + Sbjct: 62 VEHEFSTITGVVEDVTEIILNLKQVRFKLQTEGTDHEKASISVTGKKQLTAGDFQKFITG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNPD VICN++ D ++M++T+ KG GYV A+ + N P+G I DA+++PIK V Sbjct: 122 FQVLNPDLVICNMEPDVAIKMDITIDKGMGYVFAEENTKPNMPMGTIPTDAIFTPIKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y++E+ R Q DY+KL I TDGSI +D++ A++ L +F I E + Sbjct: 182 YSIENYRVEQKTDYEKLIFEIKTDGSIHPKDALMEAAKTLIHHFMLFSDERITIEPEEVV 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ T+ D+++ NFG+ Sbjct: 242 QPESYDEESLHMRQLLKTKLIDMDLSVRALNCLKAAEVDTLGDLVSFTKTDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPE 327 KSL E+ ++ + GL GM+L + E Sbjct: 302 KSLTELDELVESKGLTFGMDLSRYKLE 328 >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 = 300 bits (769), Expect = 2e-79, Method: Composition-based stats. Identities = 123/343 (35%), Positives = 190/343 (55%), Gaps = 20/343 (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------------EEPKKEVKEDI 245 YD+L + + T+G +T +++VA AS IL+ N E+ E + Sbjct: 199 YDRLVLEVWTNGVVTPKEAVAKASAILEGYFRSLTNVLSSRPSQGGALPEDAISSEGEGV 258 Query: 246 NVKSLP--------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + P N L + V +LELSVRS NCL + +GDL+ R D+L++ N Sbjct: 259 PAEGDPAEEPVRFFENALLARPVRDLELSVRSENCLLRGGVHVIGDLVGRAREDLLKIRN 318 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 G+ SL EI+ L GL LG E+ ++L + E++ Sbjct: 319 LGKISLKEIEEKLEKFGLSLGGEPLSDLGETEDDLPETKEEET 361 >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 = 300 bits (769), Expect = 2e-79, Method: Composition-based stats. Identities = 111/312 (35%), Positives = 173/312 (55%), Gaps = 12/312 (3%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 +E ++ I EPL RG T+GNALRRVL+S+L G AIT+V+I GV HE Sbjct: 7 ECVESKT-DKDRSQYGKFIIEPLARGQGTTVGNALRRVLLSNLEGTAITSVRIAGVNHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++IKGV ED+ +I+LN+K + LK + + + GP VTA +++EV++ Sbjct: 66 ATIKGVREDVLEILLNMKEVVLKSYSEQPQIGRLRVEGPATVTADRFDVPSEVEVIDRSQ 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L +++ ME + KG GY R + + + IDA++ P++KV+YT+E A Sbjct: 126 YIATLSPGSILEMEFRIEKGTGYKAVDRTRDDVATLDFLQIDAIFMPVRKVNYTIEDAHI 185 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP- 251 G L+ D+L M I T+GS T +D+++ A+ IL EP K++ ++ S Sbjct: 186 GSSLEQDRLIMDIWTNGSYTPQDALSNAAGILMSLF-------EPLKDITNMADIPSGET 238 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L Sbjct: 239 TDPTSQIPIEELQLSVRAYNCLKRAQINSVADLLDYSQEDLLEIKNFGQKSAEEVIEAL- 297 Query: 312 TMGLFLGMNLPD 323 LG+ LP Sbjct: 298 --QKRLGITLPQ 307 >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 = 300 bits (769), Expect = 2e-79, Method: Composition-based stats. Identities = 122/311 (39%), Positives = 186/311 (59%), Gaps = 7/311 (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 LTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLD 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 LFLGMNLPDWP 325 L GM+L + Sbjct: 303 LNFGMDLSKYK 313 >gi|179184509|gb|ACB78150.1| RNA polymerase alpha subunit [Vibrio sp. RD 9.17] Length = 303 Score = 300 bits (769), Expect = 2e-79, Method: Composition-based stats. Identities = 136/304 (44%), Positives = 199/304 (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++ + + + F+P Sbjct: 183 RTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDP 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|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 = 300 bits (769), Expect = 2e-79, Method: Composition-based stats. Identities = 121/324 (37%), Positives = 197/324 (60%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP + ++ + + + PL G+ T+GNALRR+L+SSL G AIT+++I+G+ Sbjct: 6 FQKPEKV---IMLEADAFQGKFEFRPLEPGYGITIGNALRRILLSSLEGFAITSIKIEGI 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E++ L ++ L GM++ + Sbjct: 303 SLTELEEKLESLNLSFGMDIAKYK 326 >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 = 300 bits (768), Expect = 2e-79, Method: Composition-based stats. Identities = 122/323 (37%), Positives = 193/323 (59%), Gaps = 9/323 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 P+ + V+ + ++ +PL RG+ T+GNALRR+L+SSL G AIT+V+ GV Sbjct: 6 FQMPDKV---VMEKADDFHGFFEFKPLERGYGVTIGNALRRILLSSLEGYAITSVRFPGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK-MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIE 126 LHE S+I+GV +D+T+I+LN+K + K ++ ++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 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVK 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 LVEIKGVLGTMGLFLGMNLPDWP 325 L E++ ++ L GM++ + Sbjct: 303 LTELEQLIADKQLHFGMDVSKYK 325 >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 = 300 bits (768), Expect = 2e-79, Method: Composition-based stats. Identities = 121/324 (37%), Positives = 194/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + + PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMLEANDKFGKFEFRPLEPGFGVTIGNALRRILLSSLEGYAINTIRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKYK 326 >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 = 300 bits (768), Expect = 2e-79, Method: Composition-based stats. Identities = 129/324 (39%), Positives = 199/324 (61%), Gaps = 10/324 (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 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEV 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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL EI+ ++ + GL GMNL + Sbjct: 303 SLTEIQELVKSKGLSFGMNLSKYK 326 >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 = 300 bits (768), Expect = 2e-79, Method: Composition-based stats. Identities = 125/327 (38%), Positives = 196/327 (59%), Gaps = 10/327 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + E PL G+ T+GNALRRV++SSL G AIT+V+ID Sbjct: 5 NFQKPDKV---IMIESSEFEGKFEFRPLEPGYGLTIGNALRRVMLSSLEGYAITSVKIDT 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQT-VND 124 V HE S+I GV ED+T+IILN+K + K+ + H++ +I G +TAGD Q + Sbjct: 62 VEHEFSTIAGVVEDVTEIILNLKQVRFKLQTEGTDHEKASISVTGKKQLTAGDFQKFITG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNPD VICN++ + ++M++T+ KG GYV A+ + N P+G I DA+++PIK V Sbjct: 122 FQVLNPDLVICNMEPEVEIKMDITIDKGMGYVSAEENAKPNMPVGTIPTDAIFTPIKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y++E+ R Q DY+KL I TDGSI +D++ A++ L +F I E + Sbjct: 182 YSIENYRVEQKTDYEKLIFEIKTDGSIHPKDALMEAAKTLIHHFMLFSDERITIEPEEVV 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ T+ D+++ NFG+ Sbjct: 242 QPESYDEESLHMRQLLKTKLIDMDLSVRALNCLKAAEVDTLGDLVSFTKTDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPE 327 KSL E+ ++ + GL GM+L + E Sbjct: 302 KSLTELDELVESKGLTFGMDLSKYKLE 328 >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 = 300 bits (768), Expect = 2e-79, Method: Composition-based stats. Identities = 121/324 (37%), Positives = 198/324 (61%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL G+ T+GNALRR+L+SSL G AIT+++IDGV Sbjct: 6 FQKPDKV---LMLEADNFFGKFEFRPLEPGYGITIGNALRRILLSSLEGFAITSIKIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE +I GV ED+T+IILN+K + K + +++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 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEV 241 ++E+ R Q DY+KL + I TDGSI ++++ A++IL +F + 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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L GM++ + Sbjct: 303 SLTELDELLESLNLSFGMDITKYK 326 >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 = 300 bits (768), Expect = 2e-79, Method: Composition-based stats. Identities = 130/317 (41%), Positives = 202/317 (63%), Gaps = 4/317 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + +P IE+ N +AEP RGFA T+GN+LRR LMSS+ GAAI+A++I+ Sbjct: 8 KGFKRPKKIEFNT-EANTPNYGKFVAEPFERGFATTIGNSLRRTLMSSIEGAAISAIRIE 66 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS---HKRVTIFKRGPGVVTAGDIQTVN 123 GV HE S I+GV ED+T IILN+K + +K + K + + +G G AGD+ + Sbjct: 67 GVNHEFSFIEGVAEDVTRIILNLKQVRIKYEPEEKDQSKIIHLELKGAGYFRAGDLAVDS 126 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 IE++NPD I L+ DA + M+L + +G GYVPA+ + + + +G I +D+++SP++KV Sbjct: 127 SIEIMNPDLHIATLNEDANLVMDLEIQRGRGYVPAEEKKKDIEVLGTIPVDSIFSPVQKV 186 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + V R Q DY+KL++ + TDGS++ +D+VA A++IL++ L +FINFEE +E + Sbjct: 187 VFEVSETRVAQRSDYEKLTLEVWTDGSVSPDDAVAQAAKILKEHLTVFINFEEELEEEDD 246 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 +++ +L K VEELELSVRS N LR I ++GDL++R+E +M + ++ + L Sbjct: 247 ELDEADEKLKASLSKHVEELELSVRSLNVLRSLEIDFIGDLVKRSEEEMSKSKHYSDQCL 306 Query: 304 VEIKGVLGTMGLFLGMN 320 E+K L T+GL GM Sbjct: 307 QELKVKLSTLGLSFGMR 323 >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 = 299 bits (767), Expect = 3e-79, Method: Composition-based stats. Identities = 120/324 (37%), Positives = 194/324 (59%), Gaps = 10/324 (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 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G + + Sbjct: 303 SLSELDDLLESLNLSFGTDTSKYK 326 >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 = 299 bits (767), Expect = 3e-79, Method: Composition-based stats. Identities = 122/324 (37%), Positives = 198/324 (61%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL G+ T+GNALRR+L+SSL G AIT+++IDGV Sbjct: 6 FQKPDKV---LMLEADNFFGKFEFRPLEPGYGITIGNALRRILLSSLEGFAITSIKIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE +I GV ED+T+IILN+K + K + +++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 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEV 241 ++E+ R Q DY+KL + I TDGSI ++++ A++IL +F + 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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L GM++ + Sbjct: 303 SLTELDELLESLNLSFGMDITKYK 326 >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 = 299 bits (767), Expect = 3e-79, Method: Composition-based stats. Identities = 123/324 (37%), Positives = 192/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + + PL GF T+GNALRR+L+SSL G AI ++I V Sbjct: 6 FQKPDKV---VMLEANDKFGKFEFRPLEPGFGVTIGNALRRILLSSLEGYAINTMRIGSV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEV 241 TVE R Q DYDKL + +DTDGSI +D++ A++IL +F + 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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLSELDDLLESLNLTFGTDISKYK 326 >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 = 299 bits (766), Expect = 3e-79, Method: Composition-based stats. Identities = 116/319 (36%), Positives = 194/319 (60%), 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 + +N +E + Sbjct: 171 KKVSYTVEKTRVGRRTDLDRLILEIWTNGSISPEEAFREASRILMEYF-RLLNEKEFQLP 229 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +E + +E+L LS R+ N LR I + DL+ +T +++++ NFG+ Sbjct: 230 YEEVKPENTYLEEEKKGLTLEDLGLSTRAYNSLRHAGIHTIEDLLSKTREELMKIKNFGQ 289 Query: 301 KSLVEIKGVLGTMGLFLGM 319 KSL E++ L GL L Sbjct: 290 KSLQELEEKLREKGLSLKD 308 >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 = 299 bits (766), Expect = 4e-79, Method: Composition-based stats. Identities = 122/325 (37%), Positives = 190/325 (58%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + + PL G+ T+GNALRRV++SSL G AIT+V+ D Sbjct: 5 NFQKPDKV---IMIESSDFEGRFEFRPLEPGYGLTIGNALRRVMLSSLEGFAITSVKFDK 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQ-TVND 124 V HE S+I GV ED+T+IILN+K I K + ++ TI G +TAGD Q ++ Sbjct: 62 VGHEFSTISGVREDVTEIILNLKQIRFKRQIEDIENETATITVSGKRQLTAGDFQKALSG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLN D VICN+D A +E+T+ KG GYV A+ + N PIG+I DA+++PIK V Sbjct: 122 FQVLNTDLVICNMDSSASFTIEITIEKGRGYVSAEENAKPNAPIGVIATDAIFTPIKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y++E+ R Q DY+KL I TDGSI + ++ A++ L +F I E + Sbjct: 182 YSIENYRVEQKTDYEKLVFEIKTDGSIHPKQALTEAAKTLIHHFMLFSDERITLEADEIA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + +SL L K+ +++LSVR+ NCL+ + +GDL+ +AD+++ NFG+ Sbjct: 242 QTDTYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVETLGDLVSFNKADLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL+E++ ++ GL GM+ + Sbjct: 302 KSLIELEELVVNKGLVFGMDTSKYK 326 >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 = 299 bits (766), Expect = 4e-79, Method: Composition-based stats. Identities = 136/317 (42%), Positives = 203/317 (64%), Gaps = 4/317 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + +P IE+ N +AEP RG T+GN+LRR LMSS+ GAAI+A++I+ Sbjct: 8 KGFKRPKKIEFTT-DVNTPNYGKFVAEPFERGIGTTIGNSLRRTLMSSIEGAAISAIRIE 66 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS---HKRVTIFKRGPGVVTAGDIQTVN 123 GV HE S I+GV ED+T IILN+K + +K + K + + +G G A D+ + Sbjct: 67 GVSHEFSYIEGVAEDVTRIILNLKQVRIKYEPEDKEASKVIHLELKGAGYFRAADLAVDS 126 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 IE++NPD I L+ DA + M+L + +G GYVPA+ + + + +G I ID+++SPI+KV Sbjct: 127 SIEIMNPDLHIATLNEDANLIMDLEIQRGRGYVPAEDKKKDIEVLGTIPIDSIFSPIQKV 186 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + V R Q DY+KL+M + TDGS++ ED+VA A++IL+D L +FINFEE +E +E Sbjct: 187 LFEVSETRVAQRSDYEKLTMEVWTDGSVSPEDAVAQAAKILKDHLTVFINFEEEIEEEEE 246 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 +++ AL K VEELELSVRSTN LR I ++G+L++R+E +M + +F +SL Sbjct: 247 ELDEADEKLKAALSKHVEELELSVRSTNVLRSLEIDFIGELVKRSEDEMTKSKHFSEQSL 306 Query: 304 VEIKGVLGTMGLFLGMN 320 +E+K L +MGL GM Sbjct: 307 LELKAKLSSMGLSFGMR 323 >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 = 299 bits (766), Expect = 4e-79, Method: Composition-based stats. Identities = 120/325 (36%), Positives = 190/325 (58%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + PL G+ T+GNALRRVL+S+L G AIT+V++D Sbjct: 5 NFQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSALEGFAITSVRMDK 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQT-VND 124 V HE S I GV ED+T++ILN+K + K + + V+I G +TAGD Q ++ Sbjct: 62 VEHEFSVIPGVVEDVTEMILNLKQVRFKRQIEDVEAETVSISVSGKNQLTAGDFQKFISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNPD VICN+D + ME+ + KG GYVPA+ ++ IG I ID++++PIK V Sbjct: 122 YQVLNPDLVICNMDAKVSINMEIVIEKGRGYVPAEENKKPGAAIGTIPIDSIFTPIKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y++E+ R Q DY+KL I +DGSI +D++ A+++L +F I E + Sbjct: 182 YSIENYRVEQKTDYEKLVFEISSDGSINPKDALTEAAKVLIHHFMLFSDERITLEADEIA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+ Sbjct: 242 QTETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E++ ++ GL GM+L + Sbjct: 302 KSLTELEELVINKGLSFGMDLSKYK 326 >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 = 299 bits (766), Expect = 4e-79, Method: Composition-based stats. Identities = 122/325 (37%), Positives = 189/325 (58%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + + PL G+ T+GNALRRV++SSL G AIT+V+ D Sbjct: 5 NFQKPDKV---IMIESSDFEGRFEFRPLEPGYGLTIGNALRRVMLSSLEGFAITSVKFDK 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQ-TVND 124 V HE S+I GV ED+T+IILN+K I K + ++ TI G +TAGD Q ++ Sbjct: 62 VGHEFSTISGVREDVTEIILNLKQIRFKRQIEDIENETATITVSGKRQLTAGDFQKALSG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLN D VICN+D A +E+T+ KG GYV A+ + N PIG+I DA+++PIK V Sbjct: 122 FQVLNTDLVICNMDSSASFTIEVTIEKGRGYVSAEENAKPNAPIGVIATDAIFTPIKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y++E+ R Q DY+KL I TDGSI + ++ A++ L +F I E + Sbjct: 182 YSIENYRVEQKTDYEKLVFEIKTDGSIHPKQALTEAAKTLIHHFMLFSDERITLEADEIA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + +SL L K+ +++LSVR+ NCL+ + +GDL+ +AD+++ NFG+ Sbjct: 242 QTDTYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVETLGDLVSFNKADLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL+E+ ++ GL GM+ + Sbjct: 302 KSLIELDELVVNKGLVFGMDTSKYK 326 >gi|5163231|gb|AAD40610.1|AF115283_29 RNA polymerase alpha-subunit [Leptospira interrogans] Length = 325 Score = 299 bits (766), Expect = 4e-79, Method: Composition-based stats. Identities = 129/317 (40%), Positives = 201/317 (63%), Gaps = 4/317 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + +P IE+ N +AEP RGFA T+GN+LRR LMSS+ GAAI+A++I+ Sbjct: 8 KGFKRPKKIEFNT-EANTPNYGKFVAEPFERGFATTIGNSLRRTLMSSIEGAAISAIRIE 66 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS---HKRVTIFKRGPGVVTAGDIQTVN 123 GV HE S I+GV ED+T IILN+K + +K + K + + +G G AGD+ + Sbjct: 67 GVNHEFSFIEGVAEDVTRIILNLKQVRIKYEPEEKDQSKIIHLELKGAGYFRAGDLAVDS 126 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 IE++NPD I L+ DA + M+L + +G GYVPA+ + + + +G I +D+++SP++KV Sbjct: 127 SIEIMNPDLHIATLNEDANLVMDLEIQRGRGYVPAEEKKKDIEVLGTIPVDSIFSPVQKV 186 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + V R Q DY+KL++ + TDGS++ +D+VA A++IL++ L +FINFEE +E + Sbjct: 187 VFEVSETRVAQRSDYEKLTLEVWTDGSVSPDDAVAQAAKILKEHLTVFINFEEELEEEDD 246 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 +++ +L K VEELELS RS N LR I ++GDL++R+E +M + ++ + L Sbjct: 247 ELDEADEKLKASLSKHVEELELSARSLNVLRSLEIDFIGDLVKRSEEEMSKSKHYSDQCL 306 Query: 304 VEIKGVLGTMGLFLGMN 320 E+K L T+GL GM Sbjct: 307 QELKVKLSTLGLSFGMR 323 >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 = 299 bits (766), Expect = 4e-79, Method: Composition-based stats. Identities = 127/324 (39%), Positives = 198/324 (61%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT+V+ GV Sbjct: 6 FQKPDKV---IMQKSTDFDGTFEFRPLEPGFGVTIGNALRRILLSSLEGYAITSVRFSGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVND-I 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 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEV 241 T+E+ R Q DY+KL + I TDGSI ED++ A++IL +F + 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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL EI+ ++ + GL GMNL + Sbjct: 303 SLTEIQELVKSKGLSFGMNLSKYK 326 >gi|328813943|gb|AEB52087.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 250 Score = 299 bits (765), Expect = 5e-79, 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|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 = 299 bits (765), Expect = 5e-79, Method: Composition-based stats. Identities = 122/325 (37%), Positives = 193/325 (59%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + PL G+ T+GNALRRV++S+L G AIT+V++D Sbjct: 5 NFQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVMLSALEGFAITSVRMDK 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQT-VND 124 V HE S I GV ED+T+IILN+K + K + ++ ++I G +TAGD Q ++ Sbjct: 62 VAHEFSVIPGVVEDVTEIILNLKQVRFKRQIEDVDNETISIALSGKQQLTAGDFQKFISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNPD VICN+D + MELT+ KG GYVPA+ ++ PIG I ID++++PIK V Sbjct: 122 FQVLNPDLVICNMDAKVNINMELTIEKGRGYVPAEENKKSGAPIGTIAIDSIFTPIKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y++E+ R Q DY+KL I +DGSI +D++ A+++L +F I E + Sbjct: 182 YSIENFRVEQKTDYEKLVFEIVSDGSIHPKDALTEAAKVLIHHFMLFSDERITLEADEIA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+ Sbjct: 242 QTETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E++ ++ GL GM+L + Sbjct: 302 KSLTELEELVINKGLSFGMDLSKYK 326 >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 = 298 bits (764), Expect = 6e-79, Method: Composition-based stats. Identities = 123/322 (38%), Positives = 196/322 (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 LHEISSIKGVHEDLTDIILNIKGINLK-MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIE 126 LHE SSI+GV ED+T+IILN+K + K ++ ++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 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVK 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|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 = 298 bits (764), Expect = 6e-79, Method: Composition-based stats. Identities = 121/321 (37%), Positives = 193/321 (60%), Gaps = 7/321 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L++P +E ++ N +PL RGF HTLGNA+RR+L+SSLRG+A+ A +IDGV Sbjct: 9 LVRPQLVEA-TKREDSPNLAEFRLQPLERGFGHTLGNAMRRLLLSSLRGSAVWAFRIDGV 67 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV-TIFKRGPGVVTAGDIQTVNDIEV 127 +HE +I GV ED+ II N+K + L + + + V I K GPG VTA DI + + Sbjct: 68 VHEHQTIGGVVEDVHQIIGNLKTLTLALPDEVEQTVLRISKSGPGTVTAADIIATGGVRI 127 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSPIKKVSYT 186 ++P H I + + +EL V+KG GY+ + H + N + ++ IDA+YSP+++V++T Sbjct: 128 IDPSHHIFTITGERDFNIELYVNKGRGYIESDQHPADKNLSVDVVRIDAIYSPVRRVNFT 187 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF----EEPKKEVK 242 V R GQ DYD+L++T++T+G+++ E++V+ A+ + Q F+ F Sbjct: 188 VAETRVGQRTDYDRLTLTVETNGTMSPEEAVSYAAALAQTHFQYFVGFGSSASAQPGTAG 247 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + N ++ +++LELSVRS N L+ NI +GDL+++TEA +L++ NFG+KS Sbjct: 248 DGANSDAIRLAELFRTPIDDLELSVRSVNSLKNSNIRSLGDLVRQTEAQILQVKNFGKKS 307 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 L EI +L GL GM + Sbjct: 308 LQEIAALLEKEGLNFGMRYEE 328 >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 = 298 bits (764), Expect = 6e-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|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 = 298 bits (763), Expect = 8e-79, Method: Composition-based stats. Identities = 120/325 (36%), Positives = 192/325 (59%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ E PL G+ T+GNALRRVL+SSL G AIT+V+++ Sbjct: 5 NFQKPDKV---IMIDSSEFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGFAITSVKLEN 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQT-VND 124 V HE S+I GV ED+T+IILN+K + K + ++VT+ G + A D+Q ++ Sbjct: 62 VEHEFSTIPGVVEDVTEIILNLKQVRFKRQIEDTEEEKVTVIIGGQEQLKAADLQKFISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNPD VIC+L+ + ME+ + KG GYVPA+ ++ N +G+I ID++++PIK V Sbjct: 122 FQVLNPDLVICHLEKSVQLNMEIAIEKGRGYVPAEENKKANAELGVIAIDSIFTPIKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y++E+ R Q DY+KL I TDGSI +D++ A++ L +F I E + Sbjct: 182 YSIENFRVEQKTDYEKLVFEIITDGSIHPKDALTEAAKTLIHHFLLFSDERITLEADEIA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+ Sbjct: 242 QTETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSYNKNDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E++ ++ GL GM+L + Sbjct: 302 KSLTELEELVVLKGLSFGMDLAKYK 326 >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 = 298 bits (763), Expect = 8e-79, Method: Composition-based stats. Identities = 131/331 (39%), Positives = 195/331 (58%), Gaps = 13/331 (3%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M +KN + KP I + E N IA P RGF T+GN LRRVL+SS++G A Sbjct: 1 MARKNLLKGFKKPKGITFE-HSAVEPNYGKFIAYPFERGFGTTIGNTLRRVLLSSIQGYA 59 Query: 60 ITAVQI-----DGVLHEISS----IKGVHEDLTDIILNIKGINLKMSGDSHKR-VTIFKR 109 +TAV+ DGV H ISS + 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 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 ++ + NFG+KSL EIK L L LGM Sbjct: 299 EEIAKTRNFGKKSLQEIKEKLKEWNLSLGMT 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 = 298 bits (763), Expect = 8e-79, Method: Composition-based stats. Identities = 131/314 (41%), Positives = 201/314 (64%), Gaps = 11/314 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 VRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVL 310 N G+ L+ +K L Sbjct: 295 NLGKNLLLRLKTYL 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 = 298 bits (763), Expect = 9e-79, Method: Composition-based stats. Identities = 119/324 (36%), Positives = 191/324 (58%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + + PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMLEANDKFGKFEFRPLEPGFGVTIGNALRRILLSSLEGYAINTIKIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L + L G ++ + Sbjct: 303 SLSELDDLLEGLNLSFGTDISKYK 326 >gi|328814019|gb|AEB52125.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 263 Score = 298 bits (762), Expect = 1e-78, Method: Composition-based stats. Identities = 122/266 (45%), Positives = 172/266 (64%), Gaps = 4/266 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KP I EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLH Sbjct: 2 KPR----IAKIDEEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLH 57 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S+IKGV ED+T IILNIKG+ LKM G K + I GP VTAGDI +D+E+LN Sbjct: 58 EFSTIKGVREDVTQIILNIKGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNK 117 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D IC++ A LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ Sbjct: 118 DMYICSVSEGATFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENT 177 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R G D+DKL+M I TDGSI ++++L+++I+ + L +F+N + K + + + Sbjct: 178 RVGHREDFDKLTMEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEET 237 Query: 251 PFNPALLKKVEELELSVRSTNCLRGE 276 L +EEL+LSVRS NCL+ Sbjct: 238 QKEKMLEMTIEELDLSVRSYNCLKRA 263 >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 = 298 bits (762), Expect = 1e-78, Method: Composition-based stats. Identities = 124/326 (38%), Positives = 195/326 (59%), Gaps = 12/326 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + ++ PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMLEANDHFGKFEFRPLEPGFGVTIGNALRRILLSSLEGFAINTIRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 RKSLVEIKGVLGTMGLFLGMNLPDWP 325 +KSL E+ +L ++ L G ++ + Sbjct: 303 KKSLSELDDLLESLNLSFGTDITKYK 328 >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 = 298 bits (762), Expect = 1e-78, Method: Composition-based stats. Identities = 111/300 (37%), Positives = 185/300 (61%), Gaps = 1/300 (0%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 +++ + + + EPL RG+ T+GN+LRR+L+SS+ GAA+ +V+I+GV HE+ + G Sbjct: 8 VIIEKRSDEYGRFVIEPLERGYGWTIGNSLRRILLSSIEGAAVVSVKIEGVRHELEVLPG 67 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 + E++ +I++N+K + +K+ ++ + + RGP VVTAGD ++++LNPD VI L Sbjct: 68 LKEEILEILMNLKKLVVKIEDNNSHILELDVRGPKVVTAGDFIVPANVKILNPDLVIATL 127 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D ME+ V KG GYV A+ ++ ++ PIG++ +D+++SP+KKVSYTVE R G+ D Sbjct: 128 VDDIPFHMEVEVRKGKGYVSAEENKDQSYPIGVLVLDSIFSPVKKVSYTVEKTRVGRRTD 187 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 D+L + I T+ S+T E++ ASRIL + + E + + SL L Sbjct: 188 LDRLIIEIWTNKSVTPEEAFREASRILMEYFKLLSEREFQLPHEEVGQEITSLEEEKKGL 247 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+L LS R+ N LR I + DL+ ++ D++++ NFG+KSL E++ L GL L Sbjct: 248 -TLEDLGLSTRAYNSLRHAGIHTIEDLLSKSREDLMKIKNFGQKSLQELEEKLREKGLSL 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 = 298 bits (762), Expect = 1e-78, Method: Composition-based stats. Identities = 134/308 (43%), Positives = 200/308 (64%), Gaps = 11/308 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -KEEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLG 311 EIK VL Sbjct: 295 TEIKDVLA 302 >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 = 298 bits (762), Expect = 1e-78, Method: Composition-based stats. Identities = 105/309 (33%), Positives = 171/309 (55%), Gaps = 8/309 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 +E + + + + EPL RG T+GNALRRVL+++L G A+TA++I GV HE Sbjct: 7 ECVESKTQKNQSQ-YSKFVLEPLERGQGITVGNALRRVLLANLEGTAVTAIRIGGVNHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ +IILN+K I LK D + + G VTA +++E++NP Sbjct: 66 ATIPGVREDVLEIILNMKEIVLKSHTDQIQIGRLVAVGAAHVTAAQFDLPSEVEIINPTQ 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L A + ME + KG GYVP + + + + + IDA++ P+ KV+Y+VE+ R Sbjct: 126 PIATLTDGAKLEMEFRIEKGMGYVPVERGKEKQGALDFLQIDAVFMPVTKVNYSVENIRG 185 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 + D L + I T+GS+ +++++ A+ +L + N + + V E + + Sbjct: 186 ERNEVKDSLMLEIWTNGSVNPKEALSQATEVLVNLFSPLKNINQIETVVPEYPDEE---- 241 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 NP +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L Sbjct: 242 NPQSQIPIEELQLSVRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEEVIEAL-- 299 Query: 313 MGLFLGMNL 321 LG+ L Sbjct: 300 -QKRLGITL 307 >gi|328814005|gb|AEB52118.1| DNA-directed RNA polymerase alpha chain [Lactobacillus rhamnosus] Length = 250 Score = 298 bits (762), Expect = 1e-78, 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|332181991|gb|AEE17679.1| DNA-directed RNA polymerase subunit alpha [Treponema brennaborense DSM 12168] Length = 350 Score = 297 bits (761), Expect = 1e-78, Method: Composition-based stats. Identities = 128/349 (36%), Positives = 198/349 (56%), Gaps = 13/349 (3%) 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-----DGVLHEIS----SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK-R 109 IT+V+I D V H IS +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 GPGTITSNDFSRE-GLEILSKDMLVFTMMENAHLEFEVQVDLGRGYTPAEVNEHYIEIVG 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 +++ KK E Sbjct: 299 DDIAKTRNFGKKSLTEIKEKLLEWNLNLGMTDYSHLKDAVNLSKKKEES 347 >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 = 297 bits (761), Expect = 1e-78, Method: Composition-based stats. Identities = 122/325 (37%), Positives = 188/325 (57%), Gaps = 10/325 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT+++I+G Sbjct: 5 NFQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGFAITSIRIEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGV--VTAGDIQT-VND 124 V HE S+I+GV ED+T+IILN K I + D + G TAGD+Q ++ Sbjct: 62 VDHEFSTIEGVVEDVTEIILNFKQIRFRRQIDEVDSEVVNVSFSGKDTFTAGDMQKYISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNP+ VICN + + +ELT+ KG GYVPA+ ++ N IG I ID++++PIK V Sbjct: 122 FQVLNPEMVICNTESSVSLNLELTIEKGRGYVPAEENKNPNAAIGTIAIDSIFTPIKNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y++E+ R Q DY+KL I TDGSI + ++ A++ L +F I E + Sbjct: 182 YSIENYRVEQKTDYEKLVFEISTDGSIHPKQALTEAAKTLIHHFMLFSDERITLEADEIA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E + +SL L K+ ++ELSVR+ NCL+ + +GDL+ + D+++ NFG+ Sbjct: 242 QTETYDEESLHMRQLLKTKLVDMELSVRALNCLKAAEVETLGDLVSYNKNDLMKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL E++ ++ GL GM+L + Sbjct: 302 KSLTELEELVNVKGLNFGMDLSKYK 326 >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 = 297 bits (761), Expect = 1e-78, 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|179184696|gb|ACB78157.1| RNA polymerase alpha subunit [Vibrio inusitatus] Length = 294 Score = 297 bits (761), Expect = 1e-78, 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-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVV 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 LVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVQEPIE---EKPEFDPILLRPV 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|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 = 297 bits (761), Expect = 1e-78, Method: Composition-based stats. Identities = 124/326 (38%), Positives = 195/326 (59%), Gaps = 12/326 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + ++ PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMLEANDHFGKFEFRPLEPGFGVTIGNALRRILLSSLEGFAINTIRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 RKSLVEIKGVLGTMGLFLGMNLPDWP 325 +KSL E+ +L ++ L G ++ + Sbjct: 303 KKSLSELDDLLESLNLSFGTDITKYK 328 >gi|328813961|gb|AEB52096.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 248 Score = 297 bits (761), Expect = 1e-78, 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|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 = 297 bits (761), Expect = 1e-78, Method: Composition-based stats. Identities = 115/337 (34%), Positives = 183/337 (54%), Gaps = 12/337 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 LI P + L EN PL RG +LGNALRRVL+SS+ GAA+T ++I G Sbjct: 7 SLITPR----VTLLAAAENYGRFAIAPLQRGHGTSLGNALRRVLLSSIPGAAVTRIKITG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE ++I GV ED T ++LN+KGI L+ D + + K+GPG V AGDI + +E+ Sbjct: 63 VIHEFTAIPGVVEDGTQLVLNVKGIRLRSYSDRAVALQLVKQGPGPVFAGDIDAPSTVEI 122 Query: 128 LNPDHVICNLDVDA-VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +NP H +C +D + + M+LTV +G G A PIG I +DAL+SPI +V++ Sbjct: 123 VNPQHYLCTIDDEHTTLEMQLTVERGRGVQLADT--VSGMPIGEIAVDALFSPIPRVNFL 180 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE + YD+L + I TDG+I D+++ A++IL ++ +P +E ++ Sbjct: 181 VEEIGGDPLTGYDRLIIEIWTDGTIKPGDALSHAAQILTQYFSRIVSLNQP-EESEQQPT 239 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + + + ++EL LS R+ N LR +I +G L++ + ++ + N G K + EI Sbjct: 240 LPPPIPDEIANRTIDELGLSTRTYNSLRRADIQTIGQLLRLDDRGLMSIRNLGAKGIEEI 299 Query: 307 KGVLGTMGLFLGMN----LPDWPPESIEELAKKYEDK 339 L +G G LPD +++ Y ++ Sbjct: 300 HQRLAALGYRSGETTSGHLPDTTNQNVPSTHDSYPEE 336 >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 = 297 bits (760), Expect = 2e-78, Method: Composition-based stats. Identities = 120/324 (37%), Positives = 199/324 (61%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL G+ T+GNALRR+L+SSL G AIT+++I+GV Sbjct: 6 FQKPDKV---LMLEADNFFGKFEFRPLEPGYGITIGNALRRILLSSLEGFAITSIKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE +I GV ED+T+IILN+K + K + +++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 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEV 241 ++E+ R Q DY+KL + I TDGSI ++++ A++IL +F + 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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L GM++ + Sbjct: 303 SLTELDELLESLNLSFGMDITKYK 326 >gi|328813957|gb|AEB52094.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 255 Score = 297 bits (760), Expect = 2e-78, 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|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 = 297 bits (760), Expect = 2e-78, Method: Composition-based stats. Identities = 119/324 (36%), Positives = 194/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AI ++I+GV Sbjct: 6 FQKPDKV---LMLEADSKFGKFEFRPLEPGFGITVGNALRRILLSSLEGYAINTIRIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKYK 326 >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 = 297 bits (760), Expect = 2e-78, Method: Composition-based stats. Identities = 121/324 (37%), Positives = 193/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + ++ PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---IMLENDDKFGKFEFRPLESGFGVTIGNALRRILLSSLEGFAINTIKIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L + L G ++ + Sbjct: 303 SLTELDDLLAGLNLQFGTDISKYK 326 >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 = 297 bits (760), Expect = 2e-78, Method: Composition-based stats. Identities = 121/326 (37%), Positives = 192/326 (58%), Gaps = 12/326 (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 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEV 241 VE R Q DYDKL + + TDGSI +D++ A++IL +F + 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 RKSLVEIKGVLGTMGLFLGMNLPDWP 325 +KSL E+ +L ++ L G ++ + Sbjct: 303 KKSLSELDDLLESLNLTFGTDITKYK 328 >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 = 297 bits (760), Expect = 2e-78, Method: Composition-based stats. Identities = 124/326 (38%), Positives = 195/326 (59%), Gaps = 12/326 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + ++ PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMLETNDHFGKFEFRPLEPGFGVTIGNALRRILLSSLEGFAINTIRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 RKSLVEIKGVLGTMGLFLGMNLPDWP 325 +KSL E+ +L ++ L G ++ + Sbjct: 303 KKSLSELDDLLESLNLSFGTDITKYK 328 >gi|317016847|gb|ADU85964.1| DNA-directed RNA polymerase alpha chain [Lactobacillus sp. 3.1.1] Length = 249 Score = 297 bits (760), Expect = 2e-78, Method: Composition-based stats. Identities = 116/249 (46%), Positives = 169/249 (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 SKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + G GYV A+ ++ ++ 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|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 = 297 bits (760), Expect = 2e-78, Method: Composition-based stats. Identities = 120/316 (37%), Positives = 193/316 (61%), Gaps = 6/316 (1%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 E +V+ + ++ L +PL +G+ T+GNALRR+L+SSL G AIT +++ GVLHE S+I Sbjct: 10 EKVVMEKADDFHGLFEFKPLEKGYGVTIGNALRRILLSSLEGYAITGIKVPGVLHEFSTI 69 Query: 76 KGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHV 133 GV ED+T+IILN+K + K D + ++ + + AGDI + + ++LNP+ + Sbjct: 70 PGVREDVTEIILNLKQVRFKKISDVNENKIVVSIKKQASFKAGDIAKFTSAYQILNPELL 129 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 ICN+D ++ +ELT+ KG GY+PA+ ++ G I IDA+++PIK V Y+VE+ R Sbjct: 130 ICNVDSNSNFDIELTLEKGRGYLPAEENKPAEQIFGYIPIDAIFTPIKNVKYSVENTRVE 189 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKS 249 Q DY+KL + I TDGSI ED++ A+ IL +F + FE K E +E ++ + Sbjct: 190 QRTDYEKLILEILTDGSIHPEDALKGAANILIKHFMLFSDQTMTFEAVKAEEEETVDEEF 249 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L L + +L+LSVR+ NCL+ +I +G+L +DM++ NFG+KSL E++ + Sbjct: 250 LHMRKLLKTSLADLDLSVRAYNCLKAADIKTLGELATLDISDMMKFRNFGKKSLNELEQL 309 Query: 310 LGTMGLFLGMNLPDWP 325 + L GM+ + Sbjct: 310 IIDKNLSFGMDTAKYK 325 >gi|208659518|gb|ACI31189.1| RpoA [Vibrio breoganii] Length = 302 Score = 296 bits (759), Expect = 3e-78, Method: Composition-based stats. Identities = 132/308 (42%), Positives = 199/308 (64%), Gaps = 11/308 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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++ + + Sbjct: 178 AYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GD +QRTE ++L+ N G+KSL Sbjct: 236 -KEEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDXVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLG 311 EIK VL Sbjct: 295 TEIKDVLA 302 >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 = 296 bits (759), Expect = 3e-78, Method: Composition-based stats. Identities = 121/324 (37%), Positives = 195/324 (60%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT ++IDGV Sbjct: 6 FQKPDKV---LMLEADSRFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIRIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKYK 326 >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 = 296 bits (759), Expect = 3e-78, Method: Composition-based stats. Identities = 122/324 (37%), Positives = 194/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + ++ PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---LMLEADDKYGKFEFRPLEPGFGITVGNALRRILLSSLEGYAINTMRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKYK 326 >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 = 296 bits (759), Expect = 3e-78, Method: Composition-based stats. Identities = 121/311 (38%), Positives = 187/311 (60%), Gaps = 7/311 (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 LTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLD 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 LFLGMNLPDWP 325 L GM+L + Sbjct: 303 LNFGMDLSKYK 313 >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 = 296 bits (758), Expect = 3e-78, Method: Composition-based stats. Identities = 123/333 (36%), Positives = 187/333 (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 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF-INFEEPKKEVK------------ 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|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 = 296 bits (758), Expect = 3e-78, Method: Composition-based stats. Identities = 121/324 (37%), Positives = 194/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT ++IDGV Sbjct: 6 FQKPDKV---LMLEADSRFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIRIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKYK 326 >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 = 296 bits (758), Expect = 4e-78, Method: Composition-based stats. Identities = 119/324 (36%), Positives = 192/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AI + IDGV Sbjct: 6 FQKPDKV---LMLEADSKFGKFEFRPLEPGFGITVGNALRRILLSSLEGYAINTIHIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKYK 326 >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 = 296 bits (758), Expect = 4e-78, Method: Composition-based stats. Identities = 121/324 (37%), Positives = 193/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT ++IDGV Sbjct: 6 FQKPDKV---LMLEADSRFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIKIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKYK 326 >gi|311990454|gb|ADQ26357.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 260 Score = 296 bits (757), Expect = 4e-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|328813971|gb|AEB52101.1| DNA-directed RNA polymerase alpha chain [Lactobacillus fermentum] Length = 257 Score = 296 bits (757), Expect = 4e-78, Method: Composition-based stats. Identities = 114/257 (44%), Positives = 172/257 (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 SKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GY A ++T 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|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 = 296 bits (757), Expect = 4e-78, Method: Composition-based stats. Identities = 118/324 (36%), Positives = 193/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AI + I+GV Sbjct: 6 FQKPDKV---LMLEADSKFGKFEFRPLEPGFGITVGNALRRILLSSLEGYAINTIHIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKYK 326 >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 = 296 bits (757), Expect = 5e-78, Method: Composition-based stats. Identities = 119/324 (36%), Positives = 193/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT ++IDGV Sbjct: 6 FQKPDKV---LMLEADSRFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIKIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKYK 326 >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 = 295 bits (756), Expect = 5e-78, Method: Composition-based stats. Identities = 102/314 (32%), Positives = 173/314 (55%), Gaps = 9/314 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 N +E I+ + + + + EPL R T+GNALRRVL+S+L G A+T+V+I G HE Sbjct: 7 NCVESIIEDDQSQF-SRFVIEPLGRSQGTTVGNALRRVLLSNLEGTAVTSVRIAGASHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 S+I GV ED+ DI+LN+K LK + + +GP VTA + +++E+++ D Sbjct: 66 STIPGVREDVLDILLNMKETVLKSYSAQPQIGRLVVQGPAKVTAANFDLPSEVELISTDR 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I ++ + ME + +G GY R E + + IDA++ P++KV+Y+VE+ + Sbjct: 126 YIASVAAGHKLEMEFRIERGKGYKAIDRSREETGGVEFMQIDAVFMPVRKVNYSVENFID 185 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 + D+L M I T+GS+T + +++ A+ +L D + ++ + + Sbjct: 186 PEGFPKDRLVMEIWTNGSLTAQQAMSEAAALLVDMFNPLKDVT-----LEPKRDEDTKEE 240 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L Sbjct: 241 DPTYQIPIEELQLSVRAYNCLKRAQINAVSDLLDYSQEDLLEIKNFGQKSAEEVVEAL-- 298 Query: 313 MGLFLGMNLPDWPP 326 + LG+ LP P Sbjct: 299 -QIHLGIMLPLEKP 311 >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 = 295 bits (756), Expect = 5e-78, 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|58415796|emb|CAH57312.1| RNA polymerase alpha-subunit [Vibrio coralliilyticus] Length = 287 Score = 295 bits (756), Expect = 6e-78, Method: Composition-based stats. Identities = 134/290 (46%), Positives = 196/290 (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++ + + + F+P LL+ V++LEL+VR Sbjct: 181 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVR 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|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 = 295 bits (756), Expect = 6e-78, Method: Composition-based stats. Identities = 119/324 (36%), Positives = 193/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AI ++I+GV Sbjct: 6 FQKPDKV---LMLEADSRFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAINTIKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L + L G ++ + Sbjct: 303 SLTELDDLLEGLNLSFGTDISKYK 326 >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 = 295 bits (756), Expect = 6e-78, Method: Composition-based stats. Identities = 118/324 (36%), Positives = 193/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AI + I+GV Sbjct: 6 FQKPDKV---LMLEADSKFGKFEFRPLEPGFGITVGNALRRILLSSLEGYAINTIHIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKYK 326 >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 = 295 bits (755), Expect = 7e-78, Method: Composition-based stats. Identities = 119/324 (36%), Positives = 194/324 (59%), Gaps = 11/324 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 KP+ I VL + + PL G+ T+GNALRRVL+SSL G AI ++I+G Sbjct: 5 NFQKPDKI---VLQKSTDFEAQFEFRPLEPGYGVTVGNALRRVLLSSLEGYAIVGIKIEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH---KRVTIFKRGPGVVTAGDIQ-TVN 123 HE +++KG+ ED+T+IILN+K + K ++ +++ I +G A I+ + Sbjct: 62 ADHEFATLKGITEDVTEIILNLKQVRFKRIVENEVNNEKIQISIKGKTEFRADMIEKATS 121 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 +++NP+ +IC LD A + +ELT+ KG GYVPA+ ++ ++ G I ID++++PIK V Sbjct: 122 AFQIMNPELLICTLDPSAKLDIELTIGKGRGYVPAEENKPKDAVFGYIAIDSIFTPIKNV 181 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKK 239 Y++E+ R Q DY+KL M + TDG+I E++V ASRIL L + + F+ Sbjct: 182 KYSIENTRVEQKTDYEKLIMEVITDGTIHPEEAVKQASRILIQHLMIITDENISFDTKDT 241 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 E ++ ++ ++L L +E+L+LSVR+ NCL+ I + +L+Q + ++++ NFG Sbjct: 242 EKEDVVDEQTLQLRKILKTPLEDLDLSVRAFNCLKAAKINSLSELVQYEQEELMKFRNFG 301 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPD 323 +KSL EI+ VL GL GM+L Sbjct: 302 QKSLSEIEQVLNERGLHFGMDLSK 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 = 295 bits (755), Expect = 7e-78, Method: Composition-based stats. Identities = 96/302 (31%), Positives = 164/302 (54%), Gaps = 7/302 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + + + EPL RG T+GNALRR+L+S+L GAA+TA++I GV HE ++++GV ED Sbjct: 15 KNQSQYSKFVLEPLERGQGTTVGNALRRILISNLEGAAVTALRIAGVNHEFATVQGVRED 74 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + +++LN+K I LK + + + GP V A +++E+++ + + L A Sbjct: 75 VMELMLNMKEIILKSYTNQTQIGRLVATGPATVVAAQFDLPSEVEIVDRNQYVATLAEGA 134 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ME V KG GY + E + + ID+++ P+ KV+Y+VE R D+L Sbjct: 135 KLEMEFRVEKGKGYRAIDRSKDEATSLDFLQIDSIFMPVTKVNYSVEDIRSESGQARDRL 194 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + I T+GSI +++++ A+ +L + + ++ N N +E Sbjct: 195 LLEIWTNGSINPKEALSQAADMLVNLFNPLKDLN----ALESSSNFDDQEINQENQIPIE 250 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 EL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L LG+ L Sbjct: 251 ELQLSVRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEEVIEAL---QKRLGITL 307 Query: 322 PD 323 P Sbjct: 308 PQ 309 >gi|159027085|emb|CAO89270.1| rpoA [Microcystis aeruginosa PCC 7806] Length = 313 Score = 295 bits (755), Expect = 8e-78, Method: Composition-based stats. Identities = 96/302 (31%), Positives = 164/302 (54%), Gaps = 7/302 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + + + EPL RG T+GNALRR+L+S+L GAA+TA++I GV HE ++++GV ED Sbjct: 15 KNQSQYSKFVLEPLERGQGTTVGNALRRILISNLEGAAVTALRIAGVNHEFATVEGVRED 74 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + +++LN+K I LK + + + GP V A +++E+++ + + L A Sbjct: 75 VMELMLNMKEITLKSYTNQTQIGRLVATGPATVVAAQFDLPSEVEIVDRNQYVATLAEGA 134 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ME V KG GY + E + + ID+++ P+ KV+Y+VE R D+L Sbjct: 135 KLEMEFRVEKGKGYRAIDRSKEEATSLDFLQIDSIFMPVTKVNYSVEDIRSESGQARDRL 194 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + I T+GSI +++++ A+ +L + + ++ N N +E Sbjct: 195 LLEIWTNGSINPKEALSQAADMLVNLFNPLKDLN----ALESSGNFDDQEINQENQIPIE 250 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 EL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L LG+ L Sbjct: 251 ELQLSVRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEEVIEAL---QKRLGITL 307 Query: 322 PD 323 P Sbjct: 308 PQ 309 >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 = 295 bits (755), Expect = 8e-78, Method: Composition-based stats. Identities = 120/324 (37%), Positives = 194/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT ++IDGV Sbjct: 6 FQKPDKV---LMLEADSRFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIRIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKYK 326 >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 = 294 bits (754), Expect = 9e-78, Method: Composition-based stats. Identities = 128/324 (39%), Positives = 199/324 (61%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +P+ + ++ + + PL GF T+GNALRR+L+SSL G AIT+++ GV Sbjct: 6 FQRPDKV---IMQKSTDFDGTFEFRPLEPGFGVTIGNALRRILLSSLEGYAITSIRFSGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-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 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEV 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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL EI+ ++ + GL GMNL + Sbjct: 303 SLSEIQELVKSKGLSFGMNLSKFK 326 >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 = 294 bits (754), Expect = 9e-78, Method: Composition-based stats. Identities = 127/324 (39%), Positives = 199/324 (61%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +P+ + ++ + + PL GF T+GNALRR+L+SSL G AIT+++ GV Sbjct: 6 FQRPDKV---IMQKSTDFDGTFEFRPLEPGFGVTIGNALRRILLSSLEGYAITSIRFSGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-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 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEV 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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL EI+ ++ + GL GMNL + Sbjct: 303 SLSEIQELVKSKGLSFGMNLSKFK 326 >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 = 294 bits (754), Expect = 1e-77, Method: Composition-based stats. Identities = 118/321 (36%), Positives = 175/321 (54%), Gaps = 10/321 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 I P I L EN PL RG +LGNALRRVL+SS+ GAA+T +++ G Sbjct: 7 SFITPR----ITLVAAAENYGRFAIAPLQRGHGSSLGNALRRVLLSSIPGAAVTRIKVSG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE SSI GV ED T ++LNIKGI L+ D + + K+GPG V A DI + +E+ Sbjct: 63 VIHEFSSIPGVVEDGTQLVLNIKGIRLRSYSDRAVALQLIKQGPGPVFARDIDAPSTVEI 122 Query: 128 LNPDHVICNLDVDA-VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +NP H IC +D + M+LTV +G G A PIG I +DAL+SPI +V++ Sbjct: 123 VNPQHYICTIDDEHTTFEMQLTVERGRGVQLADT--VSGMPIGEIAVDALFSPIPRVNFL 180 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE + + YD+L + I TDG+I D+++ A++IL G +N +P +E + + Sbjct: 181 VEEMGDDPLTGYDRLILEIWTDGTIKPGDALSHAAQILAQYFGRIVNLNQP-EEPEPSAH 239 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + + ++EL LS R+ N LR I +G L++ + ++ + N G K + EI Sbjct: 240 LPPPIPEEIASRTIDELGLSTRTYNSLRRAEIHTIGQLLRLDDRGLMSIRNLGAKGIEEI 299 Query: 307 KGVLGTMGLFLGMN--LPDWP 325 L +G G + LP P Sbjct: 300 HQRLEALGYRSGSSSRLPAAP 320 >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 = 294 bits (754), Expect = 1e-77, 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|179184670|gb|ACB78156.1| RNA polymerase alpha subunit [Vibrio rarus] Length = 301 Score = 294 bits (754), Expect = 1e-77, Method: Composition-based stats. Identities = 130/303 (42%), 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-AVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 D A + M + V +G GYVPA + 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 RTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVQEPIE---EKPEFDP 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|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 = 294 bits (753), Expect = 1e-77, Method: Composition-based stats. Identities = 122/326 (37%), Positives = 191/326 (58%), Gaps = 12/326 (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 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQT-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 RKSLVEIKGVLGTMGLFLGMNLPDWP 325 +KSL E+ +L + L G ++ + Sbjct: 303 KKSLSELDDLLEGLNLSFGTDITKYK 328 >gi|328813963|gb|AEB52097.1| DNA-directed RNA polymerase alpha chain [Lactobacillus farraginis] Length = 264 Score = 294 bits (753), Expect = 1e-77, Method: Composition-based stats. Identities = 118/264 (44%), Positives = 173/264 (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 ELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 LT ++G GYV A ++ 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|161511769|emb|CAP16895.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 262 Score = 294 bits (753), Expect = 1e-77, Method: Composition-based stats. Identities = 115/256 (44%), Positives = 164/256 (64%), Gaps = 2/256 (0%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E +N + EPL RG+ TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+GV ED Sbjct: 7 DENDNYGRFVIEPLERGYGTTLGNSLRRILLSSLPGAAITSVQIDSVLHEFSTIEGVVED 66 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ IC + Sbjct: 67 VTQIILNLKKVSLKIESDEDKTLEINVAGPANVTAGDIMGDGDVVILNPELPICTVAEGT 126 Query: 142 VVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 LT G GY A ++ + PIG++ ID++Y+PI++V+Y VE+ R GQ DYD Sbjct: 127 TFHAVLTADTGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYD 186 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL++ I TDGSIT ++ +L+++IL + L +F+N + KE + + + L Sbjct: 187 KLTLDIWTDGSITPSEATSLSAKILTEHLAIFVNLNDQAKETEIMVEKEETHKEKMLEMT 246 Query: 260 VEELELSVRSTNCLRG 275 +EEL+LSVRS NCL+ Sbjct: 247 IEELDLSVRSYNCLKR 262 >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 = 294 bits (753), Expect = 1e-77, Method: Composition-based stats. Identities = 120/324 (37%), Positives = 194/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT ++I+GV Sbjct: 6 FQKPDKV---LMLEADAKFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIRIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKYK 326 >gi|328813979|gb|AEB52105.1| DNA-directed RNA polymerase alpha chain [Lactobacillus helveticus] Length = 263 Score = 294 bits (752), Expect = 1e-77, 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|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 = 294 bits (752), Expect = 2e-77, Method: Composition-based stats. Identities = 134/299 (44%), Positives = 197/299 (65%), Gaps = 8/299 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +G Sbjct: 2 VDIEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEG 61 Query: 78 VHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 V ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E++NP+HVIC+ Sbjct: 62 VQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICH 121 Query: 137 LDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D A V M + V +G GYVPA H ++ PIG + +DA YSP+ K++YTVE+AR Sbjct: 122 LTDDNAEVAMRIKVQRGRGYVPASARIHTDEDDRPIGRLLVDATYSPVDKIAYTVEAARV 181 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + + + F Sbjct: 182 EQRTDLDKLVIDMETNGTIEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEF 238 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK L Sbjct: 239 DPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDGLH 297 >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 = 294 bits (752), Expect = 2e-77, Method: Composition-based stats. Identities = 109/245 (44%), Positives = 163/245 (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 MGDLI 285 + +L Sbjct: 241 VQELT 245 >gi|295111400|emb|CBL28150.1| DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type [Synergistetes bacterium SGP1] Length = 333 Score = 294 bits (752), Expect = 2e-77, Method: Composition-based stats. Identities = 117/331 (35%), Positives = 189/331 (57%), Gaps = 15/331 (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 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 N G+ SL EI+ L + GL L E Sbjct: 302 NLGKISLTEIEEKLESAGLKLREKKEKAGKE 332 >gi|328813989|gb|AEB52110.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 264 Score = 294 bits (752), Expect = 2e-77, Method: Composition-based stats. Identities = 121/266 (45%), Positives = 173/266 (65%), 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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSY 185 LNPD IC + A M +T + G GYV A+ ++ ++ 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|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 = 294 bits (752), Expect = 2e-77, Method: Composition-based stats. Identities = 122/326 (37%), Positives = 190/326 (58%), Gaps = 12/326 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + + PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMLEANDTFGKFEFRPLEPGFGVTIGNALRRILLSSLEGFAINTIRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQT-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 RKSLVEIKGVLGTMGLFLGMNLPDWP 325 +KSL E+ +L + L G ++ + Sbjct: 303 KKSLSELDDLLEGLNLSFGTDITKYK 328 >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 = 293 bits (751), Expect = 2e-77, 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|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 = 293 bits (751), Expect = 2e-77, Method: Composition-based stats. Identities = 120/324 (37%), Positives = 194/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT ++IDGV Sbjct: 6 FQKPDKV---LMLEADSKFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIKIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKYK 326 >gi|153012268|gb|ABS50355.1| DNA-directed RNA polymerase alpha chain [Enterococcus thailandicus] Length = 250 Score = 293 bits (751), Expect = 2e-77, 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|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 = 293 bits (751), Expect = 2e-77, Method: Composition-based stats. Identities = 119/324 (36%), Positives = 194/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT ++I+GV Sbjct: 6 FQKPDKV---LMLEADSKFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKYK 326 >gi|218674111|ref|ZP_03523780.1| DNA-directed RNA polymerase subunit alpha [Rhizobium etli GR56] Length = 237 Score = 293 bits (750), Expect = 3e-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|261876120|gb|ACY04590.1| DNA-directed RNA polymerase [Lactobacillus sp. DCY 50T] Length = 251 Score = 293 bits (750), Expect = 3e-77, Method: Composition-based stats. Identities = 117/251 (46%), Positives = 169/251 (67%), 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 TVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 T KG GYV A ++T + 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|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 = 293 bits (750), Expect = 3e-77, Method: Composition-based stats. Identities = 119/324 (36%), Positives = 194/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT ++I+GV Sbjct: 6 FQKPDKV---LMLEADSKFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKYK 326 >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 = 293 bits (749), Expect = 3e-77, Method: Composition-based stats. Identities = 118/324 (36%), Positives = 193/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT ++I+GV Sbjct: 6 FQKPDKV---LMLEADSRFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKYK 326 >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 = 293 bits (749), Expect = 4e-77, Method: Composition-based stats. Identities = 112/307 (36%), Positives = 173/307 (56%), Gaps = 6/307 (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 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF------EEPKKEVKEDINVKSLP 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 TMGLFLG 318 GL L Sbjct: 304 IFGLSLS 310 >gi|315186306|gb|EFU20067.1| DNA-directed RNA polymerase subunit alpha [Spirochaeta thermophila DSM 6578] Length = 363 Score = 292 bits (748), Expect = 4e-77, Method: Composition-based stats. Identities = 125/344 (36%), Positives = 194/344 (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 MARKNLLKGFVLPTSITVEHLDTNTH-YGKFAAYPFERGYGVTIGNTLRRILLSSIQGYA 59 Query: 60 ITAVQI-----DGVLHEISS----IKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKR 109 I+AV+I G H +SS 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|312271196|gb|ADQ57295.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 253 Score = 292 bits (748), Expect = 4e-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|161511759|emb|CAP16890.1| DNA-directed RNA polymerase subunit alpha [Pediococcus damnosus] Length = 265 Score = 292 bits (748), Expect = 4e-77, Method: Composition-based stats. Identities = 115/268 (42%), Positives = 170/268 (63%), Gaps = 6/268 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KP I E+ N + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDGVLH Sbjct: 2 KPK----IHKVDEKSNYGRFVVEPLERGYGTTLGNSLRRILLSSLPGAALTSVQIDGVLH 57 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S+I+GV ED+T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP Sbjct: 58 EFSTIEGVVEDVTQIILNLKKVSLKVESDEEKSLEINVMGPANVTAGDIVGDGDVTILNP 117 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVE 188 + IC + LT KG GY A ++ + PIG++ ID++Y+PI++V+Y VE Sbjct: 118 ELPICTVAEGTTFHAVLTAEKGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVE 177 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + R GQ DYDKL++ + TDGS+ ++++L+++IL + L +F+N ++ K+ + + + Sbjct: 178 NTRVGQRDDYDKLTLDVWTDGSLAASEAISLSAKILTEHLTIFVNLDDQAKDTEIMVEKE 237 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGE 276 L +EEL+LSVRS NCL+ Sbjct: 238 ETHKEKMLEMTIEELDLSVRSYNCLKRA 265 >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 = 292 bits (748), Expect = 4e-77, 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|145577845|gb|ABP87373.1| RpoA [Vibrio ruber] Length = 294 Score = 292 bits (748), Expect = 5e-77, Method: Composition-based stats. Identities = 132/295 (44%), Positives = 195/295 (66%), Gaps = 8/295 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +G Sbjct: 3 VDIEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEG 62 Query: 78 VHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 V ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E++NP+HVIC+ Sbjct: 63 VQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICH 122 Query: 137 LDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L A V M + V +G GYVPA H ++ PIG + +DA YSP+ K++YTVE+AR Sbjct: 123 LTDGNAEVAMRIKVQRGRGYVPASARIHTDEDDRPIGRLLVDATYSPVDKIAYTVEAARV 182 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + + + F Sbjct: 183 EQRTDLDKLVIDMETNGTIEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEF 239 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK Sbjct: 240 DPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIK 294 >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 = 292 bits (748), Expect = 5e-77, Method: Composition-based stats. Identities = 121/324 (37%), Positives = 193/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP N+ ++ + ++ +PL G+ T+GNALRR+L+SSL G AITA++I+GV Sbjct: 6 FQKPENV---LMMETSDSIAKFEFKPLEPGYGITIGNALRRILLSSLEGFAITAIKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDI 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 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEV 241 VE+ R Q DY+KL M + TDGSI D++ A++IL +F 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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L T+ L GM++ + Sbjct: 303 SLTELDELLATLNLSFGMDISKYK 326 >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 = 292 bits (748), Expect = 5e-77, Method: Composition-based stats. Identities = 123/352 (34%), Positives = 193/352 (54%), Gaps = 13/352 (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-----DGVLHEISS----IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIF-KR 109 I+AV+I D V H ISS 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-DKC 340 ++ + N G+KSL EI+ L L LGM SI+ +K E D+ Sbjct: 300 DEISKTRNVGKKSLQEIQEKLAERNLSLGMTDYSHLKNSIKLSRQKEETDEA 351 >gi|189308769|gb|ACD87086.1| RpoA [Vibrio sp. PP-203] Length = 295 Score = 292 bits (747), Expect = 6e-77, Method: Composition-based stats. Identities = 131/298 (43%), Positives = 195/298 (65%), 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 LDVD-AVVRMELTVSKGHGYVPAK---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++ + + + F Sbjct: 181 EQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL Sbjct: 238 DPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVL 295 >gi|189308773|gb|ACD87088.1| RpoA [Vibrio sp. PP-204] Length = 295 Score = 292 bits (747), Expect = 6e-77, Method: Composition-based stats. Identities = 131/297 (44%), Positives = 194/297 (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 VD-AVVRMELTVSKGHGYVPAK---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++ + + + F+P Sbjct: 182 RTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDP 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|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 = 292 bits (747), Expect = 7e-77, Method: Composition-based stats. Identities = 126/331 (38%), Positives = 192/331 (58%), Gaps = 13/331 (3%) Query: 1 MIQKN-WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M +KN + +P I + + A P RGF T+GN LRR+L+SS++G A Sbjct: 1 MARKNLMKGFKRPKGI-IFEHSDVKPDYGKFTAYPFERGFGTTIGNTLRRILLSSIQGYA 59 Query: 60 ITAVQI-----DGVLHEISS----IKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKR 109 ITAV+ DGV H ++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 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 ++ + NFG+KSL EIK L L LGM Sbjct: 299 EEIAKTRNFGKKSLSEIKAKLAEWNLSLGMT 329 >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 = 292 bits (747), Expect = 7e-77, Method: Composition-based stats. Identities = 111/316 (35%), Positives = 188/316 (59%), Gaps = 6/316 (1%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 E + + + ++ L +PL +G+ T+GNALRR+L+SSL G AIT ++I GVLHE S++ Sbjct: 10 EKVAMEKADDFHGLFTFKPLEKGYGVTVGNALRRILLSSLEGYAITGIKIPGVLHEFSAV 69 Query: 76 KGVHEDLTDIILNIKGINLKMSGDS-HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHV 133 +GV ED++++ILN+K + K ++ ++ I + AGDI + E+LNPD + Sbjct: 70 EGVVEDVSELILNLKMVRFKKIAETADNKINISLKNTKEFKAGDINKFTTAFEILNPDLL 129 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 IC++D +ELT+ KG GYV ++ + + I ID++++PIK V Y+VE+ R Sbjct: 130 ICHMDESINFEIELTIEKGRGYVSSEENTLVDQVADYIAIDSIFTPIKNVKYSVENTRVE 189 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKS 249 Q DY++L + I+TDGSI E ++ A+ IL +F + + + E ++ + Sbjct: 190 QKTDYEQLVLDIETDGSIHPEVALKGAANILIKHFMLFSDQNMVLDAGGSDEPEAVDEEM 249 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L L + +L+LSVR+ NCL+ ++ +GDL+ +DM++ NFG+KSL E++ + Sbjct: 250 LHMRKLLKTALNDLDLSVRAYNCLKAADVKTLGDLVALEISDMMKFRNFGKKSLAELEQL 309 Query: 310 LGTMGLFLGMNLPDWP 325 + GL GM+L + Sbjct: 310 VADKGLTFGMDLSKYK 325 >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 (746), Expect = 7e-77, Method: Composition-based stats. Identities = 113/311 (36%), Positives = 190/311 (61%), Gaps = 4/311 (1%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 NIE + + +E+ PL RG+ T+GN++RRVL+SSL G++++ + IDGVLHE Sbjct: 7 TNIEILDINEEDH-YGKFALYPLERGYGTTIGNSMRRVLLSSLPGSSVSKILIDGVLHEF 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 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK---KEVKEDINVKS 249 G+ D+DKL + + T+G++T ++++A IL ++ F + K +E++ + + Sbjct: 186 GESTDFDKLIIEVWTNGTVTPQEALAEGLSILMNKFAFFKELPDKKFPPEEIETTEELAA 245 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 N L + +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|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 = 291 bits (746), Expect = 8e-77, Method: Composition-based stats. Identities = 115/324 (35%), Positives = 184/324 (56%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL G+ T+GN LRR+L+SSL G AIT ++I GV Sbjct: 6 FQKPDKV---IMLESTDKFGKFEFRPLEPGYGITIGNPLRRILLSSLEGFAITGIKIHGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E++ +L L GM++ + Sbjct: 303 SLTELEALLENNNLEFGMDVTKYK 326 >gi|161511757|emb|CAP16889.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 263 Score = 291 bits (746), Expect = 8e-77, Method: Composition-based stats. Identities = 115/267 (43%), Positives = 170/267 (63%), Gaps = 6/267 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KP I E+ N + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDGVLH Sbjct: 1 KPK----IHKVDEKSNYGRFVVEPLERGYGTTLGNSLRRILLSSLPGAALTSVQIDGVLH 56 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S+I+GV ED+T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP Sbjct: 57 EFSTIEGVVEDVTQIILNLKKVSLKVESDEEKSLEINVMGPANVTAGDIVGDGDVTILNP 116 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVE 188 + IC + LT KG GY A ++ + PIG++ ID++Y+PI++V+Y VE Sbjct: 117 ELPICTVAEGTTFHAVLTAEKGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVE 176 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + R GQ DYDKL++ + TDGS+ ++++L+++IL + L +F+N ++ K+ + + + Sbjct: 177 NTRVGQRDDYDKLTLDVWTDGSLAASEAISLSAKILTEHLTIFVNLDDQAKDTEIMVEKE 236 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRG 275 L +EEL+LSVRS NCL+ Sbjct: 237 ETHKEKMLEMTIEELDLSVRSYNCLKR 263 >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 = 291 bits (746), Expect = 8e-77, Method: Composition-based stats. Identities = 133/314 (42%), Positives = 190/314 (60%), Gaps = 13/314 (4%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 IV +++ EPL RGF TLGN+LRRVL+SSL G AIT+++IDGVLHE ++I+G Sbjct: 11 IVELSDDKRYGKFECEPLERGFGITLGNSLRRVLLSSLDGVAITSIKIDGVLHEFTTIEG 70 Query: 78 VHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 V ED+TD+ILN+K I ++ +V I G+ AGD+Q ++I+VLN D IC Sbjct: 71 VREDVTDMILNLKKIRFIAHDEAVFPIQVRIDIDKEGIFHAGDMQLPSEIDVLNTDLEIC 130 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 LD DA + MELT+ +GHGYVP ++ ND IG+I ID++++P+ K +Y V R G Sbjct: 131 TLDADAHLGMELTIDRGHGYVPFNKNKK-NDEIGIIPIDSIFTPVVKCNYKVSDTRVGNE 189 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF------EEPKKEVKEDINVKS 249 +DYDKL++ ++TDGS+ ED+VA A+ IL F E E++ +I K Sbjct: 190 MDYDKLTLELETDGSVKVEDAVAQAATILIKYFENFRRLATKQIPEIDVDEIEPEIEEKD 249 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + + +EELELSVR+ NCL+ I + L +TE ++ R+ N G+KS+ EIK Sbjct: 250 DSPD-LSVIPIEELELSVRAFNCLKRAEINMLDQLTDKTEDELTRVRNLGKKSVDEIKEK 308 Query: 310 LGTM---GLFLGMN 320 L GL L N Sbjct: 309 LAAYKGWGLHLKDN 322 >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 = 291 bits (745), Expect = 9e-77, Method: Composition-based stats. Identities = 118/313 (37%), Positives = 190/313 (60%), Gaps = 6/313 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + Q +E + +PL RG+ T+GNALRRV++SSL G AIT+++I G+ HE S+I+G Sbjct: 12 ISVKQADEFHGIFTFKPLERGYGVTIGNALRRVILSSLEGYAITSIRIPGIYHEFSTIEG 71 Query: 78 VHEDLTDIILNIKGINLKMSGDS-HKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVIC 135 V EDL +IILN+K I K GD+ ++ I ++TAGD Q E+ NP+ VIC Sbjct: 72 VTEDLVEIILNLKQIRFKKIGDTTENKIFISINNKKILTAGDFAQATAAFEITNPELVIC 131 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 ++D A +E+TV KG GYVPA+ ++ + G+I ID++++P+K V Y VE+ R GQ Sbjct: 132 HIDESARFEIEVTVEKGRGYVPAEENKIDAQVKGVIPIDSIFTPVKNVKYHVENTRVGQK 191 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKSLP 251 DY+ L +++TDG+I + ++ A+ I+ + I+ E + + ++ +L Sbjct: 192 TDYESLVFSVETDGTIHPQTAIERAADIMIKHFALLIDRNKMVETKDADEIDVLDESTLQ 251 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L + E+ LSVR+ NCL+ +I +GDL+Q +DM + NFG+KSL E++ ++ Sbjct: 252 MRKLLKTPLSEMGLSVRAFNCLKAADIKTLGDLVQLKVSDMAQFRNFGKKSLKELQDLVA 311 Query: 312 TMGLFLGMNLPDW 324 + L GM+L + Sbjct: 312 SKDLTFGMDLSAY 324 >gi|315134694|dbj|BAJ41855.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus ozensis] Length = 264 Score = 291 bits (745), Expect = 1e-76, Method: Composition-based stats. Identities = 120/258 (46%), Positives = 172/258 (66%), Gaps = 4/258 (1%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E +N ++ EPL RG+ TLGN+LRR+L+SSL GAA+T++QID VLHE S++KGV ED Sbjct: 7 DETDNYGEVVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDDVLHEFSTVKGVVED 66 Query: 82 LTDIILNIKGINLKMS--GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 + IILN+K I+LK+ D K + I GP VTAGDIQ D+ VLNPD IC + Sbjct: 67 VAQIILNVKKISLKLDIADDEEKSMEINVTGPAQVTAGDIQADGDVTVLNPDLKICTVAE 126 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLD 197 A M +T +KG GYV A ++ ND PIG++ +D++Y+PI++V+Y VE+AR GQ D Sbjct: 127 GATFHMRMTANKGRGYVSADENKARNDGMPIGVLPVDSIYTPIERVNYQVENARVGQRAD 186 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL++ + TDGSIT ++V+LA++IL + L MF++ + K + + + L Sbjct: 187 FDKLTLDVWTDGSITPSEAVSLAAKILSEHLSMFVDLTDEAKNAEVMVEKEETHKEKMLE 246 Query: 258 KKVEELELSVRSTNCLRG 275 +EEL+LSVRS NCL+ Sbjct: 247 MTIEELDLSVRSYNCLKR 264 >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 = 291 bits (744), Expect = 1e-76, 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|311990466|gb|ADQ26363.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 257 Score = 291 bits (744), Expect = 2e-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|332176606|gb|AEE12296.1| DNA-directed RNA polymerase subunit alpha [Porphyromonas asaccharolytica DSM 20707] Length = 330 Score = 290 bits (743), Expect = 2e-76, Method: Composition-based stats. Identities = 116/320 (36%), Positives = 190/320 (59%), Gaps = 7/320 (2%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 + +++ ++ +PL G+A T+GNALRR+L+SSL G AI +++I+GV HE ++I Sbjct: 10 DSVLMLDASDHYAKFEFKPLEPGYAMTIGNALRRILLSSLEGYAIASIRIEGVEHEFATI 69 Query: 76 KGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDH 132 GV ED+T IILN+K I K + + +T+ G AGD+ Q + +V NPD Sbjct: 70 PGVLEDVTHIILNLKQIRFKAAVEDPQEETITLHVTGRNTFQAGDLNQVLTSYKVQNPDL 129 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 VICNL DA +EL ++KG GYV ++ +R E+DP+ + ID +Y+PI+KV+ T E+ R Sbjct: 130 VICNLAEDADFTIELRINKGRGYVVSEENRREDDPVNTLPIDGIYTPIRKVNQTTEAYRV 189 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV----K 248 Q DY+KL + I+TDG+I +++ A+ IL +F + E + +E+ + + Sbjct: 190 DQRTDYEKLVLEIETDGTIHPREALRQAATILISHFALFTDKEFEVELPEEEPDQLLDNQ 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 ++ L+ + +LSVR+ NCL+ I + DL+ R ++L++ NFG+KSLVEI+ Sbjct: 250 TMKVRTQLMTDLATTDLSVRALNCLKAAGISTIADLLSRDRDELLKIKNFGKKSLVEIEQ 309 Query: 309 VLGTMGLFLGMNLPDWPPES 328 L L M+L + ++ Sbjct: 310 FLADQDLDFDMDLTPYRLDN 329 >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 = 290 bits (743), Expect = 2e-76, Method: Composition-based stats. Identities = 131/300 (43%), Positives = 194/300 (64%), Gaps = 8/300 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +G Sbjct: 3 VDIEQVSATHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEG 62 Query: 78 VHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 V ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+ Sbjct: 63 VQEDILEILLNLKGLAVKVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICH 122 Query: 137 LDVD-AVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D A + M + V +G GYVPA + PIG + +DA YSP+ K++Y VE+AR Sbjct: 123 LTDDNAEIAMRIKVERGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARV 182 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G++ E+++ ++ IL +QL F++ + + + F Sbjct: 183 EQRTDLDKLVIDMETNGTLDPEEAIRRSATILAEQLDAFVDLRDIRVPE---EKEEKPEF 239 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G KSL EIK VL + Sbjct: 240 DPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGNKSLTEIKDVLAS 299 >gi|332144664|dbj|BAK19492.1| RNA polymerase alpha subunit [Lactobacillus sp. YIT 12363] Length = 251 Score = 290 bits (743), Expect = 2e-76, 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|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 = 290 bits (743), Expect = 2e-76, Method: Composition-based stats. Identities = 114/311 (36%), Positives = 175/311 (56%), Gaps = 9/311 (2%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 IE + + E+ EPL G+ HTLGNALRRVL++++ G+AIT V++ GV E Sbjct: 8 KIEVV---EATESFGRFKIEPLDPGYGHTLGNALRRVLLTAIPGSAITHVRVTGVYQETD 64 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 I GV ED+ ++ILN+KGI+L+ + TI K+GPGVVTA D+ + V++PDH Sbjct: 65 RIPGVTEDMVELILNLKGIHLRGHHEGTVTATIRKQGPGVVTAADLVLPEGLAVVDPDHY 124 Query: 134 ICNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 IC L+ A + + T+ +G GY+ A P+G I IDA+++P+ +V+Y VE+ R Sbjct: 125 ICTLEHEQAQIELTATIERGRGYLSADQR--GILPLGEIPIDAIFTPVPRVNYIVENTRI 182 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 GQ D+D+L + + T+G++ D++ A+R+L NF E + L Sbjct: 183 GQATDFDRLILEVWTNGTVRPVDALDYAARVLVHYNTTIANFNRMAVEPEAQPETTGLEI 242 Query: 253 NP-ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 P +E LELS R+ NCL+ I +G ++Q E +L + N G+KS+ EI+ L Sbjct: 243 PPSVYDTSIETLELSTRTYNCLKRAEITKIGQVLQMDEKALLSVRNLGQKSMEEIRDKLI 302 Query: 312 TMGL--FLGMN 320 G L +N Sbjct: 303 ERGYIPRLPIN 313 >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 = 290 bits (742), Expect = 2e-76, Method: Composition-based stats. Identities = 115/320 (35%), Positives = 190/320 (59%), Gaps = 7/320 (2%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 + +++ ++ +PL G+A T+GNALRR+L+SSL G AI +++I+GV HE ++I Sbjct: 10 DSVLMLDASDHYAKFEFKPLEPGYAMTIGNALRRILLSSLEGYAIASIRIEGVEHEFATI 69 Query: 76 KGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDH 132 GV ED+T IILN+K I K + + +T+ G AGD+ Q + +V NPD Sbjct: 70 PGVLEDVTHIILNLKQIRFKAAVEDPQEETITLHVTGRNTFQAGDLNQVLTSYKVQNPDL 129 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 VICNL DA +E+ ++KG GYV ++ +R E+DP+ + ID +Y+PI+KV+ T E+ R Sbjct: 130 VICNLAEDADFTIEIRINKGRGYVVSEENRREDDPVNTLPIDGIYTPIRKVNQTTEAYRV 189 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV----K 248 Q DY+KL + I+TDG+I +++ A+ IL +F + E + +E+ + + Sbjct: 190 DQRTDYEKLVLEIETDGTIHPREALRQAATILISHFALFTDKEFEVELPEEEPDQLLDNQ 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 ++ L+ + +LSVR+ NCL+ I + DL+ R ++L++ NFG+KSLVEI+ Sbjct: 250 TMKVRTQLMTDLATTDLSVRALNCLKAAGISTIADLLSRDRDELLKIKNFGKKSLVEIEQ 309 Query: 309 VLGTMGLFLGMNLPDWPPES 328 L L M+L + ++ Sbjct: 310 FLADQDLDFDMDLTPYRLDN 329 >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 = 290 bits (742), Expect = 2e-76, Method: Composition-based stats. Identities = 129/300 (43%), Positives = 195/300 (65%), Gaps = 11/300 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 >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 = 290 bits (742), Expect = 2e-76, Method: Composition-based stats. Identities = 124/324 (38%), Positives = 189/324 (58%), Gaps = 18/324 (5%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 IE + + E + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE S Sbjct: 8 KIEKVDI-AEGGRYGKFVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHEFS 66 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGP--GVVTAGDI--QTVNDIEVLN 129 +I G+ ED+TDIILN+K + +K+ D+ + + GV+TA D+ Q ++EVLN Sbjct: 67 TIPGIREDVTDIILNLKQLCIKLEEDAEWPLEVHFDFQKDGVLTAADLAEQFPPEVEVLN 126 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ VI +D A + M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V Sbjct: 127 PELVIATMDETAHLVMDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEVSD 186 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK-EDINVK 248 R G +D+DKL++ + TDGSIT D+VA ++ I+ LG F V+ +D N++ Sbjct: 187 VRVGNEMDFDKLTLEVWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSTSVVELDDQNLE 246 Query: 249 SLPFNPALLK----------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +P ++ELELSVR+ NCL+ I + DL+ +T D+ ++ N Sbjct: 247 GDVVDPTPQDVQEDDGPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGKVRNL 306 Query: 299 GRKSLVEIKGVLGTM--GLFLGMN 320 G+KS+ EI L G L Sbjct: 307 GKKSIDEIAEKLSNHPGGFSLKQK 330 >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 = 289 bits (741), Expect = 3e-76, Method: Composition-based stats. Identities = 126/312 (40%), Positives = 184/312 (58%), 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 LTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 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 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINF-EEPKKEVKEDINVKSLPFNPALLK 258 KL++ ++TDGSI D+VA A+ IL + +F P E ++ ++ + + Sbjct: 195 KLTLELETDGSIKASDAVATAATILMNCFELFRPLATGPILEARDGSDMARQSSDQQAEE 254 Query: 259 --------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 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|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 = 289 bits (739), Expect = 5e-76, Method: Composition-based stats. Identities = 119/332 (35%), Positives = 193/332 (58%), Gaps = 11/332 (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 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDS---HKRVTIFKRGPGVVTAGDIQTVND 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 IYSVEKTR----GDLDELTIEIETNGAILAKEALALASKMLVDHFQVLVDISEKASEFDF 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 +++ P + K+E+L+LSVR N L+ I +G+L++ +E +++R+ + GRKS Sbjct: 238 IRDIEEEPASKKSDTKIEQLDLSVRLFNSLKRSGITTVGELLKLSEEEVMRLRSLGRKSF 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 E+K L GL + + K Sbjct: 298 KELKEKLAEHGLEFEHSTSKEARFGFDSDEDK 329 >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 = 289 bits (739), Expect = 5e-76, Method: Composition-based stats. Identities = 122/315 (38%), Positives = 187/315 (59%), Gaps = 16/315 (5%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 IE + + E + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE S Sbjct: 8 KIEKVDI-AEGGRYGKFVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHEFS 66 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGP--GVVTAGDI--QTVNDIEVLN 129 +I G+ ED+TDIILN+K + +K+ D+ + + GV+TA D+ Q ++EVLN Sbjct: 67 TIPGIREDVTDIILNLKQLCIKLEEDAEWPLEVHFDFQKDGVLTAADLAEQFPPEVEVLN 126 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ VI +D A + M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V Sbjct: 127 PELVIATMDETAHLVMDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEVSD 186 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK-EDINVK 248 R G +D+DKL++ + TDGSIT D+VA ++ I+ LG F V+ +D N++ Sbjct: 187 VRVGNEMDFDKLTLEVWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSTSVVELDDQNLE 246 Query: 249 SLPFNPALLK----------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +P ++ELELSVR+ NCL+ I + DL+ +T D+ ++ N Sbjct: 247 GDVVDPTPQDVQEDDGPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGKVRNL 306 Query: 299 GRKSLVEIKGVLGTM 313 G+KS+ EI L Sbjct: 307 GKKSIDEIAEKLSNH 321 >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 = 289 bits (739), Expect = 5e-76, 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 TDLLRPNIKEVVTLSR---NVSRVILEPFEQHYAQVLGTALRRIMLSSIPGYAITEVEID 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+ +G ++L + I+T+G+I D+V A+ I DQL F++ Sbjct: 182 VLNVAVHTAPLNDG----QEQLILDIETNGTIDPSDAVCSAATIFADQLNSFVDIRNSVA 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 D +P LL VE+LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G Sbjct: 238 PA--DDASFKPLIDPKLLCPVEDLELTVRSANCLKAEGIKYIGDLVQRTEVELLKTPNLG 295 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 +KSL EIK VL GL LGM L +WPP +E Sbjct: 296 KKSLTEIKDVLAERGLSLGMRLENWPPADLE 326 >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 = 289 bits (739), Expect = 5e-76, Method: Composition-based stats. Identities = 113/322 (35%), Positives = 181/322 (56%), Gaps = 10/322 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q+ E + P+ + + G+ + EPL RGF TLGN+LRR L+SS++G AIT Sbjct: 1 MQR---EFLFPSKVYWEERGK---TYGRFVVEPLERGFGITLGNSLRRTLLSSIQGTAIT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 AV+I G+ HE S I+GV ED+ ++I N+K I + + + + K+G G VTA DI Sbjct: 55 AVKIYGIYHEFSPIEGVQEDVLEVIANLKKIRFNLKSSDVETLYLKKKGEGTVTAKDITC 114 Query: 122 VNDIEVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +++++NPD I + + + ME+ + +G GY+ + + +G I +DA +SP+ Sbjct: 115 PPNVDIINPDQKIATITDPNKELNMEIRIERGFGYMTTEEMEVIGE-VGWILVDADFSPV 173 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++VS+ VE R + DYD+L M I T+G+ T E+ V A IL + Sbjct: 174 RQVSFRVEKTRVEKRSDYDRLIMEIYTNGTKTPEEVVKEAISILVKYFSSLEHISYELPV 233 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V+E + V L VEEL++S R+ N ++ I +GDL++ +E D+ N GR Sbjct: 234 VEEPVIVDEFA--EKLSLPVEELDVSQRALNSIKRMGINTIGDLVRLSEEDLKGTKNVGR 291 Query: 301 KSLVEIKGVLGTMGLFLGMNLP 322 K++ EIK L MGL+LGM++ Sbjct: 292 KAINEIKEALKQMGLYLGMDIE 313 >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 = 289 bits (739), Expect = 6e-76, Method: Composition-based stats. Identities = 89/348 (25%), Positives = 166/348 (47%), Gaps = 26/348 (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 DNTQHIASLTEPIELCIGLQIERNRGYLIKTPNN--NSKDGSYPIDAVFMPVRNANHSIH 188 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE + + ++ Sbjct: 189 SYGNG-NDKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHTEEENLHLANNQHMV 247 Query: 249 SLPF----------------NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 LP +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 248 PLPPFTFHDKLDKLRKNKKKRALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDL 307 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 +++ +F K ++K +LG + +NL P E LA+ + K Sbjct: 308 MKIEHFRIK---DVKQILGILEKNFSINLGKKPKMGFESLAQLIDSKS 352 >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 = 288 bits (738), Expect = 6e-76, Method: Composition-based stats. Identities = 130/317 (41%), Positives = 188/317 (59%), Gaps = 7/317 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E + PN I + Q+E+N+ + + EPL RGF TLGNALRRVL+SS+ G A+TAV+I Sbjct: 3 NEFVFPNKIYW---EQKEDNKGVFVVEPLERGFGTTLGNALRRVLLSSISGTAVTAVKIY 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV HE SS++GV ED+ +II NIKG+ + + + + K+G G V AGDI ++E Sbjct: 60 GVYHEFSSLEGVAEDVVEIIANIKGVRFTLKDSDVEVLYLKKKGEGEVKAGDISLPPNVE 119 Query: 127 VLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 V NPD VI + + E+ + +G GYV A+ T + G I +DA +SP+K VSY Sbjct: 120 VANPDKVIATITDPEVEFNAEIRIERGKGYVLAEEMETIGE-TGWILLDADFSPVKLVSY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 +E R G+ DY+KL++ + TDG+ + E V A ILQ L + + ++E I Sbjct: 179 RIEQTRVGEKTDYEKLTVEVLTDGTKSPEAVVKEAVDILQRHLSLLEHISYEVPTLEEPI 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 V L + L +EEL++S R+ N L+ I +GDL+Q TE ++ N GRK+L E Sbjct: 239 PVDEL--SEKLTLSIEELDISQRALNSLKRMGITTIGDLVQMTEEELKSTKNIGRKALAE 296 Query: 306 IKGVLGTMGLFLGMNLP 322 IK L MGL LG+N+ Sbjct: 297 IKEALKQMGLQLGINIE 313 >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 = 288 bits (738), Expect = 7e-76, Method: Composition-based stats. Identities = 128/299 (42%), Positives = 194/299 (64%), Gaps = 11/299 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KS Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKS 293 >gi|328813981|gb|AEB52106.1| DNA-directed RNA polymerase alpha chain [Lactobacillus helveticus] Length = 249 Score = 288 bits (738), Expect = 7e-76, 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|58416044|emb|CAH57436.1| RNA polymerase alpha-subunit [Vibrio sp. R-21433] Length = 294 Score = 288 bits (737), Expect = 8e-76, Method: Composition-based stats. Identities = 129/300 (43%), Positives = 194/300 (64%), Gaps = 11/300 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 >gi|150036782|emb|CAM98034.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. dextranicum] Length = 248 Score = 288 bits (737), Expect = 8e-76, 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|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 = 288 bits (737), Expect = 9e-76, 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|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 = 288 bits (737), Expect = 9e-76, Method: Composition-based stats. Identities = 129/322 (40%), Positives = 185/322 (57%), Gaps = 6/322 (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 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVNDIE 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 IVNPDVHIATVDKEIELRMELKIEKGRGYVMVEEMEPPTE-IGWIPIDTAFSPIKKCTFY 182 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV---KE 243 VE R G+ +YDKL + + TDGSIT E+++ A+ IL + + +N K EV E Sbjct: 183 VEPTRVGEKTNYDKLILEVTTDGSITPEEALTKATNILIEHFQLLLNPTVRKVEVIKKAE 242 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 ++ L +EELE+S R+TN L+ I +GDL++ TE D+ + GRK+L Sbjct: 243 PESIAEKIEADKLSLAIEELEISSRATNTLKKLGIQTIGDLVKMTEEDLKEAKSIGRKAL 302 Query: 304 VEIKGVLGTMGLFLGMNLPDWP 325 EIK L +GL L + Sbjct: 303 KEIKEALAELGLELAPSPTKKD 324 >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 = 288 bits (736), Expect = 1e-75, Method: Composition-based stats. Identities = 100/311 (32%), Positives = 167/311 (53%), Gaps = 10/311 (3%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 +E V + I EPL G T+GN+LRRVL+S + G+AITAV+I GV HE Sbjct: 7 ECVESKVESSCNQ-YGRFIVEPLEPGQGITIGNSLRRVLLSDIEGSAITAVRIAGVNHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 SI GV ED+ +++LN+K I LK + + + +G VT + + +++E+++ Sbjct: 66 CSIPGVKEDVLELLLNLKNIVLKSYTNEPQIGRLKIQGACKVTTANFELPSEVEIIHGTQ 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 + + +A++ ME + KG GY +TEN I + IDA++ P++KV+Y VE Sbjct: 126 YVATVAENAILEMEFKIEKGRGYKIIDKKQTEN-SIDFLPIDAIFMPVRKVNYMVEEIFL 184 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 ++L + I +GS+T +DS++ A+ +L + F K + + Sbjct: 185 RNSEIKERLILEIWRNGSVTPQDSISQAAEVLLNLFNPF-----KKINFENTDDSTEQTE 239 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 + +EEL+LSVR+ NCL+ I +GDL+ ++ ++L + NFG+KS E+ L Sbjct: 240 DKISQIPIEELQLSVRAYNCLKRAQIHSIGDLLNVSQEELLEIRNFGQKSAKEVIDAL-- 297 Query: 313 MGLFLGMNLPD 323 LG++LP Sbjct: 298 -QKRLGISLPK 307 >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 = 288 bits (736), Expect = 1e-75, Method: Composition-based stats. Identities = 119/317 (37%), Positives = 183/317 (57%), Gaps = 18/317 (5%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 IE + + + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE S Sbjct: 8 KIEKVDIADG-GRYGKFVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHEFS 66 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGP--GVVTAGDI--QTVNDIEVLN 129 +I G+ ED+TDIILN+K + +K+ D+ + + GV+TA D+ Q ++EVLN Sbjct: 67 TIPGIREDVTDIILNLKQLCIKVEEDAQLPLEVHFDFQKDGVLTAADLAEQFPPEVEVLN 126 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ VI +D A + M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V Sbjct: 127 PELVIATMDETAHLVMDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEVSD 186 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI---- 245 R G +D+DKL++ + TDGSIT D+VA ++ I+ LG F V + Sbjct: 187 VRVGNEMDFDKLTLEVWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSADVVDVNTGEGG 246 Query: 246 ---------NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 N + + ++ELELSVR+ NCL+ I + DL+ +T D+ ++ Sbjct: 247 IVVDPVGSDNEEPAVDDGPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGKVR 306 Query: 297 NFGRKSLVEIKGVLGTM 313 N G+KS+ EI+ L Sbjct: 307 NLGKKSIDEIEEKLNNH 323 >gi|313158337|gb|EFR57739.1| DNA-directed RNA polymerase, alpha subunit [Alistipes sp. HGB5] Length = 330 Score = 288 bits (736), Expect = 1e-75, Method: Composition-based stats. Identities = 115/324 (35%), Positives = 184/324 (56%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP + ++ + + PL GF T+GNALRR+L+SSL G AIT V++ GV Sbjct: 6 FQKPEKV---IMLESTSSFGKFEFRPLEPGFGMTVGNALRRILLSSLEGYAITTVKVAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINL--KMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDI 125 HE ++I GV ED+ IILN+K + + ++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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L GM++ + Sbjct: 303 SLTELDELLTSLNLKFGMDVSIYK 326 >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 = 288 bits (736), Expect = 1e-75, Method: Composition-based stats. Identities = 111/317 (35%), Positives = 181/317 (57%), Gaps = 7/317 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 +E I P I + ++++N + EPL RG+ T+GNALRRVL+SS+ G+AITAV+I Sbjct: 1 MKEFIFPMKIYW---EEKDKNYGRFVVEPLERGYGTTIGNALRRVLLSSIYGSAITAVKI 57 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 +GV HE S+I+GV ED+ II N+K + + + + + K PGVV A DI+T ++ Sbjct: 58 EGVQHEFSTIEGVQEDVLQIIANLKNVRFDLKDSDLEILYLEKNAPGVVLASDIKTPPNV 117 Query: 126 EVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 ++N D I ++ + ++ME+ + +G GYV + + G + +DA +SPIK + Sbjct: 118 TIINKDAYIATINSANTTLKMEIRIERGKGYVMSDEMEQIGE-AGWVVLDADFSPIKVAA 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + VE+ R G DYDKL+ + T+G ++ + ++ A ++ + M N + E Sbjct: 177 FRVEATRVGDRTDYDKLTFELTTNGVVSPDTAIQQAVELIVKHMNMLTNISYEVPTLPEP 236 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + L L +EEL++S R+ N L+ + +G+L+Q TE ++ N GRK+L Sbjct: 237 MPPDELM--EKLTFSIEELDISQRALNSLKRIGVTTIGELVQLTEDELKSSKNIGRKALT 294 Query: 305 EIKGVLGTMGLFLGMNL 321 EIK L MG LGMN+ Sbjct: 295 EIKEALKNMGFSLGMNI 311 >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 = 288 bits (736), Expect = 1e-75, 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|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 = 288 bits (736), Expect = 1e-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|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 = 287 bits (735), Expect = 1e-75, Method: Composition-based stats. Identities = 121/321 (37%), Positives = 183/321 (57%), 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 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQTVNDI 125 V HE S+I+GV ED+T+I+LN+K + LK +S 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 EVVNPEHVIATLDNDDARLEMDLVIARGRGYQPAET--QEIYTIGEIPVDAIFTPIEKVN 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|157493235|gb|ABV57983.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|157493237|gb|ABV57984.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 289 Score = 287 bits (735), Expect = 1e-75, Method: Composition-based stats. Identities = 127/289 (43%), Positives = 192/289 (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++ + + + F+P LL+ Sbjct: 182 DKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLR 238 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK Sbjct: 239 PVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIK 287 >gi|328813975|gb|AEB52103.1| DNA-directed RNA polymerase alpha chain [Lactobacillus fermentum] Length = 248 Score = 287 bits (735), Expect = 1e-75, Method: Composition-based stats. Identities = 111/248 (44%), Positives = 167/248 (67%), 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 KGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 KG GY A ++T 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|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 = 287 bits (735), Expect = 1e-75, Method: Composition-based stats. Identities = 134/280 (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 GVV Sbjct: 1 MNGFAPTEVAISGVLHEYSTVDGVQEDVVDILLNVKGIVFKLHGRGQVQLTLRKSGAGVV 60 Query: 115 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLI 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 ADL---QGTPVEEVEEKAPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETE 237 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +L+ N GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 238 LLKTPNLGRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 277 >gi|58415944|emb|CAH57386.1| RNA polymerase alpha-subunit [Vibrio mytili] Length = 294 Score = 287 bits (735), Expect = 1e-75, Method: Composition-based stats. Identities = 128/300 (42%), Positives = 194/300 (64%), Gaps = 11/300 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 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 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 >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 = 287 bits (735), Expect = 2e-75, Method: Composition-based stats. Identities = 121/324 (37%), Positives = 192/324 (59%), Gaps = 10/324 (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 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEV 241 +VE R Q DYDKL + + TDGSI+ +D++ A++IL +F + 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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L + L G ++ + Sbjct: 303 SLTELDDLLLGLNLSFGTDISKYK 326 >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 = 287 bits (735), Expect = 2e-75, Method: Composition-based stats. Identities = 121/324 (37%), Positives = 192/324 (59%), Gaps = 10/324 (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 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEV 241 +VE R Q DYDKL + + TDGSI+ +D++ A++IL +F + 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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L + L G ++ + Sbjct: 303 SLTELDDLLLGLNLSFGTDISKYK 326 >gi|145577841|gb|ABP87371.1| RpoA [Vibrio rhizosphaerae] gi|162955840|gb|ABY25295.1| RNA polymerase alpha subunit [Vibrio sp. MSSRF6] Length = 286 Score = 287 bits (734), Expect = 2e-75, Method: Composition-based stats. Identities = 131/289 (45%), Positives = 193/289 (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-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++ + + + F+P L Sbjct: 181 DLDKLVIDMETNGTIEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPIL 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|145577855|gb|ABP87378.1| RpoA [Vibrio sp. MSSRF10] Length = 286 Score = 287 bits (734), Expect = 2e-75, Method: Composition-based stats. Identities = 129/287 (44%), Positives = 190/287 (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-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-A 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++ + + + F+P LL+ Sbjct: 183 DKLVIDMETNGTIEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLR 239 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 240 PVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 286 >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 = 287 bits (734), Expect = 2e-75, Method: Composition-based stats. Identities = 113/317 (35%), Positives = 176/317 (55%), Gaps = 20/317 (6%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + +PL RG+ TLGN+LRR+L+SSL G AIT+++IDG+LHE ++I GV ED Sbjct: 15 DGDGTFGKFVCKPLDRGYGITLGNSLRRILLSSLEGVAITSIKIDGILHEFTTIPGVRED 74 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGV--VTAGDIQTVNDIEVLNPDHVICNLDV 139 +++IILN+K + +K + I G TA D+ +DIE+LNP I LD Sbjct: 75 VSEIILNLKQVRMKFHKEDQMEADIIVDISGECDFTAADLNVNSDIEILNPTLHIATLDE 134 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 DA +RM+ + +G GYVP+ ++ + D IG+I ID+++SPI + Y V + R G +DYD Sbjct: 135 DAHIRMQCHIERGKGYVPSTKNKKDTDVIGVIPIDSIFSPILRAKYEVGNVRVGNEMDYD 194 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK----------------- 242 L+M + TDGS+T ED++A ++ IL L P + ++ Sbjct: 195 SLTMEVLTDGSLTAEDAMAESASILSSYLEKIKQLAAPGRNLQQGKFTEDELGAGANGAN 254 Query: 243 -EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + ++ L+LSVR++NCL+ NI + +LI T++D+ ++ N G K Sbjct: 255 AEGAGADGTDMGEGGDESIDTLQLSVRASNCLKRANIYTIKELISHTKSDLGKIRNLGSK 314 Query: 302 SLVEIKGVLGTMGLFLG 318 S+ EI L G L Sbjct: 315 SVEEIIEKLSQFGYKLK 331 >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 = 286 bits (733), Expect = 2e-75, Method: Composition-based stats. Identities = 136/280 (48%), Positives = 187/280 (66%), 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 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLI 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 ADL---QGTPVEEVEEKAPPIDPVLLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETE 237 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +L+ N GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 238 LLKTPNLGRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 277 >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 = 286 bits (733), Expect = 3e-75, Method: Composition-based stats. Identities = 120/317 (37%), Positives = 182/317 (57%), Gaps = 18/317 (5%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 IE + + E + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE S Sbjct: 11 KIEKVDI-AEGGRYGKFVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHEFS 69 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGP--GVVTAGDI--QTVNDIEVLN 129 +I G+ ED+TDIILN+K + +K+ D + + GV+TA D+ Q ++EVLN Sbjct: 70 TIPGIREDVTDIILNLKQLCIKVEEDVQLPLEVHFDFQKDGVLTAADLAEQFPPEVEVLN 129 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ VI +D A + M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V Sbjct: 130 PELVIATMDETAHLVMDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEVSD 189 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI---- 245 R G +D+DKL++ + TDGSIT D+VA ++ I+ LG F V + Sbjct: 190 VRVGNEMDFDKLTLEVWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSADVVDVNTGEGG 249 Query: 246 ---------NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 N + ++ELELSVR+ NCL+ I + DL+ +T D+ ++ Sbjct: 250 IVVDPVGSDNEEPAVDEGPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGKVR 309 Query: 297 NFGRKSLVEIKGVLGTM 313 N G+KS+ EI+ L Sbjct: 310 NLGKKSIDEIEEKLNNH 326 >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 = 286 bits (733), Expect = 3e-75, Method: Composition-based stats. Identities = 113/314 (35%), Positives = 179/314 (57%), Gaps = 10/314 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ P + E N I PL G+ TLGNALRRVL+SSL GAA+T+++I Sbjct: 5 TNMVTPK----VEREAEARNYGKFIIGPLEGGYGVTLGNALRRVLLSSLEGAAVTSIRIS 60 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 VLHE S I GV ED+ ++LNIK + L + + + RG G VTA DIQ ++E Sbjct: 61 DVLHEFSDIPGVREDVIQVMLNIKQLRLILHDVETTHMHLEVRGEGTVTAADIQAPAEVE 120 Query: 127 VLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 ++NP+ + +D + + ++ TVS+G GY PA R+ PIG + +DA++SP+K+V++ Sbjct: 121 IVNPELELFTVDDPNTRLEIDFTVSRGRGYSPASE-RSGRLPIGELPVDAIFSPVKRVNW 179 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 +V +AR GQ +YD+L + I TDG+IT E++++ +++IL D L V + Sbjct: 180 SVTAARVGQSTNYDRLILEIWTDGTITPENALSTSAKILIDHLRYITGVSAESLAVTVEK 239 Query: 246 NVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDL---IQRTEADMLRMANFGRK 301 V + A +E L+LSVR N L+ I +GD+ +++ E ++ + NFG K Sbjct: 240 EVAGGRLTSEAAETPIENLDLSVRVFNSLKRTGITTVGDVLELLEKGEDAVMSIRNFGEK 299 Query: 302 SLVEIKGVLGTMGL 315 SL E++ + G Sbjct: 300 SLDELRQKMREKGF 313 >gi|312386519|gb|ADQ74778.1| RNA polymerase alpha subunit [Lactobacillus sp. MWBPC 1-3-1] Length = 248 Score = 286 bits (733), Expect = 3e-75, 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|218462761|ref|ZP_03502852.1| DNA-directed RNA polymerase subunit alpha [Rhizobium etli Kim 5] Length = 247 Score = 286 bits (732), Expect = 3e-75, Method: Composition-based stats. Identities = 173/247 (70%), Positives = 210/247 (85%), Gaps = 1/247 (0%) Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +KM GD KR+ + K+GPGVVTAGDIQTV DIE+LNP+HVIC LD A +RME TV+ G Sbjct: 1 AIKMDGDDAKRMVVRKQGPGVVTAGDIQTVGDIEILNPEHVICTLDEGAEIRMEFTVNNG 60 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYVPA+ +R E+ PIGLI +D+LYSP+KKVSY VE+ REGQVLDYDKL+MTI+TDGSIT Sbjct: 61 KGYVPAERNRAEDAPIGLIPVDSLYSPVKKVSYKVENTREGQVLDYDKLNMTIETDGSIT 120 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 GED+VA A+RILQDQLG+F+NF+EP+KE +E+ V L FNPALLKKV+ELELSVRS NC Sbjct: 121 GEDAVAFAARILQDQLGVFVNFDEPQKETEEEA-VTELAFNPALLKKVDELELSVRSANC 179 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEEL 332 L+ +NIVY+GDLIQ+TEA+MLR NFGRKSL EIK VL +MGL LGM +P WPPE+IE+L Sbjct: 180 LKNDNIVYIGDLIQKTEAEMLRTPNFGRKSLNEIKEVLASMGLHLGMEVPAWPPENIEDL 239 Query: 333 AKKYEDK 339 AK+YED+ Sbjct: 240 AKRYEDQ 246 >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 (732), Expect = 4e-75, Method: Composition-based stats. Identities = 133/280 (47%), Positives = 184/280 (65%), 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 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLI 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 ADL---QGTPVEEVEEKAPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETE 237 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +L+ N GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 238 LLKTPNLGRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 277 >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 = 286 bits (731), Expect = 4e-75, Method: Composition-based stats. Identities = 117/317 (36%), Positives = 182/317 (57%), Gaps = 18/317 (5%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 IE + + + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE S Sbjct: 8 KIEKVDIADG-GRYGKFVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHEFS 66 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGP--GVVTAGDI--QTVNDIEVLN 129 +I G+ ED+TDIILN+K + +K+ ++ + + G++TA D+ Q ++EVLN Sbjct: 67 TIPGIREDVTDIILNLKQLCIKVEEEAQLPLEVHFDFQKDGILTAADLAEQFPPEVEVLN 126 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ VI +D A M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V Sbjct: 127 PELVIATMDETAHFVMDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEVSD 186 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI---- 245 R G +D+DKL++ + TDGSIT D+VA ++ I+ LG F V + Sbjct: 187 VRVGNEMDFDKLTLEVWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSADVVDVNTGEGG 246 Query: 246 ---------NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 N + + ++ELELSVR+ NCL+ I + DL+ +T D+ ++ Sbjct: 247 IVIDPVGSDNEEPAVDDGPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGKVR 306 Query: 297 NFGRKSLVEIKGVLGTM 313 N G+KS+ EI+ L Sbjct: 307 NLGKKSIDEIEEKLNNH 323 >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 = 286 bits (731), Expect = 4e-75, Method: Composition-based stats. Identities = 117/317 (36%), Positives = 183/317 (57%), Gaps = 18/317 (5%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 IE + + + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE S Sbjct: 8 KIEKVDIADG-GRYGKFVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHEFS 66 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGP--GVVTAGDI--QTVNDIEVLN 129 +I G+ ED+TDIILN+K + +K+ ++ + + G++TA D+ Q ++EVLN Sbjct: 67 TIPGIREDVTDIILNLKQLCIKVEEEAQLPLEVHFDFQKDGILTAADLAEQFPPEVEVLN 126 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ VI +D A + M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V Sbjct: 127 PELVIATMDETAHLVMDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEVSD 186 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI---- 245 R G +D+DKL++ + TDGSIT D+VA ++ I+ LG F V + Sbjct: 187 VRVGNEMDFDKLTLEVWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSADVVDVNTGEGG 246 Query: 246 ---------NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 N + + ++ELELSVR+ NCL+ I + DL+ +T D+ ++ Sbjct: 247 IVIDPVGSDNEEPAVDDGPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGKVR 306 Query: 297 NFGRKSLVEIKGVLGTM 313 N G+KS+ EI+ L Sbjct: 307 NLGKKSIDEIEEKLNNH 323 >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 = 286 bits (731), Expect = 4e-75, 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|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 = 285 bits (730), Expect = 5e-75, Method: Composition-based stats. Identities = 103/311 (33%), Positives = 165/311 (53%), Gaps = 10/311 (3%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 IE G + + EPL +G TLGNALRR ++S L G AI AV+I GV HE Sbjct: 7 ECIESRTDGARGQ-YGSFVIEPLNQGQGITLGNALRRSILSDLEGTAIVAVRIAGVNHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 S+I GV ED+ +I+LN+K + K + I +GP +VTAG + +DIEV++P Sbjct: 66 STIPGVREDVLEILLNLKEVVFKSYNKESQIGRIRVQGPAIVTAGLFELSSDIEVVDPRQ 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + + ME + K GY A+ + + + +D+++ P+ KV+Y VE R Sbjct: 126 YIATICNNTIFEMEFKIEKNCGYRLAEK-AVDELSVDFLQVDSVFMPVNKVNYKVEEVRI 184 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 G D+L + I T+GSI+ +++++ + +L + N + K N +S Sbjct: 185 GSNSIKDRLIIQIWTNGSISPQEAISQGATVLTNLFCSLRNLD-----FKSADNYRSKED 239 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +EEL+LSVR+ NCL+ I + DL+ ++ ++L + NFG+KS E+ L Sbjct: 240 KKISQVLIEELQLSVRAYNCLKRAQIHSIADLLDYSQEELLEIKNFGQKSAEEVIYAL-- 297 Query: 313 MGLFLGMNLPD 323 LG++LP Sbjct: 298 -QKKLGISLPK 307 >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 = 285 bits (730), Expect = 6e-75, Method: Composition-based stats. Identities = 108/304 (35%), Positives = 168/304 (55%), Gaps = 7/304 (2%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 IE + + E EPL G+ HTLGNALRRVL++++ G+AIT V+I GV E Sbjct: 8 KIEVV---EATETFGRFKIEPLDPGYGHTLGNALRRVLLTAIPGSAITHVRIAGVYQETD 64 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 I G+ ED+ ++ILN+KGI+L+ + + TI K+GP +VTA D+ + V++P H Sbjct: 65 VIPGMTEDVVELILNLKGIHLRGRHEGTVQATIQKQGPAIVTAADLMLPEGLSVVDPTHY 124 Query: 134 ICNLDVD-AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 IC L+ D A + + T+ G GY+ A P+G IDA+++P+ +V+Y VE+ R Sbjct: 125 ICTLEHDQARIEITATIEHGRGYLSADQR--GILPLGEFPIDAIFTPVPRVNYVVENTRI 182 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP- 251 GQ DYD+L + + T+G+I ++++ A+R+L NF E L Sbjct: 183 GQATDYDRLILEVWTNGTIRAQEALDYAARVLVHYYTTIANFNRLMVEPAAQPETNGLEI 242 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +E L+LS R+ NCL+ I +G ++Q E +L + N G+KS+ EI+ L Sbjct: 243 PAHVYDTSIETLDLSTRTYNCLKRAEITKIGQVLQMDEKALLSVRNLGQKSMEEIRDKLI 302 Query: 312 TMGL 315 G Sbjct: 303 ERGY 306 >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 = 285 bits (730), Expect = 6e-75, Method: Composition-based stats. Identities = 137/280 (48%), Positives = 185/280 (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 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLI 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 ANL---QGTPVEEVEEKAPPIDPVLLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETE 237 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +L+ N GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 238 LLKTPNLGRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 277 >gi|291514968|emb|CBK64178.1| DNA-directed RNA polymerase subunit alpha [Alistipes shahii WAL 8301] Length = 317 Score = 285 bits (730), Expect = 6e-75, Method: Composition-based stats. Identities = 113/311 (36%), Positives = 180/311 (57%), Gaps = 7/311 (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 LTDIILNIKGINL--KMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLD 138 + +IILN+K + + ++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 LFLGMNLPDWP 325 L GM++ + Sbjct: 303 LKFGMDVSIYK 313 >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 = 285 bits (730), Expect = 6e-75, 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|157493247|gb|ABV57989.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 286 Score = 285 bits (729), Expect = 7e-75, Method: Composition-based stats. Identities = 126/288 (43%), Positives = 191/288 (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++ + + + F+P LL+ Sbjct: 182 DKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLR 238 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EI Sbjct: 239 PVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEI 286 >gi|290489678|gb|ADD31223.1| RNA polymerase alpha subunit protein [Berberidopsis corallina] Length = 337 Score = 285 bits (729), Expect = 7e-75, Method: Composition-based stats. Identities = 81/331 (24%), Positives = 163/331 (49%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 + ++ G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDLCIGLQIERNRGYRIKTLNNFQD---GSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLEDNQHKA 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 MKIEHFR---IEDVKQILGILEKHFTIDLPK 334 >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 = 285 bits (729), Expect = 7e-75, Method: Composition-based stats. Identities = 115/317 (36%), Positives = 178/317 (56%), Gaps = 6/317 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 +E + P+ + + ++ + + EPL RGF T+GNALRR L+SS+ G AIT V++ Sbjct: 3 REFVYPSKVYW---EEKTKTYGRFVVEPLERGFGITVGNALRRTLLSSIEGTAITGVKVY 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 G HE S+++GV ED+ +II N+K + ++ + + + KRG G V A DI ++ Sbjct: 60 GAYHEFSTVEGVLEDVLEIIANLKRVRFRLRESHVEILYLKKRGEGEVYARDIILPPSVD 119 Query: 127 VLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 ++ PD I + D + +E+ V +G GYVP + + + +G I +DA +SP++ VSY Sbjct: 120 LITPDVKIATITSPDTELHIEIRVERGFGYVPTEEMESFGE-VGWILVDADFSPVRHVSY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE R + DYD+L M I TDGS T E+ V A +IL N + V E+ Sbjct: 179 RVEKTRVERRSDYDRLIMEIRTDGSKTPEEVVKEAVQILLRNFSSLENIAQEIPFVAEEP 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 V L +EEL++S RS N L+ I +G+L++ TE D+ N GRK++ E Sbjct: 239 VVVDELMEKLSL-PIEELDISQRSLNSLKRIGINTLGELVRLTEEDLKSTKNVGRKAINE 297 Query: 306 IKGVLGTMGLFLGMNLP 322 IK L MGL+LGM++ Sbjct: 298 IKEALKQMGLYLGMDIE 314 >gi|260656836|gb|ACX47808.1| RNA polymerase alpha-subunit [Vibrio casei] Length = 295 Score = 285 bits (729), Expect = 8e-75, Method: Composition-based stats. Identities = 130/297 (43%), Positives = 193/297 (64%), Gaps = 8/297 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +G Sbjct: 2 VDIEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEG 61 Query: 78 VHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 V ED+ +I+LN+KG+ + + G +T+ K G G V AGDI D+E+ NP+HVIC+ Sbjct: 62 VQEDILEILLNLKGLAVSVAEGKDEVFITLKKSGSGPVVAGDIIHDGDVEIANPEHVICH 121 Query: 137 LDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D A + M + V +G GYVP+ H + PIG + +DA YSP+ K++Y VE+AR Sbjct: 122 LTDDKAEIAMRIKVQRGRGYVPSSARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARV 181 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + + F Sbjct: 182 EQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEF 238 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK V Sbjct: 239 DPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDV 295 >gi|328813949|gb|AEB52090.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 241 Score = 284 bits (728), Expect = 9e-75, 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|158148901|dbj|BAF81985.1| RNA polymerase alpha subunit [Lactobacillus parabrevis] Length = 246 Score = 284 bits (728), Expect = 1e-74, 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|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 = 284 bits (728), Expect = 1e-74, Method: Composition-based stats. Identities = 115/315 (36%), Positives = 178/315 (56%), 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-VDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVS 184 L PD I LD ++ + + L + KG G+V ++ + + IG I +DA +SPIKKV+ Sbjct: 120 LTPDQEIATLDNENSEIEIYLRIDKGKGFVLSEDIQEIFDISTIGWIPLDADFSPIKKVA 179 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN-FEEPKKEVKE 243 + VE R G+ DY++L+M I TDGSIT +D+V A+ IL + M + E + 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|157493243|gb|ABV57987.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 286 Score = 284 bits (728), Expect = 1e-74, Method: Composition-based stats. Identities = 126/289 (43%), Positives = 191/289 (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++ + + + F+P L Sbjct: 181 DLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPIL 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|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 = 284 bits (727), Expect = 1e-74, Method: Composition-based stats. Identities = 121/316 (38%), 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 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR-VTIFKRGPGVVTAGDIQTVNDIE 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 + N+ IG I ID +SPIK+ ++ Sbjct: 125 IVNPDEYICTLSENVKLQMEFRIERGRGYKTVEELEDINE-IGWILIDTSFSPIKRCTFF 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|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 = 284 bits (727), Expect = 1e-74, Method: Composition-based stats. Identities = 117/317 (36%), Positives = 183/317 (57%), Gaps = 18/317 (5%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 IE + + + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE S Sbjct: 8 KIEKVDIADG-GRYGKFVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHEFS 66 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGP--GVVTAGDI--QTVNDIEVLN 129 +I G+ ED+TDIILN+K + +K+ ++ + + G++TA D+ Q ++EVLN Sbjct: 67 TIPGIREDVTDIILNLKQLCIKVEEEAQLPLEVHFDFQKDGILTATDLAEQFPPEVEVLN 126 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ VI +D A + M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V Sbjct: 127 PELVIATMDETAHLVMDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEVSD 186 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI---- 245 R G +D+DKL++ + TDGSIT D+VA ++ I+ LG F V + Sbjct: 187 VRVGNEMDFDKLTLEVWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSADVVDVNTGEGG 246 Query: 246 ---------NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 N + + ++ELELSVR+ NCL+ I + DL+ +T D+ ++ Sbjct: 247 IVIDPVGSDNEEPAVDDGPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGKVR 306 Query: 297 NFGRKSLVEIKGVLGTM 313 N G+KS+ EI+ L Sbjct: 307 NLGKKSIDEIEEKLNNH 323 >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 = 284 bits (727), Expect = 1e-74, Method: Composition-based stats. Identities = 123/306 (40%), Positives = 188/306 (61%), Gaps = 4/306 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + ++ + EPL RG+ T+GNALRRVL+SS+ G+AI V+IDGVL+E S+I+GV Sbjct: 14 KEDKTDDFHAIYTLEPLYRGYGATIGNALRRVLLSSIPGSAIKGVKIDGVLNEFSTIEGV 73 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E +TDIILNIK I ++ K++++ +GP +TA DI ++++NPD VI + Sbjct: 74 KEAVTDIILNIKEIVVESDEPGEKKMSLSVKGPREITARDIILEPGLKIINPDQVIATIT 133 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + ME V G G+V ++ TEN PIG I +DA+Y+PIKK+SY+VE G+ DY Sbjct: 134 TKREINMEFLVDSGEGFVVSEEIETENWPIGYIAVDAIYTPIKKISYSVEDTMVGRATDY 193 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKSLPFNP 254 DKL++ I TDGSI D+++ A ++ L F N E+ + E + + +++ + N Sbjct: 194 DKLTLDITTDGSIEIRDALSYAVELISFHLNPFTNIGNSMEKFRSEDEVESSIEVISENN 253 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 K+EEL+ +VRS NCL+ + +GDL + T A++L++ N GRKSL EI + +G Sbjct: 254 MDDMKIEELDFTVRSYNCLKKAGVNTIGDLGKMTYAELLKIKNLGRKSLNEIIDKMKELG 313 Query: 315 LFLGMN 320 L N Sbjct: 314 FDLNDN 319 >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 = 284 bits (726), Expect = 2e-74, Method: Composition-based stats. Identities = 115/274 (41%), Positives = 177/274 (64%), Gaps = 5/274 (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 QRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +T DM+++ N GRKSL E+ L + L L Sbjct: 241 NKTPEDMMKVRNLGRKSLEEVLAKLKELNLELNQ 274 >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 = 284 bits (726), Expect = 2e-74, Method: Composition-based stats. Identities = 116/305 (38%), Positives = 183/305 (60%), Gaps = 2/305 (0%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 NIE + + E+N PL RG+ TLGN++RRVL+ SL G+AI V+IDGV HE Sbjct: 7 TNIEVLDID-LEKNYGKFAIMPLDRGYGTTLGNSMRRVLLGSLPGSAIATVKIDGVGHEF 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 + ++ D I I +D+ +SP+KKV++ V + R Sbjct: 126 YITTLNEEGEIRMDLLVLNGKGYRVSDLNKEYCD-INSIAVDSSFSPVKKVNFIVGNTRV 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|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 = 284 bits (726), Expect = 2e-74, Method: Composition-based stats. Identities = 113/324 (34%), Positives = 184/324 (56%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP + ++ + + PL GF T+GNALRR+L+SSL G AIT V++ GV Sbjct: 6 FQKPEKV---IMLESTSSFGKFEFRPLEPGFGMTVGNALRRILLSSLEGYAITTVKVAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINL--KMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDI 125 HE ++I GV E + DIILN+K + + ++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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L GM++ + Sbjct: 303 SLTELDELLASLNLKFGMDVSIYK 326 >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 = 283 bits (725), Expect = 2e-74, Method: Composition-based stats. Identities = 125/285 (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: 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++ + + + F+P LL+ V Sbjct: 182 LVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPV 238 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 239 DDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 283 >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 = 283 bits (725), Expect = 2e-74, Method: Composition-based stats. Identities = 118/313 (37%), Positives = 176/313 (56%), 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 VLHEISSIKGVHEDLTDIILNIKGINLK-MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 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 VVNPDHVIATLDNDQARLEMDLWIGRGRGYLPAEA--QEIRSIGEIPIDAIFTPTLKVNY 176 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE R G DYD+L + I TDG++ ++ A+RIL FE + +E + Sbjct: 177 VVEHTRVGGATDYDRLILEIVTDGTVEPAKALVEAARILVQHARWIAEFE--SEGAEEPV 234 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 S+ + + E+ LS R N LR I +G ++ +L + NFG ++L E Sbjct: 235 EEWSVAHVD-DTRLLSEIGLSQRVLNALRARGIERVGQVLAMRPDQLLGIRNFGPRALQE 293 Query: 306 IKGVLGTMGLFLG 318 ++ L G G Sbjct: 294 LRERLQENGYTEG 306 >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 = 283 bits (725), Expect = 2e-74, Method: Composition-based stats. Identities = 125/287 (43%), Positives = 190/287 (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++ + + + F+P LL+ Sbjct: 182 DKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLR 238 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 239 PVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 285 >gi|329565863|gb|AEB92268.1| DNA-directed RNA polymerase alpha subunit [Thermoanaerobacter thermohydrosulfuricus] Length = 250 Score = 283 bits (724), Expect = 3e-74, 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|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 (724), Expect = 3e-74, Method: Composition-based stats. Identities = 88/360 (24%), Positives = 171/360 (47%), Gaps = 28/360 (7%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLR 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 QDIISPPYVEIVDNTQHIASLAEPIDLCIGLQIERNRGYLIKTPNN--NFQDGSYPIDAV 176 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 + P++ ++++ S G + L + I T+GS+T ++++ ASR L D F++ EE Sbjct: 177 FMPVRNANHSIHSYGNG-NEKQEILFLEIWTNGSLTPKEALHQASRNLIDLFIPFLHTEE 235 Query: 237 PKKEVKEDINVKSLPFNPALLK----------------KVEELELSVRSTNCLRGENIVY 280 + ++ + LP K +++ EL R NCL NI Sbjct: 236 ENLHLADNQHTVPLPPFTFHEKLTKLRKNKKKIALKSIFIDQSELPPRIYNCLIRSNIYT 295 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 + DL+ ++ D++++ +F + ++K +LG + ++LP E LA+ + Sbjct: 296 LLDLLNNSQEDLMKIEHFR---IEDVKAILGILEKHFAIDLPKKLKIGFESLAQSIYSES 352 >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 = 283 bits (724), Expect = 3e-74, Method: Composition-based stats. Identities = 97/297 (32%), Positives = 160/297 (53%), Gaps = 9/297 (3%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + E L +G TLGNALRR ++S L G AI AV+I GV HE S+I GV ED+ +I+ Sbjct: 20 YGSFVIEALNQGQGITLGNALRRSILSDLEGTAIVAVRIAGVNHEFSTIPGVREDVLEIL 79 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+K + K + + I +GP +VTAG + +DIEV++P I + + + ME Sbjct: 80 LNLKEVVFKSNNQESQIGRIKVQGPAIVTAGLFELSSDIEVVDPRQYIATICNNTIFEME 139 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 + K GY A+ + + + +D+++ P+ KV+Y VE R G D+L + I Sbjct: 140 FKIEKSCGYRLAEK-AVDELSLDFLQVDSVFMPVNKVNYKVEEVRVGTNSIKDRLILQIW 198 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+GSI+ +++++ + +L + N + + + K +EEL+LS Sbjct: 199 TNGSISPQEAISQGATVLTNLFCSLRNLDFKSVDTYRNKEDK-----KISQVLIEELQLS 253 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 VR+ NCL+ I + DL+ ++ ++L + NFG+KS E+ L LG++LP Sbjct: 254 VRAYNCLKRAQIHSIADLLDYSQEELLEIKNFGQKSAEEVIYAL---QKTLGISLPK 307 >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 = 283 bits (724), Expect = 3e-74, Method: Composition-based stats. Identities = 103/312 (33%), Positives = 169/312 (54%), Gaps = 14/312 (4%) 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 GQVLD-YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF---EEPKKEVKEDINVK 248 G+ ++L + I+T+GSIT +D++A A+ L EEP +E + + Sbjct: 186 GEGGSARERLRLEINTNGSITPDDALAYAANQLIALFQPLATVTLAEEPGQEPEPSAESQ 245 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ Sbjct: 246 ---------IPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGAKSADEVIE 296 Query: 309 VLGTMGLFLGMN 320 L +G+ L + Sbjct: 297 ALERIGISLPQS 308 >gi|300089409|gb|ADJ67856.1| RNA polymerase alpha-subunit [Photobacterium jeanii] Length = 274 Score = 283 bits (724), Expect = 3e-74, Method: Composition-based stats. Identities = 125/277 (45%), Positives = 185/277 (66%), 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++ + + + F+P LL+ V++LEL Sbjct: 181 QTNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLEL 237 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KS Sbjct: 238 TVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKS 274 >gi|329565843|gb|AEB92258.1| DNA-directed RNA polymerase alpha subunit [Thermoanaerobacter thermohydrosulfuricus] Length = 250 Score = 283 bits (724), Expect = 3e-74, 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|46143635|ref|ZP_00134832.2| COG0202: DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Actinobacillus pleuropneumoniae serovar 1 str. 4074] Length = 279 Score = 282 bits (722), Expect = 4e-74, 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|290489662|gb|ADD31215.1| RNA polymerase alpha subunit protein [Ilex cornuta] Length = 337 Score = 282 bits (722), Expect = 5e-74, Method: Composition-based stats. Identities = 83/331 (25%), Positives = 162/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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+ + ++ G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDLCIGLQIERNRGYLIKTPNNFQD---GSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S R G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYRNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEENLHLEDNQHTI 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 MKIEHFR---IEDVKQILGVLEKHFAIDLPK 334 >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 = 282 bits (722), Expect = 5e-74, Method: Composition-based stats. Identities = 115/309 (37%), Positives = 178/309 (57%), Gaps = 4/309 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 +E+ EPL RG+ +T+GNALRR+L+SS+ G AI ++I+GVL+E S+I+GV Sbjct: 14 TEEKEDNYTAKYTLEPLYRGYGNTIGNALRRILLSSIPGTAIKGIKIEGVLNEFSTIEGV 73 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E +TDIILN+K I ++ K++T+ +GP V+TA DI + ++NP+ VI + Sbjct: 74 KEAVTDIILNVKEIVVEADEPGEKKMTLSVKGPAVITAADIHVEPGLRIINPEQVIMTVT 133 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + +E V G G+V + T+ PIG + +DA+Y+PIK+V+Y+VE G+V +Y Sbjct: 134 TDRQIDIEFLVDSGEGFVVSDEINTDGWPIGYLAVDAIYTPIKRVNYSVEDTMVGRVTNY 193 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK----EVKEDINVKSLPFNP 254 DKL + I TDGSI +D+++ A +L L F N E + N Sbjct: 194 DKLILEIATDGSIEIKDALSYAVELLTWHLEPFTNIGNSMSKYRDSEDELAEADAENENN 253 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 K+EEL+ +VRS NCL+ + + DL T ++L++ N G+KSL EI + +G Sbjct: 254 IEDMKIEELDFTVRSYNCLKKAGVNTISDLTSMTYNELLKIKNLGKKSLNEIIDKMKELG 313 Query: 315 LFLGMNLPD 323 LG N + Sbjct: 314 YDLGDNQSN 322 >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 = 282 bits (722), Expect = 5e-74, 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 LTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDI-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|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 = 282 bits (722), Expect = 5e-74, Method: Composition-based stats. Identities = 113/309 (36%), Positives = 180/309 (58%), Gaps = 4/309 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 +E+ EPL RG+ +T+GNALRR+L+SS+ G AI ++I+GVL+E S+I+GV Sbjct: 14 TEEKEDNYTAKYTLEPLYRGYGNTIGNALRRILLSSIPGTAIKGIKIEGVLNEFSTIEGV 73 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E +TDIILN+K I ++ K++T+ +GP V+TA DI ++++NP+ VI + Sbjct: 74 KEAVTDIILNVKEIVVESDEPGEKKMTLSVKGPAVITAADIHVEPGLKIINPEQVIMTVT 133 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + +E V G G+V + T+ PIG + +DA+Y+PIK+V+Y+VE G+V +Y Sbjct: 134 TDKQIDIEFLVDSGEGFVVSDEINTDGWPIGYLAVDAIYTPIKRVNYSVEDTMVGRVTNY 193 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV----KSLPFNP 254 DKL + I TDGSI +D+++ A +L L F N + ++ + N Sbjct: 194 DKLILEIATDGSIEIKDALSYAVELLTWHLEPFTNIGNSMSKYRDSEDELTVTAEENENN 253 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 K+EEL+ +VRS NCL+ + + DL T ++L++ N G+KSL EI + +G Sbjct: 254 IEDMKIEELDFTVRSYNCLKKAGVNTISDLTSMTYNELLKIKNLGKKSLNEIIDKMKELG 313 Query: 315 LFLGMNLPD 323 LG + Sbjct: 314 YDLGDTSSN 322 >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 = 282 bits (722), Expect = 5e-74, Method: Composition-based stats. Identities = 128/289 (44%), Positives = 189/289 (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++ + + + F+P L Sbjct: 181 DLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPIL 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|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 = 282 bits (722), Expect = 5e-74, Method: Composition-based stats. Identities = 124/327 (37%), Positives = 185/327 (56%), Gaps = 13/327 (3%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 + +L+ P I+ +IAEP G+ HT+GN+LRR+L+S L G+A+TAV++ Sbjct: 3 FNQLVLPTKIQLDEK-TVTPFYGRIIAEPYESGYGHTVGNSLRRILLSGLDGSAVTAVRV 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 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI----NFEEPKKEV 241 VE AR GQ DYD+L + I TDG++ ++ A+ +L L +F E Sbjct: 182 DVEPARVGQKTDYDRLVIQITTDGTLEPAKALHKAAVLLSQSLHIFTIEGEEVNAAAPET 241 Query: 242 KEDINVKSLPFNPALLKKVEEL--------ELSVRSTNCLRGENIVYMGDLIQRTEADML 293 + S+ A+ KVEEL 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|37912970|gb|AAR05302.1| DNA-directed RNA polymerase alpha subunit [uncultured marine gamma proteobacterium EB000-45B06] Length = 283 Score = 282 bits (722), Expect = 5e-74, Method: Composition-based stats. Identities = 119/286 (41%), Positives = 183/286 (63%), Gaps = 3/286 (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 DLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPES 328 DLI R+E D+L+ N G+KSL EIK VL + L LGMN+ +WPP Sbjct: 238 DLIHRSEFDLLKTPNLGKKSLNEIKDVLASKELSLGMNVDNWPPVG 283 >gi|58758770|gb|AAW81775.1| RNA polymerase alpha subunit [Oedipodium griffithianum] Length = 340 Score = 282 bits (722), Expect = 5e-74, Method: Composition-based stats. Identities = 93/342 (27%), Positives = 162/342 (47%), Gaps = 27/342 (7%) Query: 1 MIQKNWQ---ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRG 57 MIQ ++++ +E V + + P G A+T+G A+RR L+ + G Sbjct: 1 MIQNEISVSAQVLQWRCVESKVDSERLH-YSRFAISPFRCGQANTVGIAMRRALLGEVEG 59 Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 IT + V HE S+I G+ E + DI++N+K I L+ + ++ I GP VTA Sbjct: 60 TCITCAKFKKVTHEYSTIAGIQESVHDILINLKEIVLRSNSYETQKAFISILGPKKVTAQ 119 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 DI +++++ I L + +EL + K GY ++ + G IDA++ Sbjct: 120 DIILPPSVKIIDTTQYIATLTKTIHLDIELEIEKDCGYRIQDSIKSTD---GHFPIDAIF 176 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-- 235 PI+ +Y+V S + L + I T+GSIT ++++ ASR L D F++ E Sbjct: 177 MPIRNANYSVHSFEHENKT-QEILFIEIWTNGSITPKEALYEASRSLIDLFIPFLHAEKK 235 Query: 236 ------EPKKEVKEDINVKSLPFNPALLKK--------VEELELSVRSTNCLRGENIVYM 281 E K E S + K +++LEL R+ NCL+ N+ + Sbjct: 236 EIINGLENKYESNNMSYFSSFSPLADRITKEVTFKHIFIDQLELPARAYNCLKRVNVHTI 295 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 DL+ ++ D++++ NFG+KS+ ++ L + +NLP Sbjct: 296 SDLLNYSQDDLMKIKNFGKKSVEQV---LEALQKQFSINLPK 334 >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 = 282 bits (721), Expect = 6e-74, Method: Composition-based stats. Identities = 105/309 (33%), Positives = 167/309 (54%), Gaps = 8/309 (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 GQVLD-YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 G+ ++L + I+T+GSIT +D++A A+ L ++ +E Sbjct: 186 GEGGSARERLRLEIETNGSITPDDAMAQAANQLIALFQPLATLSVVEEPGQEPEPSAE-- 243 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 244 ----AQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLFLGMN 320 +G+ L + Sbjct: 300 RIGITLPQS 308 >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 = 7e-74, Method: Composition-based stats. Identities = 89/334 (26%), Positives = 163/334 (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 DNTQHIASLTEPIELCIGLQIERNRGYLIKTPNN--NSQDGSYPIDAVFMPVRNANHSIH 188 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE + ++ ++ Sbjct: 189 SYGNG-NDKQEILFLEIWTNGSLTPKEALHEASRNLIDLFITFLHTEEENLHLADNQHMV 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|156597913|gb|ABU85224.1| RNA polymerase alpha subunit [Anethum graveolens] Length = 338 Score = 281 bits (720), Expect = 8e-74, Method: Composition-based stats. Identities = 86/333 (25%), Positives = 161/333 (48%), Gaps = 26/333 (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 DNTQHIASLTEPIELHIGLQIERSRGYLIKTPNN--NFQDGSYPIDAVFMPIRNANHSIH 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 KSLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 LP +++ EL R NCL+ NI + DL+ ++ D Sbjct: 249 VPLPPFTFHDNLDKLRKNKKKIALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQED 308 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 ++++ +F + ++K +LG + ++LP Sbjct: 309 LMKIEHFR---INDVKQILGILEKHFSIDLPKK 338 >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 = 281 bits (720), Expect = 9e-74, Method: Composition-based stats. Identities = 120/318 (37%), Positives = 186/318 (58%), Gaps = 8/318 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E I P+ I + ++ + ++ EPL RGF T+GN+LRRVL+SS+ G AITAV+I Sbjct: 3 NEFIYPDKIFW---EEKTDTYGRLVVEPLERGFGTTVGNSLRRVLLSSISGTAITAVKIY 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQTVNDI 125 G+ HE S+I+GV ED ++I N+K I M GDS + + + K+G G V A DI+T ++ Sbjct: 60 GIYHEFSAIEGVQEDAIELIANLKKIKFLMKGDSDVEILYLQKKGEGEVKASDIKTPPNV 119 Query: 126 EVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 E+LNPD I + + + +E+ V +G GYVP + + +G I +DA +SP+KKV Sbjct: 120 EILNPDQYIATITDPNKELNIEIRVERGRGYVPVEEMEAIGE-VGWILVDADFSPVKKVG 178 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + V++ R G+ Y++L++ I T+G T + + A IL+ + N K V + Sbjct: 179 FRVDNVRVGKKSTYERLTLEIFTNGIKTPDQCMQEAIEILKKHYELLENIFTEKPTVPQK 238 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + V L L +EEL++S R+ N L+ I +GDL++ TE ++ N GRK+L Sbjct: 239 VAVDELA--EKLSLSIEELDISQRALNSLKRIGITTIGDLVRMTEDELKSTKNIGRKALA 296 Query: 305 EIKGVLGTMGLFLGMNLP 322 EIK L +GL LGMN+ Sbjct: 297 EIKEALHKLGLELGMNIE 314 >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 = 281 bits (719), Expect = 1e-73, Method: Composition-based stats. Identities = 117/331 (35%), Positives = 179/331 (54%), Gaps = 22/331 (6%) Query: 8 ELIKPNNIEYIVLGQE-EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E + P ++ +E + + PL RG+A T+GNALRRVL+SS+ AI V+ Sbjct: 3 EFVIPKKLKVEEEREERDYYYSRFSLSPLERGYAITIGNALRRVLLSSIPSLAIVGVRFI 62 Query: 67 G--VLHEISSIKGVHEDLTDIILNIKGINLKMSG--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|157493267|gb|ABV57999.1| RNA polymerase alpha subunit [Vibrio mimicus] Length = 283 Score = 281 bits (719), Expect = 1e-73, Method: Composition-based stats. Identities = 124/285 (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: 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++ + + + F+P LL+ Sbjct: 182 DKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLR 238 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 239 PVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 283 >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 = 281 bits (719), Expect = 1e-73, Method: Composition-based stats. Identities = 111/341 (32%), Positives = 187/341 (54%), Gaps = 21/341 (6%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+++P I + + ++ PL RG+ T+GNALRRVL+SS++GAAI+AV+++G Sbjct: 2 EIMRPE----IQVEECSSTAARLVIGPLERGYGQTIGNALRRVLLSSIKGAAISAVRVEG 57 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 HE ++I G+ ED+ +++LN+K + ++ ++ + + G VTA D Q +DIE Sbjct: 58 AQHEFTTIPGMKEDVIELLLNLKHVPVRSHSAEYRTLKLDVEGGKKVTAADFQEDSDIEF 117 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 ++PD IC L + +E+ + +G GY R P+ + IDA+YSPI +V Y V Sbjct: 118 IDPDAYICTLAEGHSLSLEVYIEQGVGYATVDRPRPSYLPVDALMIDAIYSPILRVKYEV 177 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI--------------- 232 ++ R GQ DY+K+ M + T+G + + +VA A+++L++ + I Sbjct: 178 QNERVGQKTDYEKIVMNVTTNGVVAPDIAVAEAAKLLREYFDIVIQELRKLHPAEPGLFD 237 Query: 233 --NFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 + +P + + P N L K V ELELS+RS NCL I +GDL+ R++ Sbjct: 238 DESASQPSGNGQAGDGADNPPENALLNKPVRELELSIRSENCLLRGGIHTIGDLVSRSKD 297 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 D+L++ N G+ SL EI+ + G+ L + S E+ Sbjct: 298 DLLKIRNLGKISLREIEEKMTKYGIVLSDDKASAENSSKED 338 >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 = 281 bits (719), Expect = 1e-73, Method: Composition-based stats. Identities = 119/309 (38%), 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 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP------ 251 +DKL++ I+TDGSI D+++ A +L+ F+ + ++ ++ + 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|157493255|gb|ABV57993.1| RNA polymerase alpha subunit [Vibrio mimicus] Length = 285 Score = 281 bits (718), Expect = 1e-73, Method: Composition-based stats. Identities = 124/287 (43%), Positives = 189/287 (65%), 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++ + + + F+P LL+ Sbjct: 182 DKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLR 238 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 239 PVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 285 >gi|318042541|ref|ZP_07974497.1| DNA-directed RNA polymerase subunit alpha [Synechococcus sp. CB0101] Length = 312 Score = 281 bits (718), Expect = 2e-73, Method: Composition-based stats. Identities = 101/312 (32%), Positives = 167/312 (53%), Gaps = 14/312 (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 GQVLD-YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF---EEPKKEVKEDINVK 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 ---------IPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIE 296 Query: 309 VLGTMGLFLGMN 320 L +G+ L + Sbjct: 297 ALERIGISLPQS 308 >gi|300089407|gb|ADJ67855.1| RNA polymerase alpha-subunit [Photobacterium jeanii] Length = 270 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 124/273 (45%), Positives = 183/273 (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++ + + + F+P LL+ V++LEL+VRS Sbjct: 181 TLDPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRS 237 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 NCL+ E I Y+GDL+QRTE ++L+ N G+KS Sbjct: 238 ANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKS 270 >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 = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 100/311 (32%), Positives = 168/311 (54%), Gaps = 10/311 (3%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 IE G + + EPL +G TLGNALRR L++ L G AI AV+I GV HE Sbjct: 7 ECIESTREGLRDH-YSKFCLEPLNQGQGTTLGNALRRTLLADLEGTAIVAVRIAGVSHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 S+I G+ ED+ +I+LN+K + LK + + +GP +VT ++ ++IE+++P+ Sbjct: 66 STIPGIREDVLEILLNLKEVVLKSQIGTSGVGRLRVQGPAIVTTNHLELPSEIELIDPNQ 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + ++ ME + G GY + ++ I + +DA++ P+KKV+Y + R Sbjct: 126 YIATICGNNILEMEFRIETGKGYNLVER-DSDESSIDFLQVDAIFMPVKKVNYLSKDIRS 184 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 L ++L++ + T+GSI +D+V+ A +IL + L K D + + Sbjct: 185 ENNLIQEQLTLEVWTNGSIDPQDAVSQAGKILTELLFPLKEI-----NFKPDDSESIIED 239 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 + +EEL+LSVR+ NCL+ I + DL+ ++ D++ + NFG+KS E+ L Sbjct: 240 SKINQILIEELQLSVRAYNCLKRAQIHSVADLLDYSQEDLIEIKNFGQKSAEEVIDAL-- 297 Query: 313 MGLFLGMNLPD 323 LG+NLP Sbjct: 298 -QKRLGINLPK 307 >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 = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 127/278 (45%), Positives = 180/278 (64%), Gaps = 5/278 (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 DL---QGTPVEEVEEKTPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETEL 237 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 L+ N GRKSL EIK VL + GL LG L WPP +E Sbjct: 238 LKTPNLGRKSLNEIKEVLASKGLTLGSKLEAWPPAGLE 275 >gi|58415828|emb|CAH57328.1| RNA polymerase alpha-subunit [Vibrio diazotrophicus] Length = 285 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 124/285 (43%), Positives = 189/285 (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++ + + + F+P LL+ V Sbjct: 184 LVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPV 240 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 241 DDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 285 >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 = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 95/311 (30%), Positives = 164/311 (52%), Gaps = 10/311 (3%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 +E ++ I EPL +G TLGN+LRR ++S L+GAAI AV+I G+ HE Sbjct: 7 ECVESKTESNRQQ-YGRFILEPLNKGQGITLGNSLRRTILSDLQGAAIVAVRIAGINHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 S+I GV ED+ +I+LN+K + LK D+ + I +GP ++T G + +I +++P Sbjct: 66 STITGVREDVLEILLNLKKVVLKSHSDTPQIGRIRLQGPAIITTGLFEVPPEILIIDPQQ 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + + ME + KG GY + I + IDA++ P+ K +YTVE + Sbjct: 126 YIATICNNTIFEMEFRIEKGSGYKLVNKG-FDKKSIDFLQIDAVFMPVTKFNYTVEEKKI 184 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 +L +KL + + T+GS++ +++++ +++L N ++ + Sbjct: 185 SPILIQEKLFLEVWTNGSLSPQEAISEGAQVLHSLFYPLTNLNFQNANNTDNEYEEE--- 241 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +EEL+LSVR+ NCL+ I + DL+ ++ ++L + NFG+KS E+ L Sbjct: 242 --INQVLIEELQLSVRAYNCLKRAQINSISDLLDYSQDELLEIKNFGQKSAEEVIEALQN 299 Query: 313 MGLFLGMNLPD 323 LG+ LP Sbjct: 300 K---LGIRLPK 307 >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 = 280 bits (716), Expect = 2e-73, Method: Composition-based stats. Identities = 115/272 (42%), Positives = 176/272 (64%), Gaps = 4/272 (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 RTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 RT DM+++ N GRKSL E+ L +GL L Sbjct: 241 RTPEDMMKVRNLGRKSLEEVLAKLDELGLSLS 272 >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 = 280 bits (716), Expect = 2e-73, Method: Composition-based stats. Identities = 121/316 (38%), Positives = 173/316 (54%), Gaps = 7/316 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + + P I + + + + EPL RGF T+GNALRRVL+SSL G AITAV+I G Sbjct: 5 DFVMPTKIYWDE-ATKTDTYGKLYVEPLERGFGITIGNALRRVLLSSLPGGAITAVKIMG 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR-VTIFKRGPGVVTAGDIQTVNDIE 126 V HE ++IKGV ED+ +I+LN+K I LK+ + + + G V A DI+ IE Sbjct: 64 VPHEFTTIKGVLEDVVEIVLNLKQIRLKIDENIERDFAILEAENVGKVYAKDIKFPAGIE 123 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 ++ PD IC + ++ME V +G GY + IG I ID +SPI+KV++ Sbjct: 124 LVTPDVHICTISEPTKLQMEFRVERGIGYKTVEELEP-ISEIGWIIIDTAFSPIRKVAFN 182 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK----KEVK 242 VE R G DYDKL + I+TDG+IT ++++ AS IL D + K K+ Sbjct: 183 VEPTRVGDKTDYDKLILEIETDGTITPDEALTKASNILIDHFNILQKPTVKKVQVIKKTV 242 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + + L ++ELE+S R+ N LR I +GDL++ +E D+ + GRKS Sbjct: 243 APKSEEIKIEEDKLSLSIDELEISSRAINTLRKLGINTIGDLVRLSEEDLREAKSIGRKS 302 Query: 303 LVEIKGVLGTMGLFLG 318 L EIK L MGL L Sbjct: 303 LKEIKDALAEMGLELA 318 >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 = 280 bits (716), Expect = 3e-73, Method: Composition-based stats. Identities = 120/316 (37%), Positives = 172/316 (54%), Gaps = 7/316 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + + P I + + + + EPL RGF T+GNALRRVL+SSL G AITAV+I G Sbjct: 5 DFVMPTKIYWDE-ATKTDTYGKLYVEPLERGFGITIGNALRRVLLSSLPGGAITAVKIMG 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR-VTIFKRGPGVVTAGDIQTVNDIE 126 V HE ++IKGV ED+ +I+LN+K I LK+ + + + G V A DI+ IE Sbjct: 64 VPHEFTTIKGVIEDVAEIVLNLKQIRLKIDENIERDFAILEAENVGKVYAKDIKFPAGIE 123 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 ++ PD IC + ++ME V +G GY + IG I ID +SPIK+V++ Sbjct: 124 LVTPDVHICTISEPTKLQMEFRVERGIGYKTVEELEP-ISEIGWIIIDTAFSPIKRVAFN 182 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE R G DYDKL + I+TDG+IT ++++ AS IL D + K +V + Sbjct: 183 VEPTRVGDKTDYDKLILEIETDGTITPDEALTKASNILIDHFNILQKPTVKKVQVIKKTV 242 Query: 247 VKSLPFNPALLKK----VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 K ++ELE+S R+ N LR I +GDL++ +E D+ + GRKS Sbjct: 243 APKPEEIKIEEDKLSLSIDELEISSRAINNLRKLGINTIGDLVRLSEEDLKEAKSIGRKS 302 Query: 303 LVEIKGVLGTMGLFLG 318 + EIK L MGL L Sbjct: 303 IKEIKDALAEMGLELA 318 >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 = 279 bits (715), Expect = 3e-73, Method: Composition-based stats. Identities = 95/332 (28%), Positives = 162/332 (48%), Gaps = 24/332 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ G IT + V Sbjct: 122 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVP 180 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 181 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVD 240 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL R+EL + + GY T++ G IDA+ P++ V+Y++ + Sbjct: 241 TAQPIANLTEPTDFRIELRIKRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFA 297 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G Y+ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 298 CGNG-NAKYEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFT 356 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 357 SPLLSFQKRLTNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 416 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 R+ +F + + K + T+ L M+LP Sbjct: 417 RIDSFR---MQDGKQIWDTLEKHLPMDLPKNK 445 >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 = 279 bits (715), Expect = 3e-73, Method: Composition-based stats. Identities = 120/324 (37%), Positives = 194/324 (59%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT ++IDGV Sbjct: 6 FQKPDKV---LMLEADSRFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIKIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLSLSFGTDISKYK 326 >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 = 279 bits (715), Expect = 3e-73, Method: Composition-based stats. Identities = 105/312 (33%), Positives = 166/312 (53%), Gaps = 14/312 (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 GQVLD-YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF---EEPKKEVKEDINVK 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 ---------IPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIE 296 Query: 309 VLGTMGLFLGMN 320 L +G+ L + Sbjct: 297 ALERIGISLPQS 308 >gi|290489668|gb|ADD31218.1| RNA polymerase alpha subunit protein [Nelumbo nucifera] Length = 339 Score = 279 bits (715), Expect = 3e-73, Method: Composition-based stats. Identities = 83/332 (25%), Positives = 166/332 (50%), Gaps = 26/332 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + + I RGPG VTA DI + +E+++ Sbjct: 72 HEYSTIVGIEESVHEILMNLKEIVLRSNLYGTRDAFICVRGPGYVTAQDIISPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I +L + + L + + GY + +++ G IDA++ P++ ++++ S Sbjct: 132 TTQHIASLTEPIDLCIGLQIERNRGYRMKTPNNSQD---GSYPIDAVFMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L D F++ +E +++++ N + Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLDAQEEDIQLEDNQNKVT 247 Query: 250 LPFNPALLK------------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 LPF + +++ EL R+ NCL+ NI + DL+ ++ D Sbjct: 248 LPFFTFHDRLTKLRKNKKEKEIALKCIFIDQSELPPRTYNCLKRSNIHTLLDLLNNSQED 307 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++M +F + ++K +L + ++LP Sbjct: 308 LMKMFHF---QIEDVKQILDILQKHFAIDLPK 336 >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 = 279 bits (715), Expect = 4e-73, Method: Composition-based stats. Identities = 119/319 (37%), Positives = 185/319 (57%), Gaps = 11/319 (3%) Query: 13 NNIEYIVLGQEEE-NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 N + + + ++ + EPL RG+ TLGN+LRRVL+SSL G AIT+++IDGVLHE Sbjct: 5 NKFKVKTVERSDDGTYGKFVCEPLDRGYGITLGNSLRRVLLSSLDGVAITSIKIDGVLHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGV--VTAGDIQTVNDIEVLN 129 S+I+GV ED+++IILN+K + L+ + D + I 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|254553679|gb|ACT67298.1| RNA polymerase alpha subunit [Joinvillea plicata] Length = 339 Score = 279 bits (714), Expect = 4e-73, Method: Composition-based stats. Identities = 93/330 (28%), Positives = 165/330 (50%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLIKGQADTIGIAMRRALLGEIEGTCITRAKSGKVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI + +E+++ Sbjct: 72 HEYSTIVGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIISPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL + +EL + + GY +++ G IDA+ P++ V+Y++ S Sbjct: 132 TTQHIANLTEPIDLCIELQIKRDRGYHTEPRKNSQD---GSYPIDAVSMPVRNVNYSIYS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 Y+ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNE-NEKYEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEEDTNFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 LP P +++LEL R+ NCL+ NI + DL+ ++E D++ Sbjct: 248 LPLLTFQKRLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRSNIHTLLDLLSKSEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ NF + + K +L T+ L M+LP Sbjct: 308 KIENFR---MEDGKQILDTLQKHLSMDLPK 334 >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 = 279 bits (714), Expect = 4e-73, Method: Composition-based stats. Identities = 95/332 (28%), Positives = 162/332 (48%), Gaps = 24/332 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ G IT + V Sbjct: 122 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVP 180 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 181 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVD 240 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL R+EL + + GY T++ G IDA+ P++ V+Y++ + Sbjct: 241 TAQPIANLTEPTDFRIELRIKRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFA 297 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G Y+ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 298 CGNG-NARYEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFT 356 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 357 SPLLSFQKRLTNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 416 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 R+ +F + + K + T+ L M+LP Sbjct: 417 RIDSFR---MQDGKQIWDTLEKHLPMDLPKNK 445 >gi|290489670|gb|ADD31219.1| RNA polymerase alpha subunit protein [Nerium oleander] Length = 337 Score = 279 bits (713), Expect = 5e-73, Method: Composition-based stats. Identities = 87/331 (26%), Positives = 162/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 DNTQHIASLMEPINLCIGLQIERNRGYLIQT---PQNFQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN-- 246 S G + L + I T+GS+T ++++ ASR L D F++ EE ++ + + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEENSHLENNQHAV 246 Query: 247 --------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +K+ +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 PLFPFIFHDKLTKLIKNKKEIALKSIFIDQLELPPRIYNCLKRSNIYTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F + ++K +L + L + LP Sbjct: 307 MKIEHFR---IEDVKQILVILEKHLAIFLPK 334 >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 = 279 bits (713), Expect = 5e-73, Method: Composition-based stats. Identities = 126/285 (44%), Positives = 188/285 (65%), 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++ + + + F+P LL+ Sbjct: 181 DKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLR 237 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 PVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 282 >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 = 279 bits (713), Expect = 5e-73, Method: Composition-based stats. Identities = 118/309 (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 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF----- 252 +DKL++ I+TDGSI D+++ A +L+ F+ + ++ + + Sbjct: 193 FDKLTLDIETDGSIEIRDALSYAVELLKLHFDPFLELGNKMENLRVEAEEEEENPVSHAK 252 Query: 253 -NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 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|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 = 279 bits (713), Expect = 5e-73, Method: Composition-based stats. Identities = 116/324 (35%), Positives = 190/324 (58%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + + + + PL G+ T+GN+LRRVL+SSL G AIT+++I+GV Sbjct: 6 FQKPDRV---IEVESGDKYGKFEFHPLESGYGITIGNSLRRVLLSSLEGYAITSIKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDI 125 +E + + GV ED+T+IIL +K + K ++RV + 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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SLVE+ +L + L GM++ + Sbjct: 303 SLVELDELLAKLNLTFGMDIEKYK 326 >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 = 279 bits (713), Expect = 5e-73, Method: Composition-based stats. Identities = 112/299 (37%), Positives = 172/299 (57%), Gaps = 5/299 (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 TIDTDGSITGEDSVALASRILQDQLGMFIN--FEEPKKEVKEDINVKSLPFNPALLKKV- 260 + TDGS++ +++ A IL++QL +F +EP + P + A ++ Sbjct: 191 RVWTDGSVSPREALDSAVEILRNQLSVFSGGVIDEPLPVMAIPPRSADEPLSRAEPARIS 250 Query: 261 -EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 E LELS R + L+ E I + L+ +E D+ ++ G KSL EIK L GL+L Sbjct: 251 LESLELSSRVLHSLQEEGIDSVDALLALSERDLKKVGGVGDKSLEEIKERLQAQGLYLK 309 >gi|290489702|gb|ADD31235.1| RNA polymerase alpha subunit protein [Trochodendron aralioides] Length = 337 Score = 279 bits (713), Expect = 6e-73, Method: Composition-based stats. Identities = 86/330 (26%), Positives = 165/330 (50%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 13 LQWKCVES-RADSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + +I RGPG VTA DI + +E+++ Sbjct: 72 HEYSTIVGIEESVQEILLNLKEIVLRSNLYGTLDASICVRGPGYVTAQDIISPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I +L + + L + + GY + +++ G IDA++ P++ S+++ S Sbjct: 132 ATQHIASLTEPIDLCIGLQIERNRGYRMKTPNNSQD---GSYPIDAVFMPVRNASHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L D F++ EE +++++ N S Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEESIKLEDNQNGIS 247 Query: 250 LPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 LPF + +++ EL R+ NCL+ NI + DL+ ++ D++ Sbjct: 248 LPFFAFHDRLANLKKKKKEIAFKCIFIDQSELPPRTYNCLKRSNIYTLLDLLNNSQEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ +F + ++K +L + ++LP Sbjct: 308 KIDHFH---IEDVKQILDILQKHFSIDLPK 334 >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 = 278 bits (712), Expect = 6e-73, Method: Composition-based stats. Identities = 113/327 (34%), Positives = 184/327 (56%), 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 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF-------EEPKKE 240 ++ R GQ DY+++ M +DT+G + + +VA A+R+L+ + + E E Sbjct: 192 QAERVGQRTDYERIVMDVDTNGVVKPDLAVAEAARLLRKYFTIVVEEIQKLHPSEHTDPE 251 Query: 241 VKEDINVK----------SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 + E + N L + 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|297180261|gb|ADI16480.1| DNA-directed RNA polymerase, alpha subunit/40 kd subunit [uncultured bacterium HF4000_05M23] Length = 362 Score = 278 bits (712), Expect = 7e-73, Method: Composition-based stats. Identities = 110/312 (35%), Positives = 180/312 (57%), Gaps = 10/312 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + + EE +AEPL RG+ TLGN +RR L+++L G AIT V+IDG+ HE S++K Sbjct: 26 ITIQENEETYGRFVAEPLERGWGVTLGNPIRRSLLNALSGTAITWVRIDGIHHEYSTVKH 85 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 + E++ + +LN+KGI L+ D R+ + G G V AGDI D E++NP+H + L Sbjct: 86 MREEVVEFLLNVKGIRLRSLADRPGRLRLEVDGEGEVRAGDIMATADFEIVNPEHHLATL 145 Query: 138 D-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 D A + +E V +G GY PA + E PIG++ +DA+++P++K ++ VE+ R GQ Sbjct: 146 DNGGARLSVEFNVEQGVGYEPA--NHEEGLPIGVLPVDAIFTPVRKANFAVEATRVGQRS 203 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D ++L + + TD +IT D+V A +L ++ +F ++P+ + E++ Sbjct: 204 DLERLVVEVWTDRTITPLDAVRAAGNLLMERFFLFKRLDKPQDD--EEVLGVPGVLPEVF 261 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 VE L LS R+ NCL+ I +G+++ + ++L++ NFG+KSL E+ L Sbjct: 262 NTLVETLSLSARTLNCLKRAGINRVGEVLMMPKGELLKIRNFGQKSLDELYDKLAEKNY- 320 Query: 317 LGMNLPDWPPES 328 LP+ PE Sbjct: 321 ----LPEENPEG 328 >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 = 278 bits (712), Expect = 7e-73, Method: Composition-based stats. Identities = 117/331 (35%), Positives = 177/331 (53%), Gaps = 22/331 (6%) Query: 8 ELIKPNNIEYIVL-GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E + P ++ +++ PL RG+A T+GNALRRVL+SS+ AI V+ Sbjct: 3 EFVIPKKLKVEEEREEKDYYYARFSLSPLERGYAITIGNALRRVLLSSIPSLAIVGVRFI 62 Query: 67 G--VLHEISSIKGVHEDLTDIILNIKGINLKMSG--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|161511761|emb|CAP16891.1| DNA-directed RNA polymerase subunit alpha [Pediococcus ethanolidurans] Length = 251 Score = 278 bits (711), Expect = 8e-73, Method: Composition-based stats. Identities = 108/246 (43%), Positives = 162/246 (65%), Gaps = 2/246 (0%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED Sbjct: 6 DENANYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVED 65 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILNIK ++LK+ D K + I +GP VTAGDIQ +D+E+LNPD IC + Sbjct: 66 VTQIILNIKKVSLKIESDDEKSLEINVKGPATVTAGDIQGDSDVEILNPDQYICTVADGV 125 Query: 142 VVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 LT G GYV A ++ ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYD Sbjct: 126 TFHAVLTADTGRGYVSADENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYD 185 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL++ + TDGSI+ ++ +L+++IL + L +F+N + ++ + + + L Sbjct: 186 KLTLDVWTDGSISPSEATSLSAKILTEHLALFVNLTDEAQDAEIMVEKEETHKEKMLEMS 245 Query: 260 VEELEL 265 +EEL+L Sbjct: 246 IEELDL 251 >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 = 278 bits (711), Expect = 8e-73, Method: Composition-based stats. Identities = 117/309 (37%), 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 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF----- 252 +DKL++ I+TDGSI D+++ A +L+ F+ + ++ + + Sbjct: 193 FDKLTLDIETDGSIEIRDALSYAVELLKLHFDPFLELGNKMENLRVEAEEEEENPVSHAK 252 Query: 253 -NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 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|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 = 278 bits (711), Expect = 9e-73, Method: Composition-based stats. Identities = 112/314 (35%), Positives = 171/314 (54%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E I P E + + EPL +G+ T+GNALRRVL+SS+ GAA TAV+ +G Sbjct: 3 EFITP---ERFTWEEHTNTYGRFVVEPLEKGYGVTIGNALRRVLLSSIEGAAPTAVKFEG 59 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 HE +++ GV EDLT+I+LNIK + + G+ + + K+GPG V A D + + +E+ Sbjct: 60 AYHEFTTLPGVVEDLTEIVLNIKKLRFVLHGEGPVFIELKKKGPGKVYAKDFELPSQLEL 119 Query: 128 LNPDHVICNLD-VDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVS 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|297180267|gb|ADI16486.1| DNA-directed RNA polymerase, alpha subunit/40 kd subunit [uncultured bacterium HF4000_05M23] Length = 328 Score = 278 bits (711), Expect = 9e-73, Method: Composition-based stats. Identities = 111/317 (35%), Positives = 175/317 (55%), 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 DIMATADFEIVNPEHHLATLDSAMARLSVEFNVEQGVGYQPA--IQEEGLPIGVLLVDAI 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 + + + VE L LS R+ NCL+ +G+++ +++++++ Sbjct: 239 PVGGEDDKPGIDGVTPE-VFNTLVETLALSARTHNCLKRAGFNRVGEILLLPKSELMKIR 297 Query: 297 NFGRKSLVEIKGVLGTM 313 FG+KSL E+ L Sbjct: 298 GFGQKSLDELYVKLAEK 314 >gi|58758781|gb|AAW81783.1| RNA polymerase alpha subunit [Polytrichastrum pallidisetum] Length = 338 Score = 278 bits (711), Expect = 9e-73, Method: Composition-based stats. Identities = 89/340 (26%), Positives = 158/340 (46%), Gaps = 25/340 (7%) Query: 1 MIQKNWQ---ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRG 57 MIQ + ++ +E V + + P G A+T+G A+RR L+ + G Sbjct: 1 MIQNEISVSAQALQWRCVESKVDSERLH-YSRFAISPFRCGQANTVGIAMRRALLGEIEG 59 Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 IT V HE S+I G+ E + DI++N+K I LK + ++ I GP +TA Sbjct: 60 TCITCAIFKKVTHEYSTIVGIQESVHDILINLKEIVLKSNSSETQKAFISILGPKKITAQ 119 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 DI +++++ I + + +EL + K GY ++ + G IDA++ Sbjct: 120 DIILPPSVKIIDTTQYIATITKPIHLDIELEIEKDCGYRIQDSVKSID---GYFPIDAIF 176 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 PI+ +Y+V S E + L + I T+GSIT ++++ ASR L D F++ E+ Sbjct: 177 MPIRNANYSVHSF-ENNNKIQEILFIEIWTNGSITPKEALYEASRSLIDLFIPFLHPEKK 235 Query: 238 KK--------------EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGD 283 + + K +++LEL R+ NCL+ N + D Sbjct: 236 ETIDRLKYTPNDISDFSSFSPVTGKLTKEITFKHIFIDQLELPARAYNCLKRVNGHTISD 295 Query: 284 LIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 L+ ++ D++++ NFG+KS+ ++ L + +NLP Sbjct: 296 LLNYSQDDLMKIKNFGKKSVEQV---LEALEKQFSINLPK 332 >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 = 278 bits (711), Expect = 9e-73, Method: Composition-based stats. Identities = 113/324 (34%), Positives = 188/324 (58%), Gaps = 10/324 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +PN + + + E + PL G+ T+GNALRRVL+SSL G AIT+++I V Sbjct: 6 FQRPNQVYMV---EATEFKGRFEFAPLEPGYGITIGNALRRVLLSSLEGYAITSLKISEV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTV-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 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEV 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 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL E++ L ++ L G+++ + Sbjct: 303 SLTELEQKLESLNLHFGIDIAKYK 326 >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 = 278 bits (711), Expect = 1e-72, Method: Composition-based stats. Identities = 102/322 (31%), Positives = 175/322 (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 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI---------NFEEPKKEVKEDINV- 247 Y+K+ M I ++G I + +VA A+++L++ + + + E V+ + Sbjct: 185 YEKVVMDIYSNGVIAPDMAVAEAAKLLREYFSIVVKEILKRYPASAEMAASPVEMEQEQP 244 Query: 248 ---------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 N L 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|225544155|ref|YP_002720144.1| rpoA [Jatropha curcas] gi|224979596|gb|ACN72723.1| rpoA [Jatropha curcas] Length = 339 Score = 278 bits (711), Expect = 1e-72, Method: Composition-based stats. Identities = 83/334 (24%), 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 + ++ G IDA++ P++ ++ Sbjct: 128 EIIDNTQHIASLTESIDLCIGLQIERNRGYRIKPTNNFQD---GSYPIDAVFMPVRNANH 184 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 +V S G + L + I T+GS+T ++++ ASR L D F++ EE ++ + Sbjct: 185 SVHSYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLEINQ 243 Query: 246 NVKSLP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 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|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 = 278 bits (711), Expect = 1e-72, 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 ITAVQIDG--VLHEISSIKGVHEDLTDIILNIKGINLKMSG--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|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 = 278 bits (710), Expect = 1e-72, Method: Composition-based stats. Identities = 112/294 (38%), Positives = 163/294 (55%), Gaps = 3/294 (1%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ +II Sbjct: 20 YGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDVVEII 79 Query: 87 LNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 LN+K + ++ + + GP VV AGD D E+LNPD I LD + Sbjct: 80 LNLKELVVRFLDPKMQTTTLVLKAEGPKVVRAGDFVVPPDAEILNPDLTIATLDKGGKLY 139 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 ME+ V +G GYVPA+ H ++ I I +DA++SP+++V++ VE R GQ D DKL++ Sbjct: 140 MEVRVDRGVGYVPAERHGIKDR-INSIPVDAIFSPVRRVAFQVEDTRLGQRTDLDKLTLR 198 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 I TDGS+T +++ A IL++ L F N + E +V+ L +EEL Sbjct: 199 IWTDGSVTPLEALNQAVEILKEHLSYFANPQATALPAPEPASVERAEGEEDLDLPLEELG 258 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 LS R + L+ E I + L+ D+ + G +SL EI+ L G L Sbjct: 259 LSTRVLHSLKEEGIESVRALLALNLKDLKNIPGIGERSLEEIREALAKKGFALK 312 >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 = 278 bits (710), Expect = 1e-72, Method: Composition-based stats. Identities = 109/316 (34%), Positives = 175/316 (55%), Gaps = 2/316 (0%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L PN ++Y PL G+ T+GN LRR+L+SS++GAA+ V+I+G+ Sbjct: 7 LQMPNEVDYDKAS-YSRTYGKFEIGPLEPGYGTTIGNTLRRILLSSIQGAAVRFVRIEGL 65 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE I G + D D+IL +K + + S + + +G GV+TA IQ ++++ Sbjct: 66 HHEFCPIPGTNSDYIDLILRLKQLVISSSSVEEVPLVLEHKGKGVITASMIQETAYVKII 125 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 N D + + D R+E+ V G GYV A E +G I +D++YSP+ KV+++V Sbjct: 126 NKDLYLLEVVDDIDFRLEMIVGIGRGYVSADRQNPEGKAVGFIPVDSIYSPVLKVNFSVS 185 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EPKKEVKEDINV 247 R + +++D+L M I T+G++ ++ LA++IL+D FE EP+ +++ Sbjct: 186 HQRVKERMNFDRLIMEIYTNGAVEPSIALFLAAKILKDMAAKISLFEIEPQYIRDIELDP 245 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L V+E+ELSVR+ NCL I +GDL+ +TEA+ML+ NFG+KSL EI Sbjct: 246 ELEEKERILKTSVKEIELSVRAANCLAQAKIETIGDLVSKTEAEMLKFRNFGKKSLEEIV 305 Query: 308 GVLGTMGLFLGMNLPD 323 L L LGM++ Sbjct: 306 QKLKKYDLHLGMDVEG 321 >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 = 277 bits (709), Expect = 1e-72, Method: Composition-based stats. Identities = 125/332 (37%), Positives = 188/332 (56%), 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 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKHH-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 + +P L++ V++LEL+VRS NCL+ E+I+Y+GDL+QRTE ++L+ N G Sbjct: 238 --RSMAPAAPPMPDPVLMQLVDDLELTVRSANCLKAESIIYIGDLVQRTEVELLKTPNLG 295 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +KSL EIK VL GL LGM L +WPP ++ Sbjct: 296 KKSLTEIKDVLAQRGLSLGMRLTNWPPPNLRS 327 >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 = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 117/331 (35%), Positives = 178/331 (53%), Gaps = 22/331 (6%) Query: 8 ELIKPNNIEYIVL-GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E + P ++ +++ + PL RG+A T+GNALRRVL+SS+ AI V+ Sbjct: 3 EFVIPKKLKVEEEREEKDYHYARFSLSPLERGYAITIGNALRRVLLSSIPSLAIIGVRFI 62 Query: 67 G--VLHEISSIKGVHEDLTDIILNIKGINLKMSG--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|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 = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 84/330 (25%), Positives = 159/330 (48%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + I PL +G A T+G A+RR L+ + G IT + + V Sbjct: 13 LQWKCVES-RADSKRLYYGRFILSPLLKGQADTIGIAMRRALLGEIEGTCITRAKSEKVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + + +I RGP VTA DI + +EV++ Sbjct: 72 HEYSTIAGIEESVHEILMNLKEIVLRSNLYGTRDASICVRGPRCVTAQDIISPPSVEVVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I +L + + L + + GY +++ G IDA+ P++ ++++ S Sbjct: 132 TTQHIASLTEPIDLCIGLQIQRDRGYRMKTTKNSQD---GSYPIDAVSMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 YGNG-NQKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEEDINFEENQNRFT 247 Query: 250 LPFN----------------PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 +P +++ EL R+ NCL+ NI + DL+ ++ D++ Sbjct: 248 VPPFTFPDRLANLKKNKKEIALKCIFIDQSELPPRTYNCLKRSNIHTLLDLLSNSQEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ F + ++K +L T+ ++LP Sbjct: 308 KIEYFR---IEDVKQILDTLQKHFAIDLPK 334 >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 = 277 bits (709), Expect = 2e-72, 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|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 = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 116/304 (38%), Positives = 178/304 (58%), Gaps = 4/304 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 +E EPL RG+ +T+GNALRR+L+SS+ G+AI ++IDGVL+E S+I GV Sbjct: 14 TEEKESRYTAKYTLEPLYRGYGNTIGNALRRILLSSIPGSAIKGLRIDGVLNEFSTIPGV 73 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E +TDIILN+K I +++ K++ + +GP V+TA DI+ I+++NP+ VI + Sbjct: 74 KEAVTDIILNVKEIVVELDEPGEKKMVLSVKGPKVITAADIKPDPGIKIINPEQVIATVT 133 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + ME V G G+V + TE PIG + +DA+Y+PIK+V+Y+VE G+V +Y Sbjct: 134 TDKEINMEFLVDSGEGFVVSDEIDTEGWPIGYLAVDAIYTPIKRVTYSVEDTMVGRVTNY 193 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK----EVKEDINVKSLPFNP 254 DKL + I TDGSI D+++ A +L + F N E+ ++ S + Sbjct: 194 DKLILEISTDGSIEIHDALSYAVELLILHVKPFTNIGNSMSKFRGNEDENSSLNSETESN 253 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 K+EEL+ +VRS NCL+ + + DL T ++L++ N GRKSL EI + +G Sbjct: 254 IEDMKIEELDFTVRSYNCLKKAGVNTISDLTSMTYVELLKIKNLGRKSLNEIIDKMKELG 313 Query: 315 LFLG 318 L Sbjct: 314 YDLS 317 >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 = 277 bits (708), Expect = 2e-72, Method: Composition-based stats. Identities = 83/333 (24%), Positives = 159/333 (47%), Gaps = 27/333 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 ++ G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDLCIGLQIKRNRGYLIKMPHNFQD---GSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV- 247 S G + L + I T+GS+T ++++ A R L D F++ EE ++++ + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEACRNLIDLFIPFLHKEEENLPLEDNQHTV 246 Query: 248 ---------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 K+ +++ E S R NCL+ NI + DL+ + D+ Sbjct: 247 PLSPLTFHDKLDKLRKNKKKIALKSIFIDQSEFSPRVYNCLKRSNIYTLLDLLNNSPEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 +++ + L +IK +L + ++LP Sbjct: 307 MKIEHLR---LEDIKQILVILEKHFAIDLPKKK 336 >gi|110589176|gb|ABG77097.1| DNA-directed RNA polymerase alpha subunit [Endoriftia persephone 'Hot96_1+Hot96_2'] Length = 303 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: 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 RRVAYSIESARVEQRTNMDRLVIELQTDGTIDPEEAIRRSAGILRDQLSVFVDLEG-GGA 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|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 = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 119/315 (37%), Positives = 187/315 (59%), Gaps = 10/315 (3%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KP +E I L E++ PL +G A LGN+LRR+L+SS+ GAAI+ V+++ V H Sbjct: 6 KPE-LEVIELS-EDKRFGRFSCAPLVKGEATVLGNSLRRILLSSMPGAAISEVKVESVYH 63 Query: 71 EISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 E SSI GV ED+++II+N+K + ++ S D I G GV+ A DI+ ++IE++ Sbjct: 64 EFSSIAGVKEDVSEIIMNLKKLAVRNTSSSDEAVMAYIDYAGEGVIRAADIRVSSEIEIV 123 Query: 129 NPDHVICNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 NP+ VI L DA + ME+ ++KG GY A PIG+I +DA+Y+P+ KV+ +V Sbjct: 124 NPEQVIATLSGKDAKLYMEMKITKGRGYDGANTRDHSELPIGVIAVDAVYTPVTKVNVSV 183 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 + ++L + + T+G++ +D+V+LA++I+Q L +FI+ + KE N Sbjct: 184 KDLGRS-----ERLVLDVMTNGTLAPDDAVSLAAKIMQTHLQLFIDMDNTVKEPFLPGNT 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + K ++ELELSVRS NCL+ I + DL ++T D++++ N GRKSL EI Sbjct: 239 AVEDVQDEMNKSIDELELSVRSYNCLKRAGINTVEDLCEKTMDDLMKVRNMGRKSLDEIL 298 Query: 308 GVLGTMGLFLGMNLP 322 L +MGL L + Sbjct: 299 NKLESMGLSLASKVE 313 >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 = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 101/311 (32%), Positives = 162/311 (52%), Gaps = 10/311 (3%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 IE + + + PL G T+GN RRVL+ L GA IT+VQI GV HE Sbjct: 12 ECIESRIESRRNH-YGRFVIAPLEIGQGITVGNVFRRVLLGDLEGACITSVQIPGVNHEF 70 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 S+I GV E + DI+LN+K I LK +R + +GP V A D+Q + IE+++PD Sbjct: 71 STIHGVREAVLDILLNLKEIVLKTQSQETQRGHLSVQGPSTVLARDLQLPSSIELVDPDQ 130 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + ME TV G GY + + + + ++ IDA++ P+ KV+YTVE Sbjct: 131 YIATISGRVSLNMEFTVEVGKGYQLPDYEKKKTFQVDVLPIDAVFMPVTKVNYTVEENYG 190 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 G +++ + + T+GSI ++ L+ + + N + ++ + VK Sbjct: 191 GDRS-QERVIIEVWTNGSINSRQAIDLSVNKIINLFSPLQNV----RSIEHEPLVKEKD- 244 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 + VEEL+LSVR+ NCL+ I + DL+ ++ D+L + NFGR+S E+ + Sbjct: 245 SKMTEVLVEELDLSVRAYNCLKRAQIHTVSDLLSYSQEDLLEIKNFGRRSAEEV---IEG 301 Query: 313 MGLFLGMNLPD 323 + LG++LP Sbjct: 302 LQKRLGIHLPK 312 >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 = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 116/310 (37%), Positives = 172/310 (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 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---------- 253 I TDGS + ++ +A L+D+L +F N E + E LP Sbjct: 192 RIWTDGSADPQSALDMAVDTLRDELSVFGNVETIQAETVVTPAAYDLPQPSALSINPQPY 251 Query: 254 ----PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 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|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 = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 82/333 (24%), Positives = 160/333 (48%), Gaps = 27/333 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV- 247 S G + L + I T+GS+T ++++ ASR L D F++ EE +++ + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEENLHLEDGEHTI 246 Query: 248 ---------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 K+ +++LE + NCL+ NI + DL+ +++ D+ Sbjct: 247 PLSPLSFHDKVAKLRKNKKKLALKSIFIDQLEFPPKIYNCLKKSNISTLLDLLNKSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 +++ +F + ++K +LG + ++LP Sbjct: 307 MKIEHFH---IEDVKQILGILEKHFAIDLPKNQ 336 >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 = 276 bits (706), Expect = 3e-72, Method: Composition-based stats. Identities = 124/366 (33%), Positives = 195/366 (53%), Gaps = 28/366 (7%) Query: 2 IQKNWQELIK-----PNNIEYIVLGQ-EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSL 55 + +N Q L+ P +++ + + + +AEPL +G HTLGNALRR L+ L Sbjct: 1 MSENLQNLLYDKFELPESVKMLSMEGFSTDTHARFVAEPLEKGMGHTLGNALRRALLIGL 60 Query: 56 RGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLK---MSGDSHKRVTIF----- 107 AI + + GVLHE +I+G+ ED+T+IILN+K LK M G R T Sbjct: 61 EAPAIISFSMTGVLHEYMAIEGIIEDVTNIILNLKSALLKKHPMQGSEEGRSTQLLKSSI 120 Query: 108 ---------KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 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 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK---KVEELELSVRSTNCLRG 275 +++IL +F +E + +E ++++ + L K + E+ELSVRSTNCL Sbjct: 241 FSTQILTKHFSIFEKMDEKRIVFEEAVSIEKENKDDILHKLILGINEIELSVRSTNCLSN 300 Query: 276 ENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW--PPESIEELA 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|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 = 276 bits (706), Expect = 3e-72, Method: Composition-based stats. Identities = 104/306 (33%), Positives = 162/306 (52%), 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 GQVLD-YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 G+ ++L + I+T+GSIT ED++A A+ L N ++ + Sbjct: 186 GEGGSARERLRLEIETNGSITPEDAMAEAANQLISMFQPLANLTMVEEP------IPEPE 239 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 240 PPTEAQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLFL 317 +GL L Sbjct: 300 RIGLSL 305 >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 = 276 bits (706), Expect = 3e-72, Method: Composition-based stats. Identities = 116/310 (37%), Positives = 187/310 (60%), Gaps = 6/310 (1%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 +I +E E + + EPL RG+ HTLGNALRRVL+SS+ GAAI ++I+GVL E S + Sbjct: 12 HITEVRESEFKGQFVVEPLYRGYGHTLGNALRRVLLSSIPGAAIKGIRIEGVLSEFSVMD 71 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV E +T+IILN+K I +K +++T+ +GP VVTA DI +E++NPD IC Sbjct: 72 GVKEAVTEIILNVKEIVVKSETAGERKMTLSVKGPKVVTAADIIPDIGLEIINPDQEICT 131 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + D + +E V G G+V ++ + + I +DA+Y+PI+KVSY ++ G++ Sbjct: 132 ITTDRELDIEFLVDTGEGFVVSEEIERDGWAVDYIAVDAIYTPIRKVSYDIQDTMVGRMT 191 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV------KSL 250 D+DKL+++++TDGSI D+++ A +L+ L F+ + ++ ++ S+ Sbjct: 192 DFDKLTLSVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRVEVEEEVENQSSSI 251 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + L K+EEL+L+VRS NCL+ I +G L + + ++L++ N GRKSL EI + Sbjct: 252 KDDINLNIKIEELDLTVRSFNCLKKAGIEEVGQLSKLSMNELLKIKNLGRKSLDEILEKM 311 Query: 311 GTMGLFLGMN 320 +G L N Sbjct: 312 KELGYDLAQN 321 >gi|34849417|gb|AAP58916.1| DNA-directed RNA polymerase alpha subunit [Spiroplasma kunkelii CR2-3x] Length = 317 Score = 276 bits (706), Expect = 3e-72, Method: Composition-based stats. Identities = 107/317 (33%), Positives = 173/317 (54%), Gaps = 8/317 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 ++ I+P + + N + EPL RGF TLGNA+RR L+S+ GAA+ AV+I Sbjct: 1 MKQFIRPEF--KLQAEDKANNYGKFLVEPLERGFGVTLGNAIRRTLLSATPGAAVFAVRI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-----SHKRVTIFKRGPGVVTAGDIQ 120 G HE ++I GV E +T IILNIK + LK++ D + +F G + A D+ Sbjct: 59 KGSSHEFTAIPGVVEHVTKIILNIKNLVLKINQDIIPDGESVILKVFSSKEGEIYARDLV 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +EV+N D ++ + + +EL GY ++ E LI ID+ Y PI Sbjct: 119 VPTGVEVINGDLLLATIAKGGELDLELHARNSRGYKSFTDNKKEKKYADLIVIDSNYCPI 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++V+Y VE + G+ D +KL + I TD SIT ++VA+A++++ + L F+N E K Sbjct: 179 QRVAYNVEPTKVGKNADLEKLELEIQTDSSITPVNAVAMAAKVITEHLEFFVNLNEAIKA 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + I+ ++ L + ++ELE + RS NCL+ I + DL+ ++E ++ + N G+ Sbjct: 239 TQI-ISSEAEAEEDELDRSIDELEFTQRSQNCLKRAKIDTLRDLVSKSEDEIQEIRNLGK 297 Query: 301 KSLVEIKGVLGTMGLFL 317 KSL EIK + +GL Sbjct: 298 KSLTEIKDKVAQLGLHF 314 >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 = 276 bits (706), Expect = 3e-72, Method: Composition-based stats. Identities = 123/281 (43%), Positives = 184/281 (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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 FVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEV 237 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 ++L+ N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 238 ELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 278 >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 = 276 bits (706), Expect = 4e-72, Method: Composition-based stats. Identities = 101/305 (33%), Positives = 165/305 (54%), 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++ + P Sbjct: 186 AEGGSARERLRMEIVTDGSITPDEALAQSANQLIELFQPLATVT-----LVEEVPAEPEP 240 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 A + +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 241 SAEAQI-PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >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 = 276 bits (705), Expect = 4e-72, Method: Composition-based stats. Identities = 126/274 (45%), Positives = 185/274 (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++ + + + F+P LL+ V++LEL+V Sbjct: 181 NGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTV 237 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 RS NCL+ E I Y+GDL+QRTE ++L+ N G+K Sbjct: 238 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKK 271 >gi|308522652|dbj|BAJ22937.1| RNA polymerase alpha subunit [Aliivibrio sp. LC2-088] Length = 271 Score = 276 bits (705), Expect = 4e-72, Method: Composition-based stats. Identities = 126/274 (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 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++ + + + F+P LL+ V++LEL+V Sbjct: 181 NGTLDPEEAIRRAATILAEQLDVFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTV 237 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 RS NCL+ E I Y+GDL+QRTE ++L+ N G+K Sbjct: 238 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKK 271 >gi|157493285|gb|ABV58008.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 272 Score = 276 bits (705), Expect = 4e-72, Method: Composition-based stats. Identities = 123/275 (44%), Positives = 187/275 (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++ + + + F+P LL+ V++LEL+VR Sbjct: 181 GTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVR 237 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 272 >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 = 276 bits (705), Expect = 5e-72, Method: Composition-based stats. Identities = 84/331 (25%), Positives = 160/331 (48%), Gaps = 25/331 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + + P G A T+G A+RR L+ + G IT + V Sbjct: 13 LQWRCVES-RVDSARLHYSRFAISPFRSGQASTVGIAMRRALLGEVEGTCITCAEFKRVT 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + D+++N+ I L+ ++ I GP VTA DI +++++ Sbjct: 72 HEYSTILGIQESVHDVLINLGEIVLRSDSYETQKAFISILGPKKVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I + + +EL + K GY ++ + G +DA++ PI+ V+Y+V S Sbjct: 132 TTQYIATVTKAIHLDIELKIEKDFGYRIEDPIKSAD---GNFPVDAVFMPIRNVNYSVHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP------KKEVKE 243 G + L + I T+GS+T ++++ ASR L + F++ E+ K + Sbjct: 189 FENGNET-QEILFLEIWTNGSVTPKEALYEASRSLINLFIPFLHAEKKEFIYGLKNTYES 247 Query: 244 DINVKSLPFNPALLKK-----------VEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +++ S P A + + +++LEL R+ NCL+ N + DL+ ++ D+ Sbjct: 248 NMSYFSSPSLSADIDEMTKGVTFKHIFIDQLELPARAYNCLKRVNAHTISDLLNYSQDDL 307 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ NFG+KS+ ++ L + +NLP Sbjct: 308 MKIKNFGKKSVEQV---LEALQKRFSINLPK 335 >gi|260656834|gb|ACX47807.1| RNA polymerase alpha-subunit [Vibrio litoralis] Length = 276 Score = 276 bits (705), Expect = 5e-72, Method: Composition-based stats. Identities = 127/279 (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 LKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-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++ + + + F+P LL+ V++LEL+VR Sbjct: 181 GTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVR 237 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK Sbjct: 238 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIK 276 >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 = 276 bits (705), Expect = 5e-72, Method: Composition-based stats. Identities = 127/366 (34%), Positives = 195/366 (53%), Gaps = 28/366 (7%) Query: 2 IQKNWQELIK-----PNNIEYIVLGQEE-ENRTLMIAEPLPRGFAHTLGNALRRVLMSSL 55 + N L+ P ++ + + + IAEPL RG HTLGNALRR L+ L Sbjct: 1 MSDNAHNLLYDKFELPEAVKMLPVEGLPIDKHARFIAEPLERGMGHTLGNALRRALLIGL 60 Query: 56 RGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-------GDSHKRVTIFK 108 AI + + GVLHE +I+GV ED+T+IILN+KG LK G + + + Sbjct: 61 EAPAIISFAMTGVLHEYMAIEGVIEDVTNIILNLKGALLKKYPMQDSSLGRTTQVLKASI 120 Query: 109 ----------RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 G VT D+ D E +NPD VI + + + L ++ G GY P+ Sbjct: 121 SIDASDLAAANGQKEVTLQDLLQEGDFEAVNPDQVIFTVTQPIQLEVVLRIAFGRGYTPS 180 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 + E+ + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG +T ++++A Sbjct: 181 ERIVLEDKGVYEIVLDAAFSPVTLVNYFVEDTRVGQDTDFDRLVLIVETDGRVTPKEALA 240 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK---KVEELELSVRSTNCLRG 275 +++IL +F N +E K +E I+++ + L K + E+ELSVRSTNCL Sbjct: 241 FSTQILTKHFSIFENMDEKKIVFEEAISIEKENKDDILHKLILGINEIELSVRSTNCLSN 300 Query: 276 ENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELA 333 NI +G+L+ E +L+ NFG+KSL EIK L M L LGM+L + ++++E Sbjct: 301 ANIETIGELVIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLTQFGVGLDNVKEKM 360 Query: 334 KKYEDK 339 K Y +K Sbjct: 361 KWYAEK 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 = 275 bits (704), Expect = 5e-72, Method: Composition-based stats. Identities = 127/366 (34%), Positives = 195/366 (53%), Gaps = 28/366 (7%) Query: 2 IQKNWQELIK-----PNNIEYIVLGQEE-ENRTLMIAEPLPRGFAHTLGNALRRVLMSSL 55 + N L+ P ++ + + + IAEPL RG HTLGNALRR L+ L Sbjct: 18 MSDNAHNLLYDKFELPEAVKMLPVEGLPIDKHARFIAEPLERGMGHTLGNALRRALLIGL 77 Query: 56 RGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-------GDSHKRVTIFK 108 AI + + GVLHE +I+GV ED+T+IILN+KG LK G + + + Sbjct: 78 EAPAIISFAMTGVLHEYMAIEGVIEDVTNIILNLKGALLKKYPMQDSSLGRTTQVLKASI 137 Query: 109 ----------RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 G VT D+ D E +NPD VI + + + L ++ G GY P+ Sbjct: 138 SIDASDLAAANGQKEVTLQDLLQEGDFEAVNPDQVIFTVTQPIQLEVVLRIAFGRGYTPS 197 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 + E+ + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG +T ++++A Sbjct: 198 ERIVLEDKGVYEIVLDAAFSPVTLVNYFVEDTRVGQDTDFDRLVLIVETDGRVTPKEALA 257 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK---KVEELELSVRSTNCLRG 275 +++IL +F N +E K +E I+++ + L K + E+ELSVRSTNCL Sbjct: 258 FSTQILTKHFSIFENMDEKKIVFEEAISIEKENKDDILHKLILGINEIELSVRSTNCLSN 317 Query: 276 ENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELA 333 NI +G+L+ E +L+ NFG+KSL EIK L M L LGM+L + ++++E Sbjct: 318 ANIETIGELVIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLTQFGVGLDNVKEKM 377 Query: 334 KKYEDK 339 K Y +K Sbjct: 378 KWYAEK 383 >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 = 275 bits (704), Expect = 5e-72, Method: Composition-based stats. Identities = 124/357 (34%), Positives = 191/357 (53%), Gaps = 25/357 (7%) Query: 8 ELIKPNNIEYIVL---GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + P +++ + + G + + IAEPL RG HTLGNALRR L+ L AI + Sbjct: 12 KFELPESVKMMAVEGSGGSVDKQASFIAEPLERGMGHTLGNALRRALLIGLEAPAIISFS 71 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMS---GDSHKRVTIFKRGP---------- 111 + GVLHE +I G+ ED+T+IILN+KG LK + R T + Sbjct: 72 MTGVLHEYMAINGIIEDVTNIILNLKGALLKKYPFQDSENGRCTQLLKSKVSIDASDLAA 131 Query: 112 ----GVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 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 LGMFINFEEPKKEVKEDINVKSLPFNPALLK---KVEELELSVRSTNCLRGENIVYMGDL 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|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 = 275 bits (704), Expect = 5e-72, Method: Composition-based stats. Identities = 84/330 (25%), Positives = 159/330 (48%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + I PL +G A T+G A+RR L+ + G IT + + V Sbjct: 13 LQWKCVES-RADSKRLYYGRFILSPLLKGQADTIGIAMRRALLGEIEGTCITRAKSEKVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + + +I RGP VTA DI + +EV++ Sbjct: 72 HEYSTIAGIEESVHEILMNLKEIVLRSNLYGTRDASICVRGPRCVTAQDIISPPSVEVVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I +L + + L + + GY +++ G IDA+ P++ ++++ S Sbjct: 132 TTQHIASLTEPIDLCIGLQIQRDRGYRMKTTKNSQD---GSYPIDAVSMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 YGNG-NQKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEEDINFEENQNRFT 247 Query: 250 LPFN----------------PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 +P +++ EL R+ NCL+ NI + DL+ ++ D++ Sbjct: 248 VPPFTFPDRLANLKKNKKEIALKCIFIDQSELPPRTYNCLKRSNIHTLLDLLSNSQEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ F + ++K +L T+ ++LP Sbjct: 308 KIEYFR---IEDVKQILDTLRKHFAIDLPK 334 >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 = 275 bits (704), Expect = 6e-72, Method: Composition-based stats. Identities = 120/352 (34%), Positives = 194/352 (55%), Gaps = 13/352 (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-----DGVLHEISS----IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK-R 109 IT+V+I DGV H ISS I V ED +I+ N+K I L + + + F+ + 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 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE-DKC 340 + N G+KSL EI+G L L LGM ++ + + +K E D+ Sbjct: 300 QTLASTRNVGKKSLSEIQGKLQEYNLRLGMTDYSHLKDTNKLVRQKEETDEA 351 >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 (704), Expect = 6e-72, Method: Composition-based stats. Identities = 123/345 (35%), Positives = 184/345 (53%), Gaps = 22/345 (6%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 G + + IAEPL RG HTLGNALRR L+ L AI + + GVLHE +I Sbjct: 4 VEGSGGSVDKQASFIAEPLERGMGHTLGNALRRALLIGLEAPAIISFSMTGVLHEYMAIN 63 Query: 77 GVHEDLTDIILNIKGINLKMS---GDSHKRVTIFKRGP--------------GVVTAGDI 119 G+ ED+T+IILN+KG LK + R T + VT D+ Sbjct: 64 GIIEDVTNIILNLKGALLKKYPFQDSENGRCTQLLKSKVSIDASDLAACGGQKAVTLADL 123 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 E +NPDHVI + + + L V+ G GY ++ E+ + I +DA +SP Sbjct: 124 LQEGGFESVNPDHVIFTVTQPMQLDITLRVAFGRGYTTSERIVLEDKGVNEIVLDAAFSP 183 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + V+Y VE R GQ D+D+L + ++TDG ++ ++++A +++IL +F +E K Sbjct: 184 VVLVNYFVEDTRVGQDTDFDRLILHVETDGRVSPKEALAFSTQILTKHFSIFEKMDEKKI 243 Query: 240 EVKEDINVKSLPFNPALLK---KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 +E I+++ + L K + E+ELSVRSTNCL NI +G+L+ E +L+ Sbjct: 244 VFEEAISIEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIGELVIMPEPRLLQFR 303 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 NFG+KSL EIK L M L LGM+L + ++++E K Y DK Sbjct: 304 NFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYADK 348 >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 = 275 bits (704), Expect = 6e-72, Method: Composition-based stats. Identities = 106/315 (33%), Positives = 184/315 (58%), Gaps = 9/315 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN +V E+E + EPL RG+ TLGN+L+R+++S+L G+A++A +I+G Sbjct: 3 DFEKPNI--RVVEISEDERFGRFVCEPLERGYGTTLGNSLKRIMLSALPGSALSAAKIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQT---V 122 + S+ GV E L+++I+N+K + ++ + 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 TEFVIANEEQSIATLTGEEALRIELLLSRGRGYVSAEE--QEELPEGMFALDSSYTPVER 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|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 = 275 bits (704), Expect = 6e-72, Method: Composition-based stats. Identities = 127/366 (34%), Positives = 195/366 (53%), Gaps = 28/366 (7%) Query: 2 IQKNWQELIK-----PNNIEYIVLGQEE-ENRTLMIAEPLPRGFAHTLGNALRRVLMSSL 55 + N L+ P ++ + + + IAEPL RG HTLGNALRR L+ L Sbjct: 1 MSDNAHNLLYDKFELPEAVKMLPVEGLPIDKHARFIAEPLERGMGHTLGNALRRALLIGL 60 Query: 56 RGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-------GDSHKRVTIFK 108 AI + + GVLHE +I+GV ED+T+IILN+KG LK G + + + Sbjct: 61 EAPAIISFAMTGVLHEYMAIEGVIEDVTNIILNLKGALLKKYPMQDSSLGRTTQVLKASI 120 Query: 109 ----------RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 G VT D+ D E +NPD VI + + + L ++ G GY P+ Sbjct: 121 SIDASDLAAANGQKEVTLQDLLQEGDFEAVNPDQVIFTVTQPIQLEVVLRIAFGRGYTPS 180 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 + E+ + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG +T ++++A Sbjct: 181 ERIVLEDKGVYEIVLDAAFSPVTLVNYFVEDTRVGQDTDFDRLVLIVETDGRVTPKEALA 240 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK---KVEELELSVRSTNCLRG 275 +++IL +F N +E K +E I+++ + L K + E+ELSVRSTNCL Sbjct: 241 FSTQILTKHFSIFENMDEKKIVFEEAISIEKENKDDILHKLILGINEIELSVRSTNCLSN 300 Query: 276 ENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELA 333 NI +G+L+ E +L+ NFG+KSL EIK L M L LGM+L + ++++E Sbjct: 301 ANIETIGELVIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLTQFGVGLDNVKEKM 360 Query: 334 KKYEDK 339 K Y +K Sbjct: 361 KWYAEK 366 >gi|290489654|gb|ADD31211.1| RNA polymerase alpha subunit protein [Antirrhinum majus] Length = 336 Score = 275 bits (704), Expect = 6e-72, Method: Composition-based stats. Identities = 84/332 (25%), Positives = 163/332 (49%), Gaps = 26/332 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 ++ G +IDA++ P++ V++++ Sbjct: 131 DNTQHIASLTEPINFCIGLEIERNRGYLIKMPHNFQD---GSYSIDAVFMPVRNVNHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV- 247 S G + L + I T+GS+T ++++ ASR L D F++ EE + ++ + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHKEEENLPLDDNQHTI 246 Query: 248 --------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 + +++ ELS R+ NCL+ NI + DL+ ++ D++ Sbjct: 247 PLSPFSFHDKLDKLRKNKKIALKSIFIDQSELSPRAYNCLKRSNIYTLFDLLNNSQEDLM 306 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 ++ +F L ++K +LG + ++LP Sbjct: 307 KIEHFR---LKDVKEILGILEKHFAIDLPKKK 335 >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 = 275 bits (703), Expect = 7e-72, Method: Composition-based stats. Identities = 102/305 (33%), Positives = 166/305 (54%), 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++ + P Sbjct: 186 AEGGSARERLRMEIVTDGSITPDDALAQSANQLIELFQPLATVT-----LVEEVPAEPEP 240 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 A + +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 241 SAEAQI-PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >gi|332144686|dbj|BAK19503.1| RNA polymerase alpha subunit [Lactobacillus camelliae] Length = 228 Score = 275 bits (703), Expect = 7e-72, Method: Composition-based stats. Identities = 103/226 (45%), Positives = 149/226 (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 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 SI+ ++++LA++IL + L +F+N + K + + + Sbjct: 181 SISPREAISLAAKILTEHLDIFVNLTDSAKNAEIMVEKEETHKEKM 226 >gi|58416042|emb|CAH57435.1| RNA polymerase alpha-subunit [Vibrio sp. R-21432] Length = 287 Score = 275 bits (703), Expect = 7e-72, Method: Composition-based stats. Identities = 123/293 (41%), Positives = 188/293 (64%), Gaps = 11/293 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQVST---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 AYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 236 -EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 287 >gi|290489690|gb|ADD31229.1| RNA polymerase alpha subunit protein [Heuchera sanguinea] Length = 337 Score = 275 bits (703), Expect = 8e-72, Method: Composition-based stats. Identities = 80/331 (24%), Positives = 162/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 + ++ G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDLCIGLQIEKNRGYRIKTPNNFQD---GSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLEDNQHKV 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 MKIEHFR---IEDVKEILGFLEKHFEIDLPK 334 >gi|110004254|emb|CAK98592.1| probable dna-directed rna polymerase alpha chain protein [Spiroplasma citri] Length = 317 Score = 275 bits (703), Expect = 8e-72, Method: Composition-based stats. Identities = 106/317 (33%), Positives = 172/317 (54%), Gaps = 8/317 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 ++ I+P + + N + EPL RGF TLGNA+RR L+S+ GAA+ AV+I Sbjct: 1 MKQFIRPEF--KLQAEDKANNYGKFLVEPLERGFGVTLGNAIRRTLLSATPGAAVFAVRI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-----SHKRVTIFKRGPGVVTAGDIQ 120 G HE ++I GV E +T IILNIK + LK++ D + + G + A D+ Sbjct: 59 KGASHEFTAIPGVVEHVTKIILNIKNLVLKINQDIIPDGESVILKVVSSKEGEIYARDLV 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +EV+N D ++ + + +EL GY ++ E LI ID+ Y PI Sbjct: 119 VPTGVEVINGDLLLATIAKGGELDLELYARNSRGYKSFTDNKKEKKYADLIVIDSNYCPI 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++V+Y VE + G+ D +KL + I TD SIT ++VA+A++++ + L F+N E K Sbjct: 179 QRVAYNVEPTKVGKNADLEKLELEIQTDSSITPVNAVAMAAKVITEHLEFFVNLNEAIKA 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + I+ ++ L + ++ELE + RS NCL+ I + DL+ ++E ++ + N G+ Sbjct: 239 TQI-ISSEAEAEEDELERSIDELEFTQRSQNCLKRAKIDTLRDLVSKSEDEIQEIRNLGK 297 Query: 301 KSLVEIKGVLGTMGLFL 317 KSL EIK + +GL Sbjct: 298 KSLTEIKDKVAQLGLNF 314 >gi|269302410|gb|ACZ32510.1| DNA-directed RNA polymerase, alpha subunit [Chlamydophila pneumoniae LPCoLN] Length = 374 Score = 275 bits (703), Expect = 9e-72, Method: Composition-based stats. Identities = 127/366 (34%), Positives = 195/366 (53%), Gaps = 28/366 (7%) Query: 2 IQKNWQELIK-----PNNIEYIVLGQEE-ENRTLMIAEPLPRGFAHTLGNALRRVLMSSL 55 + N L+ P ++ + + + IAEPL RG HTLGNALRR L+ L Sbjct: 1 MSDNAHNLLYDKFELPEAVKMLPVEGLPIDKHARFIAEPLERGMGHTLGNALRRALLIGL 60 Query: 56 RGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-------GDSHKRVTIFK 108 AI + + GVLHE +I+GV ED+T+IILN+KG LK G + + + Sbjct: 61 EAPAIISFAMTGVLHEYMAIEGVIEDVTNIILNLKGALLKKYPMQDSSLGRTTQVLKASI 120 Query: 109 ----------RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 G VT D+ D E +NPD VI + + + L ++ G GY P+ Sbjct: 121 SIDASDLAAANGQKEVTLQDLLQEGDFEAVNPDQVIFTVTQPIQLEVVLRIAFGRGYTPS 180 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 + E+ + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG +T ++++A Sbjct: 181 ERIVLEDKGVYEIILDAAFSPVTLVNYFVEDTRVGQDTDFDRLVLIVETDGRVTPKEALA 240 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK---KVEELELSVRSTNCLRG 275 +++IL +F N +E K +E I+++ + L K + E+ELSVRSTNCL Sbjct: 241 FSTQILTKHFSIFENMDEKKIVFEEAISIEKENKDDILHKLILGINEIELSVRSTNCLSN 300 Query: 276 ENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELA 333 NI +G+L+ E +L+ NFG+KSL EIK L M L LGM+L + ++++E Sbjct: 301 ANIETIGELVIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLTQFGVGLDNVKEKM 360 Query: 334 KKYEDK 339 K Y +K Sbjct: 361 KWYAEK 366 >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 = 274 bits (702), Expect = 9e-72, Method: Composition-based stats. Identities = 115/310 (37%), Positives = 187/310 (60%), Gaps = 6/310 (1%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 +I +E E + + EPL RG+ HTLGNALRRVL+SS+ GAAI ++I+GVL E S + Sbjct: 12 HITEVRESEFKGQFVVEPLYRGYGHTLGNALRRVLLSSIPGAAIKGIRIEGVLSEFSVMD 71 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV E +T+IILN+K I +K +++T+ +GP VVTA DI +E++NP+ IC Sbjct: 72 GVKEAVTEIILNVKEIVVKSETAGERKMTLSVKGPKVVTAADIIPDIGLEIINPEQEICT 131 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + D + +E V G G+V ++ + + I +DA+Y+PI+KVSY ++ G++ Sbjct: 132 ITTDRELDIEFLVDTGEGFVVSEEIERDGWAVDYIAVDAIYTPIRKVSYDIQDTMVGRMT 191 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV------KSL 250 D+DKL+++++TDGSI D+++ A +L+ L F+ + ++ ++ S+ Sbjct: 192 DFDKLTLSVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRVEVEEEVENQSSSI 251 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + L K+EEL+L+VRS NCL+ I +G L + + ++L++ N GRKSL EI + Sbjct: 252 RDDINLNIKIEELDLTVRSFNCLKKAGIEEVGQLSKLSMNELLKIKNLGRKSLDEILEKM 311 Query: 311 GTMGLFLGMN 320 +G L N Sbjct: 312 KELGYDLAQN 321 >gi|119662349|emb|CAJ33163.1| RNA polymerase alpha subunit [Lactobacillus rhamnosus] Length = 223 Score = 274 bits (702), Expect = 9e-72, 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|300431307|gb|ADK12618.1| RNA polymerase alpha subunit [Achnatherum chingii] Length = 339 Score = 274 bits (702), Expect = 9e-72, Method: Composition-based stats. Identities = 92/328 (28%), Positives = 160/328 (48%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY + ++ G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTTGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ NF + + K + T+ L ++L Sbjct: 308 RIDNFR---MEDGKQIWDTLEKHLPIDL 332 >gi|86438808|emb|CAJ43369.1| RNA polymerase alpha subunit [Lactobacillus casei] Length = 233 Score = 274 bits (702), Expect = 9e-72, 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|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 = 274 bits (702), Expect = 9e-72, Method: Composition-based stats. Identities = 84/333 (25%), Positives = 161/333 (48%), Gaps = 29/333 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 + ++ G IDA+ P++ ++++ Sbjct: 131 DTTQHIASLTEPINLCIELQIERDRGYRMKAPNNYQD---GSYPIDAVSMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE + + N Sbjct: 188 SYGSG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEQDIHLNLEDNQN 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 DLMRIEHFR---IEDIKQILDILQKHFGIDLPK 336 >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 = 274 bits (702), Expect = 9e-72, Method: Composition-based stats. Identities = 82/331 (24%), Positives = 160/331 (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 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV- 247 S G + L + I T+GS+T ++++ ASR L D F++ E +K++ N Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHANEENFILKDNQNKV 246 Query: 248 ---------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 K+ +++ EL R+ NCL+ NI + DL+ ++ D+ Sbjct: 247 ALPLFTFHDRLAKQRKNKKEISFQCIFIDQSELPPRTYNCLKRSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F + ++K +LG + ++LP Sbjct: 307 MKIEHFR---IEDVKQILGILQKHFAIDLPK 334 >gi|20160832|dbj|BAB89772.1| Chloroplast RNA polymerase alpha chain [Oryza sativa Japonica Group] Length = 337 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 95/330 (28%), Positives = 162/330 (49%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL R+EL + + GY T++ G IDA+ P++ V+Y++ + Sbjct: 132 TAQPIANLTEPTDFRIELRIKRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFA 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G Y+ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NAKYEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 SPLLSFQKRLTNLKKNKKRIPLSCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 R+ +F + + K + T+ L M+LP Sbjct: 308 RIDSFR---MQDGKQIWDTLEKHLPMDLPK 334 >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 = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 95/330 (28%), Positives = 162/330 (49%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL R+EL + + GY T++ G IDA+ P++ V+Y++ + Sbjct: 132 TAQPIANLTEPTDFRIELRIKRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFA 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G Y+ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NAKYEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 SPLLSFQKRLTNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 R+ +F + + K + T+ L M+LP Sbjct: 308 RIDSFR---MQDGKQIWDTLEKHLPMDLPK 334 >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 = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 131/280 (46%), Positives = 185/280 (66%), Gaps = 6/280 (2%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGV 113 + G A T V I GVLHE S++ GV ED+ DI+LNIKG+ K+ G S + +T+ K G GV Sbjct: 1 MNGFAPTEVTIAGVLHEYSTLDGVQEDIVDILLNIKGVVFKLHGGSTEAVITLKKEGSGV 60 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLI 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+ K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE + Sbjct: 181 ADLEGTPIEVEEE---KAPPIDPVLLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETE 237 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +L+ N GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 238 LLKTPNLGRKSLNEIKEVLASKGLTLGSKLESWPPAGLEK 277 >gi|326200311|gb|ADZ52350.1| RNA polymerase alpha subunit [Asclepias syriaca] Length = 340 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 87/333 (26%), Positives = 160/333 (48%), Gaps = 27/333 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 DNTQHIANLTEPINLCIVLKIERNRGYLIQT---PQNVPDGSYPIDAVFMPVRNANHSVH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN-- 246 S G + L + I T+GS+T ++++ ASR L D F++ EE ++ + + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEENSHLENNQHRV 246 Query: 247 --------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +K+ +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 PLFPFTFHDKLTKLIKNKKEIALKSIFIDQLELPPRIYNCLKRSNIYTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 +++ +F + ++K +L + L + LP Sbjct: 307 MKIEHFR---IEDVKQILVVLEKHLAIFLPKKK 336 >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 = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 91/330 (27%), Positives = 161/330 (48%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY +++ G IDA+ P++ V+Y++ Sbjct: 132 MAQPIANLTEPIDFCIELQIKRDRGYHTELRKNSQD---GSYPIDAVSMPVRNVNYSIFY 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLLTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 R+ +F + + K + T+ L ++LP Sbjct: 308 RIDSFR---MEDGKQIWDTLEKHLPIDLPK 334 >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 = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 79/328 (24%), Positives = 157/328 (47%), Gaps = 27/328 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 + ++ G IDA+ P++ ++++ Sbjct: 131 DTTQYIASLTEPIDLCIELQIERDRGYRIKTPNNYQD---GSYPIDAVSMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS T ++++ ASR L D F++ EE V+++ N Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSFTPKEALYEASRNLIDLFLPFLHAEEQDINVEDNQNRA 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 MRIEHFR---IEDVKQILGILQKRFAID 331 >gi|119662385|emb|CAJ33181.1| RNA polymerase alpha subunit [Lactobacillus zeae] Length = 227 Score = 274 bits (701), Expect = 1e-71, 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|270265495|emb|CBI68384.1| RNA polymerase alpha-subunit [Vibrio tapetis] Length = 286 Score = 274 bits (701), Expect = 1e-71, Method: Composition-based stats. Identities = 123/287 (42%), Positives = 185/287 (64%), Gaps = 8/287 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +G Sbjct: 3 VDIEQVSATHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEG 62 Query: 78 VHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 V ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+ Sbjct: 63 VQEDILEILLNLKGLAVKVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICH 122 Query: 137 LDVD-AVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D A + M + V +G GYVPA + PIG + +DA YSP+ K++Y VE+AR Sbjct: 123 LTDDNAEIAMRIKVERGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARV 182 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G++ E+++ ++ IL +QL F++ + + + F Sbjct: 183 EQRTDLDKLVIDMETNGTLDPEEAIRRSATILAEQLDAFVDLRDIRVPE---EKEEKPEF 239 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G Sbjct: 240 DPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLG 286 >gi|300431278|gb|ADK12604.1| RNA polymerase alpha subunit [Piptochaetium montevidense] Length = 339 Score = 274 bits (701), Expect = 1e-71, Method: Composition-based stats. Identities = 90/328 (27%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY + ++ G IDA+ P++ V+Y++ S Sbjct: 132 RAQPIANLTEPIDFCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 ++ +F + + K + T+ L ++L Sbjct: 308 KIDSFR---MEDGKQIWDTLEKHLPIDL 332 >gi|328813959|gb|AEB52095.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 231 Score = 274 bits (701), Expect = 1e-71, Method: Composition-based stats. Identities = 101/231 (43%), Positives = 153/231 (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 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 GSI+ ++++LA++IL + L +F+N + K + + + L Sbjct: 181 GSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMT 231 >gi|311990462|gb|ADQ26361.1| RNA polymerase alpha subunit [Lactobacillus plantarum] Length = 252 Score = 274 bits (701), Expect = 1e-71, Method: Composition-based stats. Identities = 112/254 (44%), Positives = 162/254 (63%), Gaps = 6/254 (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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSY 185 LNPD IC + A M +T + G GYV A+ ++ ++ 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 NVKSLPFNPALLKK 259 + L Sbjct: 239 EKEETHKEKMLEMT 252 >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 = 83/339 (24%), Positives = 165/339 (48%), Gaps = 29/339 (8%) Query: 7 QELIKPNNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 + ++ +++ + ++ I PL +G A T+G A+RR L+ + G +IT Sbjct: 5 KVIVSTRTLQWKCVESRTDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTSITR 64 Query: 63 VQID--GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 V+ + V HE S+I G+ E + +I++N+K I L+ + +I RGPG VTA DI Sbjct: 65 VKSESEKVPHEYSTISGIQESVHEILMNLKEIVLRSNLYGTCDASICVRGPGYVTAQDII 124 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +E+++ I +L + + L + + GY+ H ++ G IDA++ P+ Sbjct: 125 LPPYVEIVDNTQHIASLTEPIDLCIGLQIERNRGYLIKTPHNFQD---GSYPIDAVFMPV 181 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 + ++++ S G + L + I T+GS+T ++++ ASR L D F++ EE Sbjct: 182 RNANHSIHSYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEENVH 240 Query: 241 VKEDINVKSLPFNPALLKK----------------VEELELSVRSTNCLRGENIVYMGDL 284 ++++ + L K +++ EL R NCL+ NI + DL Sbjct: 241 LEDNQHTVPLSPFIFHDKLAKLRKKKKKIALKSIFIDQSELPPRIYNCLKRSNIYTLLDL 300 Query: 285 IQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 + ++ D++++ +F + ++K +LG + ++L Sbjct: 301 LNNSQEDLMKIEHFR---IEDVKQILGILEKHFAIDLSK 336 >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 = 274 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 117/312 (37%), Positives = 178/312 (57%), Gaps = 13/312 (4%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG--VLHEISSI 75 + E+ PL +G+A T+GN LRRVL+SS+ AIT V+ HE +I Sbjct: 13 EQVEHEDHYYARYSLSPLEKGYAVTVGNTLRRVLLSSIPSFAITDVRFVKPEKYHEFDTI 72 Query: 76 KGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 +G ED+ DI+LN+K + L++ +S ++TI K+GPGV+TAGDI+ + V+NP H Sbjct: 73 EGAKEDIMDILLNLKKVQLRVDTYVESPVKLTINKKGPGVLTAGDIECPAGVVVVNPGHY 132 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 + L+ DA + +EL + G G+VPA R E IG I +D +YSP+ KV++ VE+ R Sbjct: 133 LATLNEDADLEIELYATFGKGFVPAAD-RNERPEIGWIVLDGVYSPVIKVNWLVENVRVD 191 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEE---PKKEVKEDIN 246 + DY+KL + I T SI +++ + +I+ D + EE P + + Sbjct: 192 KRTDYEKLILEIWTKKSIKPSEALKHSLKIILDHFMFIEQSLSDVEELPIPIIQETAVVT 251 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + + KKVEELELS RS NCL+ + I +GDL+ RTE +++++ NFG KSL E+ Sbjct: 252 EEIGSPEDVMSKKVEELELSARSLNCLKRDKIETIGDLLSRTEEELMKIKNFGLKSLEEV 311 Query: 307 KGVL-GTMGLFL 317 + L GL L Sbjct: 312 REKLRDKFGLSL 323 >gi|290790733|gb|ADD62991.1| RNA polymerase alpha subunit [Oryza australiensis] Length = 337 Score = 274 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 96/330 (29%), Positives = 162/330 (49%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRNASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL R+EL + + GY T++ G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPTDFRIELRIKRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G Y+ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NAKYEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 SPLLSFQKRLTNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 R+ +F + + K + T+ L M+LP Sbjct: 308 RIDSFR---MQDGKQIWDTLEKHLPMDLPK 334 >gi|290489666|gb|ADD31217.1| RNA polymerase alpha subunit protein [Meliosma aff. cuneifolia Moore 333] Length = 337 Score = 274 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 85/331 (25%), Positives = 168/331 (50%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 +++ G IDA++ P++ ++++ Sbjct: 131 DTTQHIASLTEPINLCIGLQIERNHGYRMKTPKNSQD---GSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ N Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHTEEEDIIIEDNQNRF 246 Query: 249 SLPFNPAL----------------LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 ++PF +++ EL R+ NCL+ NI + DL+ +++ D+ Sbjct: 247 TVPFFTFHDRLAKLRKNKKEIALKFIFIDQSELPPRTYNCLKRSNIHTLLDLLNKSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +R+ +F + ++K +LG + +NLP Sbjct: 307 MRIEHFR---IEDVKHILGILQKHFEINLPK 334 >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 = 274 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 113/235 (48%), Positives = 165/235 (70%), 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 PAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A ++ ++ 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|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 = 274 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 92/330 (27%), Positives = 163/330 (49%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 I+ +E + + I PL +G A T+G A+RR L+ + G IT + + V Sbjct: 13 IQWKCVES-RVDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSERVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I RGP VTA DI +E+++ Sbjct: 72 HEYSTIIGIEESVHEILLNLKEIVLRSNLYGVRDASICVRGPRYVTAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P I NL + +EL + + GY + +++ G IDA+ P++ ++++ S Sbjct: 132 PTQHIANLTEPIDLYIELQIKRDRGYRMEPTNNSQD---GSYPIDAVSMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEEDINFEENKNRFT 247 Query: 250 LPF----------------NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 LPF P +++LEL R+ NCL+ NI + DL+ + D++ Sbjct: 248 LPFLTFQDRLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRSNIHTLLDLLSNGQEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 R+ + ++K +L T+ ++LP Sbjct: 308 RIEYLR---MEDVKQILDTLQKNFAIDLPK 334 >gi|69215824|gb|AAZ03868.1| RNA polymerase alpha chain [Ranunculus macranthus] Length = 339 Score = 274 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 80/333 (24%), Positives = 161/333 (48%), Gaps = 29/333 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 DTTQHIASLTEPVDFCIGLQIESNRGYRMKTPN---NAQKGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN-- 246 S G + + L + I T+GS+T ++++ ASR L D F++ EE + +K++ Sbjct: 188 SYGNG-NENQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEQDQNLKDNQKNG 246 Query: 247 ---------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 K+ +++ EL R+ NCL+ NI + DL+ +++ D Sbjct: 247 VTLPFFTFHDGFDKLKKNKKEIELKCIFIDQSELPSRTYNCLKRANIHTLLDLLNKSQED 306 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFL-GMNLPD 323 ++++ +F + ++K +L + ++LP Sbjct: 307 LMKIEHFR---IEDVKQILDIIQKHFVVIDLPK 336 >gi|84874028|gb|ABC68037.1| RNA polymerase subunit [Oryza sativa] Length = 317 Score = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 93/320 (29%), Positives = 157/320 (49%), Gaps = 23/320 (7%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + + I PL +G A T+G ALRR L+ G IT + V HE S+I G+ Sbjct: 2 VDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGIE 61 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 62 ESVQEILLNLKEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTE 121 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 +EL + + GY T++ G IDA+ P++ V+Y++ + G Y+ Sbjct: 122 PTDFHIELRIKRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFACGNG-NAKYE 177 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-------- 251 L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 178 ILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKRL 237 Query: 252 --------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + Sbjct: 238 TNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSFR---M 294 Query: 304 VEIKGVLGTMGLFLGMNLPD 323 + K + T+ L M+LP Sbjct: 295 QDGKQIWDTLEKHLPMDLPK 314 >gi|169788447|emb|CAP58145.1| RNA polymerase [Lactobacillus rossiae] Length = 235 Score = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 112/235 (47%), 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 VTAGD QT D+EV+NPD IC + A M LT +KG GYV Sbjct: 61 ATDEEKGMDIDVKGPATVTAGDFQTDADVEVMNPDLYICTVADGATFHMHLTANKGRGYV 120 Query: 157 PAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A ++ ++ 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|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 = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 114/302 (37%), Positives = 168/302 (55%), Gaps = 8/302 (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 TIDTDGSITGEDSVALASRILQDQLGMF-------INFEEPKKEVKEDINVKSLPFNPAL 256 I TDGS++ D++ A IL++ LG F EP + E V + Sbjct: 195 RIWTDGSVSPLDALQSAVGILREHLGFFDQAAVVAEAEAEPVEAAPEVEAVGAEEAAERP 254 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +++L LS R + L+ E I + +L+ TE ++ ++ G +S+ EIK L GL Sbjct: 255 ALTLDDLGLSTRVLHNLKEEGIDSIENLLALTERELKKVPGIGERSVEEIKERLAEHGLS 314 Query: 317 LG 318 L Sbjct: 315 LK 316 >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 = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 109/297 (36%), Positives = 163/297 (54%), Gaps = 4/297 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ++ + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ + Sbjct: 18 DHYGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDVVE 77 Query: 85 IILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+K + ++ + + GP V AGD D+E++NPD I L+ Sbjct: 78 IILNLKELVVRFLDPKMASTTLILRAEGPKEVRAGDFTPSADVEIMNPDLHIATLEEGGK 137 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + ME+ V +G GYVPA+ H ++ I I +DA++SP+++V++ VE R GQ D DKL+ Sbjct: 138 LYMEVRVDRGVGYVPAERHGIKDR-INAIPVDAIFSPVRRVAFQVEDTRLGQRTDLDKLT 196 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK-KVE 261 + I TDGS+T +++ A IL++ L F N E E + L +E Sbjct: 197 LRIWTDGSVTPLEALNQAVAILKEHLNYFANPEASLLPTPEVSKGEKRESAEEDLDLPLE 256 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 EL LS R + L+ E I + L+ D+ + G +SL EI+ L G L Sbjct: 257 ELGLSTRVLHSLKEEGIESVRALLALNLKDLRNIPGIGERSLEEIRQALAKKGFTLK 313 >gi|300431299|gb|ADK12614.1| RNA polymerase alpha subunit [Hesperostipa comata] Length = 339 Score = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY + ++ G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LPFN----------------PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPRFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDGKQIWDTLEKHLPIDL 332 >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 = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 80/333 (24%), Positives = 161/333 (48%), Gaps = 29/333 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 DTTQHIASLTEPVDFCIGLQIESNRGYRMKTPN---NAQKGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN-- 246 S G + + L + I T+GS+T ++++ ASR L D F++ EE + +K++ Sbjct: 188 SYGNG-NENQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEQDQNLKDNQKNG 246 Query: 247 ---------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 K+ +++ EL R+ NCL+ NI + DL+ +++ D Sbjct: 247 VTLPFFTFHDGFDKLKKNKKEIELKCIFIDQSELPSRTYNCLKRANIHTLLDLLNKSQED 306 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFL-GMNLPD 323 ++++ +F + ++K +L + ++LP Sbjct: 307 LMKIEHFR---IEDVKQILDIIQKHFVVIDLPK 336 >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 = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 87/330 (26%), Positives = 159/330 (48%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RR L+ + G IT + + V Sbjct: 13 LQWKCVES-RIDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +I G+ E + +I++N+K I L+ + + I RGP VTA DI + +E+++ Sbjct: 72 HEYFTIVGIKESVHEILINLKEIVLRSTLYGVRDAAICVRGPRYVTAQDIISPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + + L + + GY + +++ G IDA+ P++ ++++ S Sbjct: 132 TTQHIATLTEPIDLCIGLQIKRDRGYRMKPTNNSKD---GSYPIDAVSMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L D F++ EE KE+ N + Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEEGINFKENENRFT 247 Query: 250 LPFN----------------PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 LP P +++LEL R+ NCL+ NI + DL+ ++ D++ Sbjct: 248 LPPFTLQDRLINLKKTKKCIPLKCIFIDQLELPPRTYNCLKRSNIHTLLDLLSNSQEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 R+ + ++K +L T+ L +LP Sbjct: 308 RIDYLR---IEDVKQILDTLQKHLASDLPK 334 >gi|300431329|gb|ADK12627.1| RNA polymerase alpha subunit [Achnatherum diegoense] Length = 339 Score = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 162/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I+ +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY + ++ G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIELQIQRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDGKQIWDTLEKHLPIDL 332 >gi|119668363|emb|CAK95475.1| RNA polymerase alpha subunit [Lactobacillus rhamnosus] Length = 228 Score = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 99/226 (43%), Positives = 151/226 (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 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 SI+ ++++LA++IL + L +F+N + K + + + Sbjct: 181 SISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKM 226 >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 = 273 bits (699), Expect = 2e-71, 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 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED------INVKSLP 251 +DKL++ ++TDGSI D+++ A +L+ F++ + ++ D 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|328813941|gb|AEB52086.1| DNA-directed RNA polymerase alpha chain [Lactobacillus brevis] Length = 248 Score = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 109/248 (43%), Positives = 165/248 (66%), 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 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 I +GP +TAGDI D+++LNPD I + A M +T KG GYV A ++T Sbjct: 61 EINVKGPAQITAGDIVAGADVDILNPDLYIATVADGATFHMRMTADKGRGYVSADENKTR 120 Query: 165 --NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 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|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 = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 86/333 (25%), Positives = 165/333 (49%), Gaps = 27/333 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 + ++ G ID ++ P++ V++++ Sbjct: 131 DTTQHIANLTEPIDLRIELQLERNRGYRIKTPNNFQD---GSYPIDVVFMPVRNVNHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F+ E+ ++++ + Sbjct: 188 SYSNG-NEKQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLYAEKENFHLEDNQDRV 246 Query: 249 SLP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPLFLFHDRLIELRKNKKKIALKSIFIDQLELPPRIYNCLKNSNIHTLLDLLTNSQDDI 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 +++ +F S+ ++K +L T+ +NLP Sbjct: 307 MKIEHF---SIEDVKQILDTLEKHFAINLPKKK 336 >gi|187233921|gb|ACD01207.1| RNA polymerase alpha subunit [Phyllostachys propinqua] Length = 339 Score = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 92/330 (27%), Positives = 162/330 (49%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY +++ G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIELQIKRDRGYHTELRKNSQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLLTFQKRLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 R+ +F + + K + T+ L ++LP Sbjct: 308 RIDSFR---MEDGKQIWDTLEKHLPIDLPK 334 >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 = 273 bits (699), Expect = 3e-71, Method: Composition-based stats. Identities = 109/295 (36%), Positives = 161/295 (54%), Gaps = 4/295 (1%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ +II Sbjct: 20 YGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDVVEII 79 Query: 87 LNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 LN+K + ++ + + GP V AGD D+E++NPD I L+ + Sbjct: 80 LNLKELVVRFLDPKMASTTLILRAEGPKEVRAGDFTPSADVEIMNPDLHIATLEEGGKLY 139 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 ME+ V +G GYVPA+ H ++ I I +DA++SP+++V++ VE R GQ D DKL++ Sbjct: 140 MEVRVDRGVGYVPAERHGIKDR-INAIPVDAIFSPVRRVAFQVEDTRLGQRTDLDKLTLR 198 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK-KVEEL 263 I TDGS+T +++ A IL++ L F N E E + L +EEL Sbjct: 199 IWTDGSVTPLEALNQAVAILKEHLNYFANPEASLLPTPEVSKGEKRESAEEDLDLPLEEL 258 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 LS R + L+ E I + L+ D+ + G +SL EI+ L G L Sbjct: 259 GLSTRVLHSLKEEGIESVRALLALNLKDLRNIPGIGERSLEEIRQALAKKGFTLK 313 >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 = 273 bits (698), Expect = 3e-71, Method: Composition-based stats. Identities = 127/324 (39%), Positives = 194/324 (59%), Gaps = 3/324 (0%) 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 ELMDGAKLDAKIYLQRGIGYKQAN-YDAVNREIGFIPVDALFSPIVRVAYHTKKSTMKDY 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 I++L ++ E + Sbjct: 313 ELGMKFSQEQLERIQQLIEEKEGE 336 >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 = 273 bits (698), Expect = 3e-71, Method: Composition-based stats. Identities = 117/350 (33%), Positives = 188/350 (53%), Gaps = 14/350 (4%) 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-----DGVLHEISS----IKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKR 109 +T V+I DGV H ISS 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 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 + N G+KSL EI+G L L LGM D+ + + +++ Sbjct: 300 QTLANTRNVGKKSLSEIQGKLQEYNLRLGM--ADYNHVGVVSRLMRQKEE 347 >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 = 273 bits (698), Expect = 3e-71, Method: Composition-based stats. Identities = 98/311 (31%), Positives = 164/311 (52%), Gaps = 10/311 (3%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 +E G + + EPL +G TLGNALRR L+S L G AI AV+I GV HE Sbjct: 7 ECVESTTDGARDH-YSKFCLEPLEQGQGVTLGNALRRTLLSDLEGTAIVAVRIAGVSHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 S+I G+ ED+ +I+LN+K + LK + + +GP +VT +++ +++E+++P+ Sbjct: 66 STIPGIREDVLEILLNLKEVVLKSQTKNPSVGRLRVQGPAIVTTSNLELPSEVELIDPNQ 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + ++ ME + G GY + + I + +DA++ P+KKV+Y + R Sbjct: 126 YIATICGNNILEMEFRIETGKGYHLIE-RSIDETSIDFLQVDAIFMPVKKVNYLTKDIRS 184 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 L ++L + + T+GSI +D+V+ +IL + L K D Sbjct: 185 NDNLLQEQLLLEVWTNGSIDPQDAVSQGGKILTELLHPLKEI-----NFKSDEEDTVAED 239 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 + +EEL+LSVR+ NCL+ I + DL+ ++ D++ + NFG+KS E+ L Sbjct: 240 SKINQILIEELQLSVRAYNCLKRAQIHSVADLLDYSQEDLIEIKNFGQKSAEEVIDAL-- 297 Query: 313 MGLFLGMNLPD 323 LG+NLP Sbjct: 298 -QKRLGINLPK 307 >gi|300431303|gb|ADK12616.1| RNA polymerase alpha subunit [Aciachne flagellifera] Length = 339 Score = 273 bits (698), Expect = 3e-71, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY + ++ G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDGKQIWDTLEKHLPIDL 332 >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 = 273 bits (698), Expect = 3e-71, Method: Composition-based stats. Identities = 84/330 (25%), Positives = 163/330 (49%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ++RR L+ + G IT + D V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLMKGQADTIGISMRRALLGEIEGTCITRAKFDKVT 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + +I RGP VTA DI + +E+++ Sbjct: 72 HEYSTIVGIEESVHEILMNLKEIVLRSNLYGTLDASICVRGPRSVTAQDIISPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL + + L + + GY + ++ G ID ++ P++ ++++ S Sbjct: 132 TTQHIANLTEPIDLCIGLQIERDRGYRLKTPNNYQD---GSYPIDTVFMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L + F++ EE + +++ N+ + Sbjct: 189 YGNGTE-KQEILFLEIWTNGSLTPKEALYEASRNLINLFIPFLHAEEQEILLEDSENIST 247 Query: 250 LPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 +P + +++LEL R+ NCL+ NI + DL+ ++ D++ Sbjct: 248 VPLFTFHNELANLKKNKKGIALKCIFIDQLELPSRTYNCLKRSNIHTLFDLLSNSKEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 R+ +F + ++K +L + MNLP Sbjct: 308 RIEHFR---VEDVKQILDILQKNFAMNLPK 334 >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 = 273 bits (698), Expect = 3e-71, 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 DRIEHQISDDRAQT-GVFLIGPLERGQATTLGNALRRVLMGGLEGSAVTAVRIAGVNHEY 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 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF---INFEEPKKEVKEDINVK 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 ---------IPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIE 296 Query: 309 VLGTMGLF 316 L +G+ Sbjct: 297 ALERIGIS 304 >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 = 273 bits (698), Expect = 3e-71, Method: Composition-based stats. Identities = 108/296 (36%), Positives = 163/296 (55%), Gaps = 3/296 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ++ + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ + Sbjct: 18 DHYGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDVVE 77 Query: 85 IILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 IILN+K + ++ + + + GP V A D D+E++NPD I L+ + Sbjct: 78 IILNLKELVVRFLDPRWRTTLILRAEGPKEVRAVDFTPSADVEIMNPDLHIATLEEGGKL 137 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 ME+ V +G GYVPA+ H ++ I I +DA++SP+++V++ VE R GQ D DKL++ Sbjct: 138 YMEVRVDRGVGYVPAERHGIKDR-INAIPVDAIFSPVRRVAFQVEDTRLGQRTDLDKLTL 196 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK-KVEE 262 I TDGS+T +++ A IL++ L F N E E + L +EE Sbjct: 197 RIWTDGSVTPLEALNQAVAILKEHLNYFANPEASLLPTPEVSKGEKRESAEEDLDLPLEE 256 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 L LS R + L+ E I + L+ D+ + G +SL EI+ L G L Sbjct: 257 LGLSTRVLHSLKEEGIESVRALLALNLKDLRNIPGIGERSLEEIRQALAKKGFTLK 312 >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 = 273 bits (698), Expect = 3e-71, Method: Composition-based stats. Identities = 116/306 (37%), Positives = 169/306 (55%), Gaps = 7/306 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E + EPL + LGNALRRVL+SS+ G AI +++IDGV HE + IKGV ED Sbjct: 11 EETTKEGKFLFEPLEYRYGTPLGNALRRVLLSSIPGGAIFSIRIDGVYHEFTGIKGVKED 70 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVT--AGDIQTVNDIEVLNPDHVICNLDV 139 + IILN+K + L + ++ T+ G T AGDI+ + VLN D IC L Sbjct: 71 VASIILNLKQLILDIDIHDNEVYTLRIDQEGPKTVVAGDIECPTGVTVLNKDLPICTLSE 130 Query: 140 DAVVRMELTVSKGHGYVPAKHHR----TENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 + MEL G G+V + ++ E P+G+I D+LYSP+K VSY + Sbjct: 131 GGSIHMELQARLGRGFVRSDVNKRMYQNEGQPLGIIYTDSLYSPVKNVSYVANPIKSEDG 190 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 YD L + I TD +I +++A+A++IL+D L + + +E EVKE S Sbjct: 191 SMYDSLELEITTDETIKPSEALAVAAKILRDHLSILASVDEASLEVKEQEVEVSEEPVVH 250 Query: 256 LLKK-VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 K +E+LELSVRS NCL+ I + +L Q+TE +M+ + N G+KSL E+K + +G Sbjct: 251 TTHKMIEDLELSVRSYNCLKRAGIATVDELTQKTEEEMIHVRNLGKKSLQEVKDKIKELG 310 Query: 315 LFLGMN 320 L N Sbjct: 311 LSFRQN 316 >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 = 273 bits (698), Expect = 3e-71, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 162/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I+ +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY + ++ G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDGKQIWDTLEKHLPIDL 332 >gi|300431309|gb|ADK12619.1| RNA polymerase alpha subunit [Achnatherum psilantherum] Length = 339 Score = 272 bits (697), Expect = 3e-71, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 162/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I+ +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY + ++ G IDA+ P++ V+Y++ S Sbjct: 132 TGQPIANLTEPIDFCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDGKQIWDTLEKHLPIDL 332 >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 = 272 bits (697), Expect = 3e-71, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDITLPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY + ++ G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDGKQIWDTLEKHLPIDL 332 >gi|300431270|gb|ADK12600.1| RNA polymerase alpha subunit [Piptochaetium medium] Length = 339 Score = 272 bits (697), Expect = 3e-71, Method: Composition-based stats. Identities = 90/328 (27%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY + ++ G IDA+ P++ V+Y++ S Sbjct: 132 RAQPIANLTEPIDFCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTCFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 ++ +F + + K + T+ L ++L Sbjct: 308 KIDSFR---MEDGKQIWDTLEKHLPIDL 332 >gi|290489694|gb|ADD31231.1| RNA polymerase alpha subunit protein [Oxalis latifolia] Length = 339 Score = 272 bits (697), Expect = 4e-71, Method: Composition-based stats. Identities = 81/345 (23%), Positives = 167/345 (48%), Gaps = 27/345 (7%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLR 56 M+++ +++ + + I PL +G A T+G A+RR L+ + Sbjct: 1 MVREKVTVSTSTRTLQWKCVESRADGKRLYYGRFILSPLMKGQADTIGIAIRRALLGEIE 60 Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 G IT + + + HE S++ G+ E + +I++N+K I L+ + ++ +GPG VTA Sbjct: 61 GTCITRAKSEKIPHEYSTLAGIQESIHEILMNLKEIVLRSNLYGTHDASLCVKGPGYVTA 120 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 DI +E+++ I +L + + L + + GY + ++ G IDA+ Sbjct: 121 QDIILPPSVEIIDNTQHIASLTEPIELCIGLQIERNRGYHKKTPNNFQD---GSYPIDAV 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 + P++ ++++ S R G + L + I T+GS+T ++++ ASR L D F++ EE Sbjct: 178 FMPVRNANHSIHSYRNG-NEKQEMLFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEE 236 Query: 237 PKKEVKEDINVKSLPFNPALLK----------------KVEELELSVRSTNCLRGENIVY 280 ++ + + +LP + +++LEL+ R NCL+ NI Sbjct: 237 ENSHLETNQHKVTLPLFTFHDRLAKLRKIKKKISLKYIFIDQLELTPRIYNCLKRSNIHT 296 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 + DL+ ++ D++ + +F + ++K ++G + L ++LP Sbjct: 297 LLDLLNNSQEDLMNIEHFH---IEDVKHIMGVLENNLAIDLPKKK 338 >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 = 272 bits (697), Expect = 4e-71, Method: Composition-based stats. Identities = 80/331 (24%), Positives = 161/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 + ++ G IDA+ P++ ++++ Sbjct: 131 DTTQHIASLTEPIDLCIELQIERDRGYRMKTPNNYQD---GSYPIDAVSMPVRNANHSIH 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 MRIEHFR---IEDVKQILDILQKHFTIDLPK 334 >gi|84874038|gb|ABC68042.1| RNA polymerase subunit [Oryza rhizomatis] Length = 317 Score = 272 bits (697), Expect = 4e-71, Method: Composition-based stats. Identities = 95/320 (29%), Positives = 158/320 (49%), Gaps = 23/320 (7%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + + I PL +G A T+G ALRR L+ G IT + V HE S+I G+ Sbjct: 2 VDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGIE 61 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 62 ESVQEILLNLKEIVLRSNLYGVRNASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTE 121 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 R+EL + + GY T++ G IDA+ P++ V+Y++ S G Y+ Sbjct: 122 PTDFRIELRIKRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFSCGNG-NAKYE 177 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-------- 251 L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 178 ILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENQNRFTSPLLSFQKRL 237 Query: 252 --------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + Sbjct: 238 TNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSFR---M 294 Query: 304 VEIKGVLGTMGLFLGMNLPD 323 + K + T+ L M+LP Sbjct: 295 QDGKQIWDTLEKHLPMDLPK 314 >gi|167946610|ref|ZP_02533684.1| DNA-directed RNA polymerase subunit alpha [Endoriftia persephone 'Hot96_1+Hot96_2'] Length = 280 Score = 272 bits (697), Expect = 4e-71, 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 RRVAYSIESARVEQRTNMDRLVIELQTDGTIDPEEAIRRSAGILRDQLSVFVDLEG-GGA 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|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 = 272 bits (696), Expect = 5e-71, Method: Composition-based stats. Identities = 94/320 (29%), Positives = 158/320 (49%), Gaps = 23/320 (7%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + + I PL +G A T+G ALRR L+ G IT + V HE S+I G+ Sbjct: 2 VDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGIE 61 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 62 ESVQEILLNLKEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTE 121 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 R+EL + + GY T++ G IDA+ P++ V+Y++ + G Y+ Sbjct: 122 PTDFRIELRIKRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFACGNG-NAKYE 177 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-------- 251 L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 178 ILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKRL 237 Query: 252 --------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + Sbjct: 238 TNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSFR---M 294 Query: 304 VEIKGVLGTMGLFLGMNLPD 323 + K + T+ L M+LP Sbjct: 295 QDGKQIWDTLEKHLPMDLPK 314 >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 = 272 bits (696), Expect = 5e-71, Method: Composition-based stats. Identities = 112/333 (33%), Positives = 185/333 (55%), Gaps = 11/333 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + IKP +E I E +PL RG+ T+GNALRRVL+SSL GAAI V+I G Sbjct: 5 KFIKPFFVEEI---DENPISGKFTIKPLERGYGITVGNALRRVLLSSLPGAAIVNVKIQG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDS---HKRVTIFKRGPGVVTAGDIQTVND 124 V E ++I GV+ED+ IILN+K I + +S +++ + +GP +TA + Sbjct: 62 VEQEFTTIPGVYEDVMTIILNLKKIVFAVDDESDDFEEKLELIAKGPQRLTAASFELPAG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSPIKKV 183 ++++NPDH I L D M +T+ KG GYV AK ++ + +G+I ID+L++P+ V Sbjct: 122 VKIINPDHYITTLSDDVCFHMTVTIKKGIGYVGAKENKVHIENQVGVIAIDSLFTPVVNV 181 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VE ++ + D+L++ I T+G++ ++++A A+ IL D + + + V+ Sbjct: 182 SYQVE----KKLGNKDELTIEITTNGALLAKEALATAASILVDHFNVLVELSQKPAHVEF 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 K N L ++E+L+LSVR N L+ I + L++ +E +++++ + GRKS Sbjct: 238 VSESKKEAHNYVLDLEIEQLDLSVRLFNSLKRAGIDTVASLVKLSEKEVVKLKSLGRKSF 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKY 336 E+K GL L + S+EE K+ Sbjct: 298 QELKDKFLEYGLEFNDYLKEALHHSVEEDKDKH 330 >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 = 272 bits (696), Expect = 5e-71, Method: Composition-based stats. Identities = 125/368 (33%), Positives = 197/368 (53%), Gaps = 30/368 (8%) Query: 2 IQKNWQELIK-----PNNIEYIVL---GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMS 53 + N Q L+ P +++ + + G + +AEPL RG HTLGNALRR L+ Sbjct: 1 MSDNSQNLLYDKFELPKSVKMMTVEGSGGSIDKHARFVAEPLERGMGHTLGNALRRALLI 60 Query: 54 SLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM----SGDSHKRVTIFKR 109 L AI + + GVLHE +I+G+ ED+T+I+LN+KG LK + +R + K Sbjct: 61 GLEAPAIISFSMTGVLHEYMAIEGIIEDVTNIVLNLKGALLKKYPFQDSEDGRRPQLLKS 120 Query: 110 -------------GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 G VT D+ E +NP+HVI + V + L V+ G GY Sbjct: 121 MISIDASDLAACGGQRAVTLADLLQEGGFEAVNPEHVIFTVTQPMQVEVALRVAFGRGYS 180 Query: 157 PAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ E+ + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG ++ +++ Sbjct: 181 TSERIILEDKGVNEIVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLILYVETDGRVSPKEA 240 Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK---KVEELELSVRSTNCL 273 +A +++IL +F +E K +E I+++ + L K + E+ELSVRSTNCL Sbjct: 241 LAFSTQILTKHFSIFEKMDEKKIVFEEAISIEKENKDDILHKLVLGINEIELSVRSTNCL 300 Query: 274 RGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEE 331 NI +G+L+ E +L+ NFG+KSL EIK L M L LGM+L + ++++E Sbjct: 301 SNANIETIGELVIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKE 360 Query: 332 LAKKYEDK 339 K Y +K Sbjct: 361 KMKWYAEK 368 >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 = 272 bits (696), Expect = 5e-71, Method: Composition-based stats. Identities = 123/357 (34%), Positives = 191/357 (53%), Gaps = 25/357 (7%) Query: 8 ELIKPNNIEYIVL---GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + P +++ + + G + + IAEPL RG HTLGNALRR L+ L AI + Sbjct: 12 KFELPESVKMMAVEGSGGSVDKQASFIAEPLERGMGHTLGNALRRALLIGLEAPAIISFS 71 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMS---GDSHKRVTIFKRGP---------- 111 + GVLHE +I G+ ED+T+IILN+KG LK + R T + Sbjct: 72 MTGVLHEYMAINGIIEDVTNIILNLKGALLKKYPFQDSENGRCTQLLKSKVSIDASDLAA 131 Query: 112 ----GVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 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 LGMFINFEEPKKEVKEDINVKSLPFNPALLK---KVEELELSVRSTNCLRGENIVYMGDL 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|300431291|gb|ADK12610.1| RNA polymerase alpha subunit [Jarava plumosula] Length = 339 Score = 272 bits (696), Expect = 5e-71, Method: Composition-based stats. Identities = 90/328 (27%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I+ +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY + ++ G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ AS L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASHNLIDLFLPFLHAEEEGASFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDGKQIWDTLEKHLPIDL 332 >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 = 272 bits (696), Expect = 5e-71, Method: Composition-based stats. Identities = 83/329 (25%), Positives = 164/329 (49%), Gaps = 23/329 (6%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + PL +G A T+G A+RR L+ + G IT + + + Sbjct: 13 LQWRCVESRT-DSKRLYYGRFVLSPLMKGQADTIGIAMRRALLGEIEGTCITHAKSEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + +I +GP +TA DI + +E+++ Sbjct: 72 HEYSTIVGIEESVHEILMNLKEIVLRSNLYGTCDASICVKGPINITAKDIISPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I +L + + L + + GY ++ +N G IDA++ P++ ++++ S Sbjct: 132 TTQHIASLTEPFDLCIGLQIERNRGYRMKTPNKAQN---GSYPIDAVFMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L D F++ EE ++++ N + Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEQDIILEDNQNRVT 247 Query: 250 LPFNPAL---------------LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 LPF +++ EL R+ NCL+ NI + DL+ +++ D+L+ Sbjct: 248 LPFFTFHDGLAKLKKKNEIALKFIFIDQSELPSRTYNCLKKSNINTLLDLLNKSQEDLLK 307 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 + +F + ++K VLG + ++LP Sbjct: 308 IEHFR---IEDVKRVLGILQKRFVIDLPK 333 >gi|300431284|gb|ADK12607.1| RNA polymerase alpha subunit [Nassella arcuata] Length = 339 Score = 272 bits (696), Expect = 6e-71, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 162/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I+ +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY + ++ G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPMDFCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDGKQIWDTLEKHLPIDL 332 >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 = 272 bits (695), Expect = 6e-71, Method: Composition-based stats. Identities = 128/279 (45%), Positives = 183/279 (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 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLIT 172 A DI+ +D EV+NP+H+IC+L +A + ME+ V KG GY + + IG 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 DL---QGTPVEEVEEVAPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETEL 237 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 L+ N GRKSL EIK VL + GL LG L WPP ++E+ Sbjct: 238 LKTPNLGRKSLNEIKEVLASKGLTLGSKLEAWPPVNLEK 276 >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 = 86/330 (26%), Positives = 164/330 (49%), Gaps = 26/330 (7%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE + + + I PL G A+TLG A+RR + L G IT+ + + ++HE Sbjct: 16 WKCIESKIENERLH-HSRFIISPLGIGQANTLGIAMRRASLGELEGTCITSAKFEKIIHE 74 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 S++ G+ E + D ++N+K I L+ + ++ I GPG +TA DI IE+++P Sbjct: 75 YSTVVGIQESVHDTLINLKEIVLRSNSSEIQKAYISIIGPGEITAQDIILPPSIEIIDPA 134 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 I L + +EL + + GY ++++ G ++A++ PI+ V+Y++ Sbjct: 135 QHIATLTKKIHLNIELRIERDRGYRRQNIVKSQD---GNFPLNAVFMPIRNVNYSIHCFE 191 Query: 192 -EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 + + + L + I T+GSIT +++ ASR L + F++ E +K +S Sbjct: 192 SHDKKIMKEMLLLEIWTNGSITPREAIYEASRSLINLFIPFLHAENGEKIYGMGNINESN 251 Query: 251 PFNPALLKK------------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + ++L +++LEL R+ NCL+ N+ + DL+ ++ D+ Sbjct: 252 ALSCSVLPPMSIQVDQMAKEVTFRHIFIDQLELPPRAYNCLKRINVHTISDLLDYSQDDL 311 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 +++ NFG KS+ ++ L + G++LP Sbjct: 312 MKIKNFGIKSVEQV---LEALWKRFGISLP 338 >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 = 6e-71, Method: Composition-based stats. Identities = 92/330 (27%), Positives = 163/330 (49%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLIKGQADTVGIALRRALLGEIEGTCITRAKSENVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI + +E+++ Sbjct: 72 HEYSTIVGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIISPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L +EL + + GY ++++ IDA+ P++ V+Y++ S Sbjct: 132 TAQHIATLTEPIDFCIELQIKRDRGYYTELRKNSQDES---YPIDAVSMPVQNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEESTNFEENKNRFT 247 Query: 250 LPF----------------NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++L+L R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 QPPLTLQKKLTNLKKNKKGVPLNSIFIDQLKLPSRTYNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 R+ NF + + K +L T+ L ++LP Sbjct: 308 RIDNFR---MEDGKQILDTLEKDLPIDLPK 334 >gi|311990458|gb|ADQ26359.1| RNA polymerase alpha subunit [Lactobacillus fermentum] Length = 242 Score = 272 bits (695), Expect = 6e-71, Method: Composition-based stats. Identities = 108/242 (44%), Positives = 163/242 (67%), 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 KGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 KG GY A ++T 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|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 = 272 bits (695), Expect = 6e-71, Method: Composition-based stats. Identities = 84/331 (25%), Positives = 165/331 (49%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 + +++ G IDA++ P++ ++++ Sbjct: 131 DNTQHIANLTEPIDFCIELEIERNRGYRMKTPNNSQD---GSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ +E ++++ N Sbjct: 188 SYANG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAQEENILLEDNQNGV 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 MKIEDFR---IEDVKQILGILQKHFTVDLPK 334 >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 = 272 bits (695), Expect = 6e-71, Method: Composition-based stats. Identities = 123/368 (33%), Positives = 195/368 (52%), Gaps = 30/368 (8%) Query: 2 IQKNWQELIK-----PNNIEYIVL---GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMS 53 + N Q L+ P +++ + + G + + +AEPL RG HTLGNALRR L+ Sbjct: 1 MSDNSQNLLYDKFELPESVKMMAVEGSGGSVDKQASFVAEPLERGMGHTLGNALRRALLI 60 Query: 54 SLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS---GDSHKRVTIFKRG 110 L AI + + GVLHE +I+G+ ED+T+I+LN+KG LK R T + Sbjct: 61 GLEAPAIISFSMTGVLHEYMAIEGIVEDVTNIVLNLKGALLKKYPFQDSEDGRCTQLLKS 120 Query: 111 --------------PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 +T D+ E +NPDHVI + + + L V+ G GY Sbjct: 121 TISVDASDLAACGGQKSITLADLLQEGGFESVNPDHVIFTVTQPMQLEIALRVAFGRGYS 180 Query: 157 PAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ E+ + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG ++ +++ Sbjct: 181 TSERIVLEDKGVNEIVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLILHVETDGRVSPKEA 240 Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK---KVEELELSVRSTNCL 273 +A +++IL +F +E K +E I+++ + L K + E+ELSVRSTNCL Sbjct: 241 LAFSTQILTKHFSIFEKMDEKKIVFEEAISIEKENKDDILHKLVLGINEIELSVRSTNCL 300 Query: 274 RGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEE 331 NI +G+L+ E +L+ NFG+KSL EIK L M L LGM+L + ++++E Sbjct: 301 SNANIETIGELVIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKE 360 Query: 332 LAKKYEDK 339 K Y +K Sbjct: 361 KMKSYAEK 368 >gi|290489692|gb|ADD31230.1| RNA polymerase alpha subunit protein [Liquidambar styraciflua] Length = 338 Score = 272 bits (695), Expect = 7e-71, Method: Composition-based stats. Identities = 77/332 (23%), Positives = 159/332 (47%), Gaps = 28/332 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 + ++ IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDLCIGLKMERNRGYRIKTPNNFQDRS---YPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNE-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLEDNQHKT 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 LMKIEHFR---IEDVKKILGILEKHFAIDLPK 335 >gi|84874036|gb|ABC68041.1| RNA polymerase subunit [Oryza officinalis] gi|84874042|gb|ABC68044.1| RNA polymerase subunit [Oryza australiensis] Length = 317 Score = 272 bits (695), Expect = 7e-71, Method: Composition-based stats. Identities = 95/320 (29%), Positives = 158/320 (49%), Gaps = 23/320 (7%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + + I PL +G A T+G ALRR L+ G IT + V HE S+I G+ Sbjct: 2 VDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGIE 61 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 62 ESVQEILLNLKEIVLRSNLYGVRNASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTE 121 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 R+EL + + GY T++ G IDA+ P++ V+Y++ S G Y+ Sbjct: 122 PTDFRIELRIKRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFSCGNG-NAKYE 177 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-------- 251 L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 178 ILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKRL 237 Query: 252 --------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + Sbjct: 238 TNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSFR---M 294 Query: 304 VEIKGVLGTMGLFLGMNLPD 323 + K + T+ L M+LP Sbjct: 295 QDGKQIWDTLEKHLPMDLPK 314 >gi|71056814|emb|CAH58962.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 243 Score = 272 bits (695), Expect = 7e-71, 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|300431322|gb|ADK12624.1| RNA polymerase alpha subunit [Amelichloa brevipes] Length = 339 Score = 271 bits (694), Expect = 8e-71, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL + +EL + + GY + ++ G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDLCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + + L +NL Sbjct: 308 RIDSFR---MEDGKQIWDNLEKHLPINL 332 >gi|300431288|gb|ADK12609.1| RNA polymerase alpha subunit [Jarava leptostachya] Length = 339 Score = 271 bits (694), Expect = 8e-71, Method: Composition-based stats. Identities = 90/328 (27%), Positives = 162/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I+ +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY + ++ G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +++ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEKNKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDGKQIWDTLEKHLPIDL 332 >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 = 271 bits (694), Expect = 8e-71, Method: Composition-based stats. Identities = 81/321 (25%), Positives = 160/321 (49%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 + ++ G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDLRIGLQIERNRGYGIKTPNNFQD---GSYPIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE K ++ + + Sbjct: 188 SYGTG-NEKQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHAEEEKFYLENNQHKV 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|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 = 271 bits (694), Expect = 8e-71, Method: Composition-based stats. Identities = 123/368 (33%), Positives = 195/368 (52%), Gaps = 30/368 (8%) Query: 2 IQKNWQELIK-----PNNIEYIVL---GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMS 53 + N Q L+ P +++ + + G + + +AEPL RG HTLGNALRR L+ Sbjct: 18 MSDNSQNLLYDKFELPESVKMMAVEGSGGSVDKQASFVAEPLERGMGHTLGNALRRALLI 77 Query: 54 SLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS---GDSHKRVTIFKRG 110 L AI + + GVLHE +I+G+ ED+T+I+LN+KG LK R T + Sbjct: 78 GLEAPAIISFSMTGVLHEYMAIEGIVEDVTNIVLNLKGALLKKYPFQDSEDGRCTQLLKS 137 Query: 111 --------------PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 +T D+ E +NPDHVI + + + L V+ G GY Sbjct: 138 TISVDASDLAACGGQKSITLADLLQEGGFESVNPDHVIFTVTQPMQLEIALRVAFGRGYS 197 Query: 157 PAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ E+ + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG ++ +++ Sbjct: 198 TSERIVLEDKGVNEIVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLILHVETDGRVSPKEA 257 Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK---KVEELELSVRSTNCL 273 +A +++IL +F +E K +E I+++ + L K + E+ELSVRSTNCL Sbjct: 258 LAFSTQILTKHFSIFEKMDEKKIVFEEAISIEKENKDDILHKLVLGINEIELSVRSTNCL 317 Query: 274 RGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEE 331 NI +G+L+ E +L+ NFG+KSL EIK L M L LGM+L + ++++E Sbjct: 318 SNANIETIGELVIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKE 377 Query: 332 LAKKYEDK 339 K Y +K Sbjct: 378 KMKSYAEK 385 >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 = 271 bits (694), Expect = 8e-71, Method: Composition-based stats. Identities = 108/297 (36%), Positives = 162/297 (54%), Gaps = 4/297 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ++ + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ + Sbjct: 18 DHYGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDVVE 77 Query: 85 IILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+K + ++ + + GP V A D D+E++NPD I L+ Sbjct: 78 IILNLKELVVRFLDPKMASTTLILRAEGPKEVRAVDFTPSADVEIMNPDLHIATLEEGGK 137 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + ME+ V +G GYVPA+ H ++ I I +DA++SP+++V++ VE R GQ D DKL+ Sbjct: 138 LYMEVRVDRGVGYVPAERHGIKDR-INAIPVDAIFSPVRRVAFQVEDTRLGQRTDLDKLT 196 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK-KVE 261 + I TDGS+T +++ A IL++ L F N E E + L +E Sbjct: 197 LRIWTDGSVTPLEALNQAVAILKEHLNYFANPEASSLPTPEVSKGEKRESAEEDLDLPLE 256 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 EL LS R + L+ E I + L+ D+ + G +SL EI+ L G L Sbjct: 257 ELGLSTRVLHSLKEEGIESVRALLALNLKDLRNIPGIGERSLEEIRQALAKKGFTLK 313 >gi|300431280|gb|ADK12605.1| RNA polymerase alpha subunit [Piptochaetium napostaense] Length = 339 Score = 271 bits (694), Expect = 8e-71, Method: Composition-based stats. Identities = 89/328 (27%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY + ++ G IDA+ P++ V+Y++ S Sbjct: 132 RAQPIANLTEPIDFCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL ++ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSKTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 ++ +F + + K + T+ L ++L Sbjct: 308 KIDSFR---MEDGKQIWDTLEKHLPIDL 332 >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 = 271 bits (694), Expect = 8e-71, Method: Composition-based stats. Identities = 99/244 (40%), Positives = 153/244 (62%) 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 LGMN 320 L + Sbjct: 241 LRKD 244 >gi|290489682|gb|ADD31225.1| RNA polymerase alpha subunit protein [Cornus florida] Length = 337 Score = 271 bits (694), Expect = 9e-71, Method: Composition-based stats. Identities = 81/329 (24%), Positives = 161/329 (48%), Gaps = 27/329 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 + ++ G IDA++ P++ ++++ Sbjct: 131 DNTQYIASLTEPIDLCIGLQIERNRGYRIKPPNNFQD---GNYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHTEEENLHLEDNQHKV 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 MKMKDFR---IEDVKEILDILEKRFATDL 332 >gi|119662337|emb|CAJ33157.1| RNA polymerase alpha subunit [Lactobacillus paracasei subsp. tolerans] Length = 230 Score = 271 bits (694), Expect = 9e-71, Method: Composition-based stats. Identities = 101/230 (43%), Positives = 152/230 (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 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 SI+ ++++LA++IL + L +F+N + K + + + L Sbjct: 181 SISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMT 230 >gi|306486177|gb|ADM92734.1| RNA polymerase alpha subunit protein [Davidia involucrata] Length = 328 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 78/320 (24%), Positives = 155/320 (48%), Gaps = 24/320 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 + ++ G IDA++ P++ ++++ Sbjct: 131 DSTQYIASLTEPIDLCIGLQIERNRGYRIKMPNNFQD---GSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHTEEENLHLEDNQHKV 246 Query: 249 SLP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP +++ EL R NCL+ NI + D + ++ D+ Sbjct: 247 TLPLFTFHEKLAKLRKNKKKIALKYIFIDQSELPTRIYNCLKRSNIYTLLDFLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGT 312 +++ +F + + EI G+L Sbjct: 307 MKIEHFRIEDVKEILGILEK 326 >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 = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 92/338 (27%), Positives = 165/338 (48%), Gaps = 20/338 (5%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++ N Q ++ +E V G+ P G A+T+G ++++ L+ + GAA++ Sbjct: 117 LKSNAQSALQWKCVETQVEGERLH-YGRFAVSPFRSGQANTVGVSMQKALLGEVEGAAVS 175 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V E +++KGV E DI++N+K + ++ D ++ I GPG VTAGDI Sbjct: 176 CATFKNVKSEYAAMKGVEETPMDILVNLKELVIRSDSDEPQKAIISAIGPGPVTAGDIVL 235 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +EV +P I L + + +EL V KG GY H ++ + G ID+++ P++ Sbjct: 236 PPSLEVTDPTQHIAYLTKEVSLDIELDVEKGCGYRMGDHTKSGD---GRFYIDSVFMPVR 292 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +Y+V S + + L + I T+GSIT E+++ A+R L D F++ ++ + Sbjct: 293 NANYSVHSYESEPDVTQEILFLEIWTNGSITPEEALHEAARCLIDLFLPFLHPKKKEVTN 352 Query: 242 KEDINVKSLPFNPALLKK-------------VEELELSVRSTNCLRGENIVYMGDLIQRT 288 KS + V++L + ++ N L+ NI + DL+ T Sbjct: 353 SATKMHKSFTMSQFNSSAEMSAKEVDLRHVYVDQLRIPSKAYNSLKRANINTVSDLLDYT 412 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 + D+L + NFGRKS+ +I L + ++LP+ P Sbjct: 413 QDDLLSIPNFGRKSVDDI---LEALQAQFSIDLPENNP 447 >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 = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 112/333 (33%), Positives = 185/333 (55%), Gaps = 11/333 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + IKP +E I E I +PL RG+ T+GNALRRVL+SSL G AI V+I G Sbjct: 5 KFIKPFFVEEI---DENPISGKFIIKPLERGYGITVGNALRRVLLSSLPGTAIVNVKIQG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDS---HKRVTIFKRGPGVVTAGDIQTVND 124 V E ++I GV+ED+ IILN+K I + +S +++ + +GP +TA + Sbjct: 62 VEQEFTTIPGVYEDVMTIILNLKKIVFAVDDESDDFEEKLELIAKGPQRLTASSFELPAG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSPIKKV 183 ++++NPDH I L D M +T+ KG GYV AK ++ + +G+I ID+L++P+ V Sbjct: 122 VKIINPDHYITTLSDDVCFHMTVTLKKGIGYVGAKDNKVHGENQVGVIAIDSLFTPVVNV 181 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VE ++ + D+L++ I T+G++ ++++A A+ IL D + + + V+ Sbjct: 182 SYQVE----KKLGNKDELTIEITTNGALLAKEALATAASILVDHFNVLVELSQKPAHVEF 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 K N L ++E+L+LSVR N L+ I + L++ +E +++++ + GRKS Sbjct: 238 VSESKKEAHNSVLDLEIEQLDLSVRLFNSLKRAGIDTVAALVKLSEKEVVKLKSLGRKSF 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKY 336 E+K GL L + S+EE K+ Sbjct: 298 QELKDKFLEYGLEFNDYLKEVLHHSVEEDKDKH 330 >gi|213420654|ref|ZP_03353720.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] Length = 271 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 115/277 (41%), Positives = 180/277 (64%), Gaps = 10/277 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|325473246|gb|EGC76441.1| DNA-directed RNA polymerase subunit alpha [Treponema denticola F0402] Length = 351 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 121/352 (34%), Positives = 184/352 (52%), Gaps = 13/352 (3%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M +KN + KP +E+ + E+ A P GF T+GN LRR+L+SS++G A Sbjct: 1 MARKNLLKGFKKPKGLEFAQ-QESTESYGKFTASPFETGFGTTIGNCLRRILLSSIQGYA 59 Query: 60 ITAVQI-----DGVLHEISS----IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK-R 109 I+AV I DGV H ISS I V ED +I+ +K I L++S +S + F+ + 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-DKC 340 ++ M N GR +L EI L L LGM +I+ +K E D+ Sbjct: 300 DEIESMRNVGRMTLNEIHAKLAEYNLRLGMTDYSHLKNTIKVSRQKEETDEA 351 >gi|300431320|gb|ADK12623.1| RNA polymerase alpha subunit [Amelichloa caudata] Length = 339 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I+ +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY + ++ G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSSTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDGKQIWDTLEKHLPIDL 332 >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 = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 97/304 (31%), Positives = 158/304 (51%), Gaps = 8/304 (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 AEGGSARERLRMEVVTDGSITPDDAIAQAANQLIELFQPLATVTMVEEVSAEPEPTAE-- 243 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 244 ----AQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGL 315 +G+ Sbjct: 300 RIGI 303 >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 = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 121/352 (34%), Positives = 184/352 (52%), Gaps = 13/352 (3%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M +KN + KP +E+ + E+ A P GF T+GN LRR+L+SS++G A Sbjct: 1 MARKNLLKGFKKPKGLEFAQ-QESTESYGKFTASPFETGFGTTIGNCLRRILLSSIQGYA 59 Query: 60 ITAVQI-----DGVLHEISS----IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK-R 109 I+AV I DGV H ISS I V ED +I+ +K I L++S +S + F+ + 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-DKC 340 ++ M N GR +L EI L L LGM +I+ +K E D+ Sbjct: 300 DEIESMRNVGRMTLNEIHAKLAEYNLRLGMTDYSHLKNTIKVSRQKEETDEA 351 >gi|324985144|gb|ADY69170.1| RNA polymerase subunit A [Photobacterium halotolerans] Length = 270 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 121/272 (44%), Positives = 181/272 (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++ + + + F+P LL+ V+ Sbjct: 182 VIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVD 238 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 +LEL+VRS NCL+ E I Y+GDL+QRTE ++L Sbjct: 239 DLELTVRSANCLKAEAIHYIGDLVQRTEVELL 270 >gi|300431335|gb|ADK12628.1| RNA polymerase alpha subunit [Achnatherum eminens] Length = 339 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 90/328 (27%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I+ +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY + ++ G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+G +T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGRLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDGKQIWDTLEKHLPIDL 332 >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 = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 119/322 (36%), Positives = 179/322 (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 LTLDSDDAVLNVELEVELGRGYRPPES--TENTPIGTIPVDAIFTPIRKVNFTTEPMHVG 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|84874032|gb|ABC68039.1| RNA polymerase subunit [Oryza glumipatula] Length = 317 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 94/320 (29%), Positives = 157/320 (49%), Gaps = 23/320 (7%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + + I PL +G A T+G ALRR L+ G IT + V HE S+I G+ Sbjct: 2 VDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGIE 61 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 62 ESVQEILLNLKEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTE 121 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 R+EL + + GY T++ G IDA+ P++ V+Y++ + G Y+ Sbjct: 122 PTDFRIELRIKRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFACGNG-NAKYE 177 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-------- 251 L + I T+GS+T +++ ASR L D F++ EE +E+ N + P Sbjct: 178 ILFLEIWTNGSLTPMEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKRL 237 Query: 252 --------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + Sbjct: 238 TNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSFR---M 294 Query: 304 VEIKGVLGTMGLFLGMNLPD 323 + K + T+ L M+LP Sbjct: 295 QDGKQIWDTLEKHLPMDLPK 314 >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 = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 101/308 (32%), Positives = 164/308 (53%), Gaps = 14/308 (4%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ V ++ + + PL RG A TLGNALRRVLM L G+A+TA++I GV HE Sbjct: 7 DRIEHQVEEDRSQS-GVFLIGPLERGQATTLGNALRRVLMGGLEGSAVTAIRIAGVNHEY 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 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN---FEEPKKEVKEDINVK 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 ---------IPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIE 296 Query: 309 VLGTMGLF 316 L +G+ Sbjct: 297 ALERIGIS 304 >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 = 271 bits (692), Expect = 1e-70, Method: Composition-based stats. Identities = 81/328 (24%), Positives = 161/328 (49%), 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 + + ++ G IDA++ P++ ++++ Sbjct: 131 DNTQHIARLMEPIDLCIGLQIERNRGYSIKRPNNFQD---GSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++ + + Sbjct: 188 SYGNG-NERQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEETLHLEYNQHKS 246 Query: 249 SLPF----------------NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP +++LEL R NCL+ NI + DL+ +++ D+ Sbjct: 247 TLPPLTFHDRLAKLRKNKKEIELKYIFIDQLELPPRIYNCLKRSNIHTLLDLLNKSQKDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMN 320 +++ +F + ++K +LG + ++ Sbjct: 307 MKIEDFR---IEDVKQLLGILEKHFTID 331 >gi|317968839|ref|ZP_07970229.1| DNA-directed RNA polymerase subunit alpha [Synechococcus sp. CB0205] Length = 312 Score = 271 bits (692), Expect = 1e-70, Method: Composition-based stats. Identities = 96/309 (31%), Positives = 165/309 (53%), Gaps = 8/309 (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 GQVLD-YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 G+ ++L + I TDGS+T +D++A A+ L + +++ +E Sbjct: 186 GEGGSARERLRLEIQTDGSLTPDDAMAQAANQLITLIQPMATLTMEEEQGQEPEPSAE-- 243 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 244 ----AQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLFLGMN 320 +G+ L + Sbjct: 300 RIGISLPQS 308 >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 = 271 bits (692), Expect = 1e-70, Method: Composition-based stats. Identities = 114/318 (35%), Positives = 172/318 (54%), Gaps = 25/318 (7%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 E + + EPL RG+ T+GN +RR+LMSS+ G A+T+V I+ VLHE S+I GV ED+ Sbjct: 13 EGDYGEFVLEPLTRGYGVTIGNPIRRILMSSIPGTAVTSVYIEDVLHEFSTIPGVKEDVI 72 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 IILN+K + +K K +T+ +G GVV A + +D E++NPD I L D + Sbjct: 73 RIILNLKELVVKFHAPGPKTLTLRAQGEGVVKASAFEVPSDAEIVNPDLTIATLAEDGKL 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 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE-------------------- 243 I TDGS+ ++++ A IL+D+L +F N E E Sbjct: 192 RIWTDGSVGPQEALDRAVEILRDELTVFGNVETVSAAAPELPSVYTPAAPIVSGYDLPRQ 251 Query: 244 ---DINVKSLPFN-PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 IN + P + +E L L+ R + L+ E I + L ++ D+ ++ G Sbjct: 252 PELSINPQPYPADLDTPRVTLEGLGLTTRVLHSLKEEGIDSVDALCALSDRDLKKVPGIG 311 Query: 300 RKSLVEIKGVLGTMGLFL 317 +SL EIK L GL L Sbjct: 312 ERSLDEIKQQLAQFGLAL 329 >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 = 271 bits (692), Expect = 1e-70, 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 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF---INFEEPKKEVKEDINVK 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 ---------IPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIE 296 Query: 309 VLGTMGLF 316 L +G+ Sbjct: 297 ALERIGIS 304 >gi|156598227|gb|ABU85377.1| RNA polymerase alpha subunit [Elaeis oleifera] Length = 339 Score = 271 bits (692), Expect = 2e-70, Method: Composition-based stats. Identities = 88/334 (26%), Positives = 163/334 (48%), Gaps = 24/334 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RR L+ + G IT + + V Sbjct: 13 LRWKCVES-RVDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKVA 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + +I RGP VTA DI + +E+++ Sbjct: 72 HEYSTIVGIEESVHEILLNLKEIILRSNLYGVIDASICVRGPRYVTAQDIISPPYVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL + +EL + + GY + +++ G IDA+ P++ ++++ S Sbjct: 132 TTQHIANLTEPIDLCIELQIKRDRGYRMKSANNSQD---GSYPIDAVSMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + L + I T+GS+T ++++ ASR L D F++ EE +E+ N Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEEDINFEENKNRFP 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 K+ P +++ EL R+ NCL+G NI + DL+ ++ D++ Sbjct: 248 LPLFTFQNRLTNLKKNKKGIPLKCIFIDQSELPSRTYNCLKGSNIHTLSDLLSNSQEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 R+ F + ++K +L T+ + ++L + Sbjct: 308 RIKFFR---IEDVKQILDTLQKYFAIDLSKNKNK 338 >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 = 271 bits (692), Expect = 2e-70, 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 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF---INFEEPKKEVKEDINVK 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 ---------IPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIE 296 Query: 309 VLGTMGLF 316 L +G+ Sbjct: 297 ALERIGIS 304 >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 = 271 bits (692), Expect = 2e-70, Method: Composition-based stats. Identities = 115/310 (37%), Positives = 185/310 (59%), Gaps = 7/310 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + G Sbjct: 19 ITEVKESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDG 78 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V E +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ VIC + Sbjct: 79 VKEAVTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQVICTV 138 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D Sbjct: 139 TTDRTLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTD 198 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI-------NFEEPKKEVKEDINVKSL 250 +DKL++ ++TDGSI D+++ A +L+ L F+ N + +E+ E+ + Sbjct: 199 FDKLTLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEIIEEPMDIQV 258 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + Sbjct: 259 VDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKM 318 Query: 311 GTMGLFLGMN 320 +G L N Sbjct: 319 KDLGYDLEKN 328 >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 = 271 bits (692), Expect = 2e-70, Method: Composition-based stats. Identities = 119/322 (36%), Positives = 179/322 (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 LTLDSDDAVLNVELEVELGRGYRAPES--TENTPIGTIPVDAIFTPIRKVNFTTEPMHVG 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|290489656|gb|ADD31212.1| RNA polymerase alpha subunit protein [Aucuba japonica] Length = 349 Score = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 78/328 (23%), Positives = 158/328 (48%), Gaps = 27/328 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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+ + ++ G IDA++ P++ V+Y++ Sbjct: 131 DKTQHIASLTEPIDLCIGLQIERNRGYLIKTPNNFQD---GSYPIDAVFMPVRNVNYSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV- 247 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEENLHLEDNQHTV 246 Query: 248 ---------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 K+ +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 247 PLSPFTFHDKLAKLRKNKNKIALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMN 320 +++ F + ++K +LG + ++ Sbjct: 307 MKIEQFR---IQDVKQILGILEKHFAID 331 >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 = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 115/310 (37%), Positives = 185/310 (59%), Gaps = 7/310 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + G Sbjct: 29 ITEVKESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDG 88 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V E +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ VIC + Sbjct: 89 VKEAVTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQVICTV 148 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D Sbjct: 149 TTDRTLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTD 208 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI-------NFEEPKKEVKEDINVKSL 250 +DKL++ ++TDGSI D+++ A +L+ L F+ N + +E+ E+ + Sbjct: 209 FDKLTLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEIIEEPMDIQV 268 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + Sbjct: 269 VDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKM 328 Query: 311 GTMGLFLGMN 320 +G L N Sbjct: 329 KDLGYDLEKN 338 >gi|156598421|gb|ABU85470.1| RNA polymerase alpha subunit [Musa acuminata] Length = 339 Score = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 88/332 (26%), Positives = 160/332 (48%), Gaps = 24/332 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + + PL +G A T+G A+RR L+ + G IT + V Sbjct: 13 LQWRCVES-RVDSKRLYYGRFVLSPLMKGQADTIGIAMRRALLGEIEGTCITRANSEKVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I RGP VTA DI + +E+++ Sbjct: 72 HEYSTIIGIEESVHEILLNLKEIVLRSNIYGVRDASICARGPKYVTAQDIISPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL + + L + + GY ++N G IDA+ P++ ++++ S Sbjct: 132 TTQHIANLTEPIDLCIGLQIRRDRGYRTKPTTNSQN---GSYPIDAVSMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L D F++ EE KE+ N + Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEEDINFKENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 LP P +++ EL R+ NCL+ NI + DL+ +++ D++ Sbjct: 248 LPIFTFQDRLTNLKKNKKEIPLKCIFIDQSELPSRTYNCLKRSNIHTLLDLLNKSQEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 R+ F + ++K + T+ ++LP Sbjct: 308 RIEYFR---IEDVKEISDTLQKHFAIDLPKNQ 336 >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 = 80/319 (25%), Positives = 157/319 (49%), Gaps = 21/319 (6%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + +I +GPG VTA DI +E+++ Sbjct: 72 HEYSTIVGIQESVHEILMNLKEIVLRSNLYGTCNASICVKGPGCVTAQDIILPPSVEIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I +L + + L + + GY + ++ G IDA++ P++ ++++ S Sbjct: 132 NTQHIASLMEPINLCIGLQIERNRGYHIKTPNNFQD---GSYPIDAVFMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L D L F++ EE ++ + + Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLLIPFLHAEEENLHLENNQYKVT 247 Query: 250 LPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 LP + +++LEL R N L+ NI + DL+ +++ D++ Sbjct: 248 LPLFTFHDRLTKLRKTKKGIALKYIFIDQLELPPRIYNFLKKSNIHTLLDLLNKSQEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGT 312 ++ +F R+ + +I +L Sbjct: 308 KIKHFRREDVKQILDILEI 326 >gi|165910447|gb|ABY73978.1| RNA polymerase alpha subunit [Cuscuta japonica] Length = 332 Score = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 82/327 (25%), Positives = 157/327 (48%), Gaps = 26/327 (7%) Query: 14 NIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 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 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV-- 247 + L + I T+GS+T ++++ ASR L D F++ E+ +++ + Sbjct: 189 YGNE---KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEKENLPLEDADHTIP 245 Query: 248 -----------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 K+ +++LE + NCL+ NI + DL+ ++ D++++ Sbjct: 246 LSPFTVYYKVAKNKKKLSLESLFIDQLEFPPKIYNCLKKSNIFTLLDLLNNSQEDLIKIE 305 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +F L ++K +L +G ++LP Sbjct: 306 HFR---LEDVKQILAILGKHFALDLPK 329 >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 = 270 bits (691), Expect = 2e-70, 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 SEGGSTRERLRMEIVTDGSITPDDAVAEAANQLIELFQPLATVTMVEEVPQEPEPTAE-- 243 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 244 ----AQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >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 = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 121/273 (44%), Positives = 184/273 (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++ + + + F+P LL+ V++LEL+ Sbjct: 181 TNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELT 237 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 VRS NCL+ E I Y+GDL+QRTE ++L+ N G Sbjct: 238 VRSANCLKAEAIHYIGDLVQRTEVELLKTPNLG 270 >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 = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 115/310 (37%), Positives = 185/310 (59%), Gaps = 7/310 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + G Sbjct: 19 ITEVKESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDG 78 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V E +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ VIC + Sbjct: 79 VKEAVTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQVICTV 138 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D Sbjct: 139 TTDRTLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTD 198 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI-------NFEEPKKEVKEDINVKSL 250 +DKL++ ++TDGSI D+++ A +L+ L F+ N + +E+ E+ + Sbjct: 199 FDKLTLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEIIEEPMDIQV 258 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + Sbjct: 259 IDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKM 318 Query: 311 GTMGLFLGMN 320 +G L N Sbjct: 319 KDLGYDLEKN 328 >gi|71056830|emb|CAH58970.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] Length = 243 Score = 270 bits (691), Expect = 2e-70, 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|303308472|gb|ADM14339.1| RNA polymerase alpha subunit [Punica granatum] Length = 337 Score = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 79/319 (24%), Positives = 154/319 (48%), Gaps = 21/319 (6%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ +I +GPG VTA DI +E+++ Sbjct: 72 HEYSTIVGIQESVHEILMNLKEIVLRSYLYGTCNASICVKGPGCVTAQDIILPPSVEIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I +L + + L + + GY + ++ G IDA++ P++ ++++ S Sbjct: 132 NTQHIASLMEPINLCIGLQIERNRGYHIKTPNNFQD---GSYPIDAVFMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV-- 247 G + L + I T+GS+T ++++ ASR L D L F++ EE ++ + Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLLIPFLHAEEENLHLENNQYKVT 247 Query: 248 --------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 K+ +++LEL R N L+ NI + DL+ +++ D++ Sbjct: 248 LPLFTFHDRLTKLRKTKKEIALKYIFIDQLELPPRIYNFLKKSNIHTLLDLLNKSQEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGT 312 ++ +F R+ + +I +L Sbjct: 308 KIKHFRREDVEQILDILEI 326 >gi|317016849|gb|ADU85965.1| DNA-directed RNA polymerase alpha chain [Lactobacillus fabifermentans] Length = 235 Score = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 103/235 (43%), Positives = 154/235 (65%), Gaps = 2/235 (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 LTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +T + G GYV A+ ++ ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL++ Sbjct: 121 MTANTGRGYVSAEDNKHREDDMPIGVLPVDSLYSPIERVNYQVENTRVGQRDDFDKLTLD 180 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 + T+GSIT ++++L+++IL D L +F+N + K + + L Sbjct: 181 VWTNGSITPSEAISLSAKILTDHLSIFVNLTDEAKNTDVMVEKEETHKEKMLEMT 235 >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 = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 124/328 (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 VVNPSQYIATLNTDSVIYIELFAEIGRGFVPVSEMEIEHDVE-MIYIDGIFSPVLKVNFQ 192 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN------------- 233 E+ R G+ DYDKL + + T SIT D++ A+ IL +F N Sbjct: 193 TENVRVGKRTDYDKLILDVWTKKSITPSDALLRATDILIRHFEVFSNGLGKPGQGLTSSA 252 Query: 234 --------FEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLI 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|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 = 270 bits (690), Expect = 2e-70, Method: Composition-based stats. Identities = 88/330 (26%), Positives = 162/330 (49%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RR L+ + G IT + + V Sbjct: 13 LRWKCVES-RVDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKVA 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + +I RGP VTA DI + +E+++ Sbjct: 72 HEYSTIVGIEESVHEILLNLKEIILRSNLYGVIDASICVRGPRYVTAKDIISPPYVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL + +EL + + GY + +++ G IDA+ P++ ++++ S Sbjct: 132 TTQHIANLTEPIDLCIELQIKRDRGYRMKSANNSQD---GSYPIDAVSMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + L + I T+GS+T ++++ ASR L D F++ EE +E+ N Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEEDINFEENKNRFP 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 K+ P +++ EL R+ NCL+G NI + DL+ ++ D++ Sbjct: 248 LPLFTFQDRLTNLKKNKKGIPLKCIFIDQSELPSRTYNCLKGSNIHTLSDLLNNSQEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 R+ F + ++K +L T+ + ++L Sbjct: 308 RIEFFR---IEDVKQILDTLQKYFAIDLSK 334 >gi|84874040|gb|ABC68043.1| RNA polymerase subunit [Oryza punctata] Length = 317 Score = 270 bits (690), Expect = 2e-70, Method: Composition-based stats. Identities = 95/320 (29%), Positives = 158/320 (49%), Gaps = 23/320 (7%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + + I PL +G A T+G ALRR L+ G IT + V HE S+I G+ Sbjct: 2 VDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGIE 61 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 62 ESVQEILLNLKEIVLRSNLYGVRNASICVKGPRYITAQDIILPPSVEIVDTAQPIANLTE 121 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 R+EL + + GY T++ G IDA+ P++ V+Y++ S G Y+ Sbjct: 122 PEDFRIELRIKRDRGYHTEVRKNTQD---GSYPIDAVSMPVRNVNYSIFSCGNG-NAKYE 177 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-------- 251 L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 178 ILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKRL 237 Query: 252 --------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + Sbjct: 238 TNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSFR---M 294 Query: 304 VEIKGVLGTMGLFLGMNLPD 323 + K + T+ L M+LP Sbjct: 295 QDGKQIWDTLEKHLPMDLPK 314 >gi|290489700|gb|ADD31234.1| RNA polymerase alpha subunit protein [Staphylea colchica] Length = 342 Score = 270 bits (690), Expect = 2e-70, Method: Composition-based stats. Identities = 82/334 (24%), Positives = 161/334 (48%), 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 + + G IDA++ P++ V+Y++ Sbjct: 131 DNTQHIASLTEPMDLCIGLQIERNRGYSIKTPNNF-HFQDGSYPIDAVFMPVRNVNYSIH 189 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++ + + Sbjct: 190 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEDNGHLENNHHKL 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 EDLLKIEDLR---IEDVKQILDILEIENTIDLPK 339 >gi|300431295|gb|ADK12612.1| RNA polymerase alpha subunit [Aciachne acicularis] Length = 339 Score = 270 bits (690), Expect = 2e-70, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 160/328 (48%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDITLPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY + ++ G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D+ Sbjct: 248 PPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLR 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDGKQIWDTLEKHLPIDL 332 >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 = 270 bits (690), Expect = 2e-70, Method: Composition-based stats. Identities = 85/332 (25%), Positives = 158/332 (47%), Gaps = 27/332 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 DNTQHIARLMEPINLCIRLEIERNRGYLIKT---PQNFQDGSYPIDAVFMPIRNANYSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV- 247 S G + L + I T+GS+T ++++ ASR L D F++ EE ++ + + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHQASRNLIDLFIPFLHMEEQNSHLENNQHTV 246 Query: 248 ---------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 K+ +++ EL R NCL+ NI + DL+ ++ ++ Sbjct: 247 PLAPFFFHDKLDKLRKNKKEIALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQENL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 +++ +F + ++K +LG + L + LP Sbjct: 307 MKIEHFH---IEDVKEILGILEKQLVIFLPKK 335 >gi|71056838|emb|CAH58974.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] Length = 237 Score = 270 bits (690), Expect = 2e-70, 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|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 = 270 bits (690), Expect = 2e-70, Method: Composition-based stats. Identities = 93/328 (28%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIELQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ +L M+L Sbjct: 308 RIESFR---MEDRKQIWDTLEKYLPMDL 332 >gi|157493263|gb|ABV57997.1| RNA polymerase alpha subunit [Vibrio mimicus] Length = 270 Score = 270 bits (690), Expect = 2e-70, Method: Composition-based stats. Identities = 121/273 (44%), Positives = 185/273 (67%), 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++ + + + F+P LL+ V++LEL+VRS NC Sbjct: 181 PEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANC 237 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 238 LKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 270 >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 = 270 bits (690), Expect = 2e-70, Method: Composition-based stats. Identities = 98/304 (32%), Positives = 159/304 (52%), Gaps = 8/304 (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 AEGGSARERLRMEVVTDGSITPDDAIAQAANQLIELFQPLATVTMVEEVSAEPEPTAE-- 243 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 244 ----AQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGL 315 +G+ Sbjct: 300 RIGI 303 >gi|84874044|gb|ABC68045.1| RNA polymerase subunit [Oryza granulata] Length = 317 Score = 270 bits (690), Expect = 2e-70, Method: Composition-based stats. Identities = 94/320 (29%), Positives = 158/320 (49%), Gaps = 23/320 (7%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + + I PL +G A T+G ALRR L+ G IT + V HE S+I G+ Sbjct: 2 VDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGIE 61 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 62 ESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDMAQPIANLTE 121 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 R+EL + + GY ++ G IDA+ P++ V+Y++ S G Y+ Sbjct: 122 PMDFRIELRIKRDRGYHTEVRKNAQD---GSYPIDAVSMPVRNVNYSIFSCGNG-NAKYE 177 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-------- 251 L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 178 ILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKRL 237 Query: 252 --------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + Sbjct: 238 TNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSFR---M 294 Query: 304 VEIKGVLGTMGLFLGMNLPD 323 + K + T+ +L M+LP Sbjct: 295 QDGKQIWDTLEKYLPMDLPK 314 >gi|124020697|gb|ABM88794.1| DNA-directed RNA polymerase alpha chain [Enterococcus camelliae] Length = 223 Score = 270 bits (690), Expect = 3e-70, Method: Composition-based stats. Identities = 104/222 (46%), Positives = 150/222 (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 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 TDGSI D+++LA++I+ + L +F+N + K + + + Sbjct: 182 TDGSIEPLDAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKE 223 >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 = 270 bits (690), Expect = 3e-70, Method: Composition-based stats. Identities = 81/328 (24%), Positives = 157/328 (47%), Gaps = 26/328 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV- 247 S + L + I T+GS+T ++++ ASR L D F++ E+ +++ + Sbjct: 188 SYGNE---KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEKENLPLEDADHTI 244 Query: 248 ------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 K+ +++LE + NCL+ NI + DL+ ++ D++++ Sbjct: 245 PLSPFTVYYKVAKNKKKLSLESLFIDQLEFPPKIYNCLKKSNIFTLLDLLNNSQEDLIKI 304 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +F L ++K +L +G ++LP Sbjct: 305 EHFR---LEDVKQILAILGKHFALDLPK 329 >gi|12661177|gb|AAK01152.2|AF311314_2 RPoA [Marsilea quadrifolia] Length = 347 Score = 269 bits (689), Expect = 3e-70, Method: Composition-based stats. Identities = 85/337 (25%), Positives = 165/337 (48%), Gaps = 22/337 (6%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E+I+ +E+ + + + P +G A+T+G A+RR L+ + GA+IT+ + + Sbjct: 16 NEVIQWKCVEFRIESKRLH-YGRFVISPFKKGQANTVGIAMRRALLGEVGGASITSARFE 74 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV HE S++ G+ E + DI++N+K I L+ D +++ + GP VTAGDI ++ Sbjct: 75 GVAHEYSTVAGIQETIHDILVNLKEIVLRSDSDGNQKAILSVTGPKRVTAGDISLPPSVK 134 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 V++ I + V +EL + GY + + G +DA++ P++ V+Y+ Sbjct: 135 VIDDSQYIVTITQPISVNIELNIECDCGYRIESLNEYRD---GEFPVDAVFMPVRNVNYS 191 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED-- 244 V G+ + + L + + T+GS+T ++++ AS+ D L F++ + E Sbjct: 192 VHPFGSGKEM-REILFIEVWTNGSLTPTEAISKASKSSIDLLSPFLHTKHEDIPDFESNR 250 Query: 245 ------------INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +V + +++LEL R+ NCL+ I + DL+ + D+ Sbjct: 251 DSSSLMKFSSRVDDVDKSEGDFFKNTFIDQLELPARAFNCLKRAEIHTISDLLSYSRDDL 310 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 L++ +FG+KS+ ++ L LP+ P + Sbjct: 311 LKLKSFGKKSVDQVSRALWE---RFATELPNEKPRVV 344 >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 = 269 bits (689), Expect = 3e-70, Method: Composition-based stats. Identities = 110/320 (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 TIDTDGSITGEDSVALASRILQDQLGMFINFEE-------------------------PK 238 + TDGS +D++ + IL+D+L +F N E P Sbjct: 192 RVWTDGSTGPQDALDKSVEILRDELTVFGNVEALPALVSDVAPVYTPTPVPAHNVYDLPP 251 Query: 239 KEVKEDINVKSLPFN-PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++N P + +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 = 269 bits (689), Expect = 3e-70, Method: Composition-based stats. Identities = 113/310 (36%), Positives = 187/310 (60%), Gaps = 7/310 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I +E ++ I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + G Sbjct: 19 ITEVKESNYKSQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDG 78 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V E +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ +IC + Sbjct: 79 VKEAVTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQIICTV 138 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D Sbjct: 139 TTDRTLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTD 198 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVK---SL 250 +DKL++ ++TDGSI D+++ A +L+ L F+ E + +++E ++ + Sbjct: 199 FDKLTLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEMVDEPMDIQV 258 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + Sbjct: 259 IDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKM 318 Query: 311 GTMGLFLGMN 320 +G L N Sbjct: 319 KDLGYDLEKN 328 >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 = 269 bits (689), Expect = 3e-70, 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 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF---INFEEPKKEVKEDINVK 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 ---------IPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIE 296 Query: 309 VLGTMGLF 316 L +G+ Sbjct: 297 ALERIGIS 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 = 269 bits (689), Expect = 3e-70, 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 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF---INFEEPKKEVKEDINVK 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 ---------IPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIE 296 Query: 309 VLGTMGLF 316 L +G+ Sbjct: 297 ALERIGIS 304 >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 = 269 bits (689), Expect = 3e-70, Method: Composition-based stats. Identities = 97/305 (31%), Positives = 164/305 (53%), 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++ V+ P Sbjct: 186 AEGGSARERLRIEISTDGSITPDDALAQTANQLLELFQPLATVT-----LVEEVGVEPEP 240 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 A + +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 241 SAEAQI-PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >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 (689), Expect = 3e-70, Method: Composition-based stats. Identities = 77/320 (24%), Positives = 155/320 (48%), Gaps = 24/320 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 + + G +DA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDLCIGLQIERNRGYRIKTPNNFHD---GSYPLDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + L + I T+GS+T ++++ ASR L D F++ EE ++ + + Sbjct: 188 CYGND-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLENNQHNV 246 Query: 249 SLPFNPALLKK----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LPF P + +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPFFPFHDRLAKLRKKKKEIALKYIFIDQSELPPRIYNCLKKSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGT 312 +++ +F + + +I G+L Sbjct: 307 MKIEHFRIEDVKQILGILEK 326 >gi|256027710|ref|ZP_05441544.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium sp. D11] Length = 326 Score = 269 bits (689), Expect = 3e-70, Method: Composition-based stats. Identities = 113/310 (36%), Positives = 186/310 (60%), Gaps = 7/310 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I +E ++ I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + G Sbjct: 13 ITEVKESNYKSQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDG 72 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V E +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ +IC + Sbjct: 73 VKEAVTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQIICTV 132 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D Sbjct: 133 TTDRTLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTD 192 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI-------NFEEPKKEVKEDINVKSL 250 +DKL++ ++TDGSI D+++ A +L+ L F+ N + +E+ ++ + Sbjct: 193 FDKLTLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEIVDEPMDIQV 252 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + Sbjct: 253 IDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKM 312 Query: 311 GTMGLFLGMN 320 +G L N Sbjct: 313 KDLGYDLEKN 322 >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 = 269 bits (689), Expect = 3e-70, Method: Composition-based stats. Identities = 113/310 (36%), Positives = 187/310 (60%), Gaps = 7/310 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I +E ++ I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + G Sbjct: 29 ITEVKESNYKSQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDG 88 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V E +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ +IC + Sbjct: 89 VKEAVTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQIICTV 148 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D Sbjct: 149 TTDRTLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTD 208 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVK---SL 250 +DKL++ ++TDGSI D+++ A +L+ L F+ E + +++E ++ + Sbjct: 209 FDKLTLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEMVDEPMDIQV 268 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + Sbjct: 269 IDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKM 328 Query: 311 GTMGLFLGMN 320 +G L N Sbjct: 329 KDLGYDLEKN 338 >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 = 269 bits (689), Expect = 4e-70, Method: Composition-based stats. Identities = 85/337 (25%), Positives = 165/337 (48%), Gaps = 22/337 (6%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E+I+ +E+ + + + P +G A+T+G A+RR L+ + GA+IT+ + + Sbjct: 10 NEVIQWKCVEFRIESKRLH-YGRFVISPFKKGQANTVGIAMRRALLGEVGGASITSARFE 68 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV HE S++ G+ E + DI++N+K I L+ D +++ + GP VTAGDI ++ Sbjct: 69 GVAHEYSTVAGIQETIHDILVNLKEIVLRSDSDGNQKAILSVTGPKRVTAGDISLPPSVK 128 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 V++ I + V +EL + GY + + G +DA++ P++ V+Y+ Sbjct: 129 VIDDSQYIVTITQPISVNIELNIECDCGYRIESLNEYRD---GEFPVDAVFMPVRNVNYS 185 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED-- 244 V G+ + + L + + T+GS+T ++++ AS+ D L F++ + E Sbjct: 186 VHPFGSGKEM-REILFIEVWTNGSLTPTEAISKASKSSIDLLSPFLHTKHEDIPDFESNR 244 Query: 245 ------------INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +V + +++LEL R+ NCL+ I + DL+ + D+ Sbjct: 245 DSSSLMKFSSRVDDVDKSEGDFFKNTFIDQLELPARAFNCLKRAEIHTISDLLSYSRDDL 304 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 L++ +FG+KS+ ++ L LP+ P + Sbjct: 305 LKLKSFGKKSVDQVSRALWE---RFATELPNEKPRVV 338 >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 = 269 bits (689), Expect = 4e-70, Method: Composition-based stats. Identities = 100/305 (32%), Positives = 160/305 (52%), Gaps = 8/305 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + I++ + + L + PL RG A TLGN+LRRVLM L G+A+TAV+I GV HE Sbjct: 7 DRIDHQISDDRSQT-GLFLIGPLERGQATTLGNSLRRVLMGGLEGSAVTAVRISGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K +++ + + GP V A D+Q + ++V++ D Sbjct: 66 ATIPGVREDVLDILLNCKQLSVNSRSPELEIGRLVVNGPAEVKARDVQFSSQVQVVDGDR 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +EL V +G GY P H E I L+ IDA++ PIKKV++ ++ Sbjct: 126 PIATVHSGHSLELELHVERGVGYRPVDRHNEETTSIDLLHIDAVFMPIKKVNFNIDETAV 185 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L M I TDGS++ +D++A A+ L + ++ +E Sbjct: 186 AEGGSTRERLKMEIVTDGSMSPDDALAEAANQLIELFQPLATVTMVEEIPQEPEPSAE-- 243 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 244 ----AQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >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 = 269 bits (688), Expect = 4e-70, Method: Composition-based stats. Identities = 118/349 (33%), Positives = 186/349 (53%), Gaps = 21/349 (6%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + P+ I E N +AEP RGF HT+GNALRR+++SSL AI +V+++G Sbjct: 7 KFEMPHKITVDQ-ESPESNFARYVAEPFERGFGHTIGNALRRMMLSSLEAPAIISVRVEG 65 Query: 68 VLHEISSIKGVHEDLTDIILNIKG-INLKMSGDSHKRVT--------------IFKRGPG 112 + HE +I+G+ ED+T+IILN KG + K+ + R T +G Sbjct: 66 IPHEYMAIEGISEDMTNIILNFKGALLRKLPTEETPRDTRILTKVVEVTQDDLDRNQGQY 125 Query: 113 VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT 172 VT D+ + E++NP+ + + +++L ++ G GYVP++ H + I Sbjct: 126 CVTLQDVVQEGNFEIVNPELHLFTVTKPMRRQVDLRIAFGRGYVPSERHVVRDKTSDEIL 185 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 +DA +SP++ ++Y +E+ R GQ D+D+L M + TDG IT ++++ A +I +F Sbjct: 186 VDAAFSPVRLINYFIENTRVGQDTDFDRLIMEVTTDGRITPAEALSFAVQIGLKHFEVFN 245 Query: 233 NFEEPKKEVKE---DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 F E D N L ++E+ELSVRS NCL G NI + +L+ E Sbjct: 246 QFNNYALSFDEKDGDRNGDQDELMDKLSLGIDEIELSVRSANCLTGANIETLAELVCIPE 305 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP--PESIEELAKKY 336 ML NFG+KSL EIK L M L LGM+L + P+++++ K+Y Sbjct: 306 RRMLEFRNFGKKSLNEIKAKLHEMSLHLGMDLSRFGVSPDNVKDKIKQY 354 >gi|71056806|emb|CAH58958.1| DNA-directed RNA polymerase alpha chain [Enterococcus italicus DSM 15952] Length = 234 Score = 269 bits (688), Expect = 4e-70, Method: Composition-based stats. Identities = 105/233 (45%), Positives = 150/233 (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 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 TDGSI D+++LA++I+ + L +F+N + K + + + L Sbjct: 182 TDGSIEPLDAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMT 234 >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 = 269 bits (688), Expect = 4e-70, Method: Composition-based stats. Identities = 82/330 (24%), Positives = 157/330 (47%), Gaps = 28/330 (8%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + PL +G A T+G A+RR L+ + G IT + + V Sbjct: 13 LQWKCVESKA-DSKRLYYGRFVLSPLMKGQADTIGTAMRRSLLGEIEGTCITCAKSERVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I ++ + I RGP VTA DI + +++++ Sbjct: 72 HEYSTIVGIEESVHEILMNLKEIIVRSDLYGTRDAFICVRGPKYVTAQDIISPPSVKIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I ++ + L + + GY ++ + IDA+ P++ +Y+++ Sbjct: 132 TTQHIASITEPINFCIGLEIERNRGYRTRTTNQDAS-----YPIDAVSMPVRNANYSIQC 186 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + L + I T+GS+T ++++ ASR L D F++ EE + +D N+ + Sbjct: 187 YGNE-NEKQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEERDLHLDDDQNIFT 245 Query: 250 LPFNPALL------------------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 PF P +++LELS R+ NCL+ NI + DL+ +++ D Sbjct: 246 APFFPFHEGLAYIGIGESKKRIALKRIFIDQLELSPRTYNCLKRSNIHTLLDLLSKSQED 305 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 + ++ +F + ++K VL + MNL Sbjct: 306 LRKIQHFR---VEDVKRVLDILKKRFAMNL 332 >gi|290489688|gb|ADD31228.1| RNA polymerase alpha subunit protein [Gunnera manicata] Length = 330 Score = 269 bits (688), Expect = 4e-70, Method: Composition-based stats. Identities = 82/325 (25%), Positives = 163/325 (50%), Gaps = 27/325 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 DNTQHIASLTEPIDLCIQLQIEKNRGYRIKTPNTYQD---GSYPIDAVFMPVRNANHSIH 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|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 = 269 bits (688), Expect = 4e-70, Method: Composition-based stats. Identities = 113/310 (36%), Positives = 186/310 (60%), Gaps = 7/310 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I +E ++ I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + G Sbjct: 29 ITEVKESNYKSQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDG 88 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V E +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ +IC + Sbjct: 89 VKEAVTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQIICTV 148 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D Sbjct: 149 TTDRTLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTD 208 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI-------NFEEPKKEVKEDINVKSL 250 +DKL++ ++TDGSI D+++ A +L+ L F+ N + +E+ ++ + Sbjct: 209 FDKLTLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEIVDEPMDIQV 268 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + Sbjct: 269 IDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKM 328 Query: 311 GTMGLFLGMN 320 +G L N Sbjct: 329 KDLGYDLEKN 338 >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 = 269 bits (688), Expect = 4e-70, Method: Composition-based stats. Identities = 94/305 (30%), Positives = 160/305 (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 + ++ + Sbjct: 186 AEGGTGRERLTMEVVTDGSTSPDDAIAEAANQLIELFQPLATVTMVEEI------PEEPE 239 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 240 PSPEAQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >gi|300431293|gb|ADK12611.1| RNA polymerase alpha subunit [Piptatherum miliaceum] Length = 339 Score = 269 bits (688), Expect = 4e-70, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 160/328 (48%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTLAGIEESVQEILLNLKEIVLRSNLYGVRDASISVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPVDFCIELQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDGKQIWDTLEKHLPIDL 332 >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 = 269 bits (688), Expect = 4e-70, Method: Composition-based stats. Identities = 82/334 (24%), Positives = 163/334 (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 + + G +IDA++ P++ ++ Sbjct: 128 EIIDNTQHIASLTEAIDLCIGLQIERNRGYRINPTNNFQ-VQDGSYSIDAVFMPVRNANH 186 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 +V S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ Sbjct: 187 SVHSYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDFFIPFLHAEEENLHLEKNQ 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|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 = 269 bits (688), Expect = 4e-70, Method: Composition-based stats. Identities = 82/333 (24%), Positives = 157/333 (47%), Gaps = 29/333 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV- 247 S + L + I T+GS+T ++++ ASR L D F++ EE +++ + Sbjct: 188 SYGNE---KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEENLHLEDADHTI 244 Query: 248 ---------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 K+ +++LE + NCL+ NI + DL+ ++ D+ Sbjct: 245 SLSPFTVYDKVAKLRKNKKKRSLESIFIDQLEFPPKIYNCLKKSNIFTLLDLLNNSQEDL 304 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 +++ +F L ++K +LG +G ++LP Sbjct: 305 IKIEHFR---LEDVKQILGILGKHFALDLPKKK 334 >gi|300431272|gb|ADK12601.1| RNA polymerase alpha subunit [Piptochaetium lasianthum] Length = 339 Score = 269 bits (687), Expect = 5e-70, Method: Composition-based stats. Identities = 88/328 (26%), Positives = 158/328 (48%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY + ++ G IDA+ P++ V+Y Sbjct: 132 RAQPIANLTEPIDFCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYXXXX 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + + T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 XGNG-NEKHEILFLELWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 ++ +F + + K + T+ L ++L Sbjct: 308 KIDSFR---MEDGKQIWDTLEKHLPIDL 332 >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 = 269 bits (687), Expect = 5e-70, Method: Composition-based stats. Identities = 84/313 (26%), Positives = 147/313 (46%), Gaps = 23/313 (7%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 PL +G A T+G A+RR L+ + G IT +++ V HE S+I G+ E + DI+ Sbjct: 29 YGRFALSPLRKGQASTIGIAMRRALLGEIEGTCITHAKLEKVTHEYSAIIGIEESVHDIL 88 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 +N+K I L+ + +I GP VTA DI + +++ I +L + Sbjct: 89 INLKEIVLRSDPYGTREASICIVGPRNVTAQDIILPPSVRIIDATQHIASLTKSITFDIR 148 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 L + K GY +N G+ IDA++ P++ +Y++ S G + L + I Sbjct: 149 LWIEKDRGYRIQS---PKNYQDGIFPIDAVFMPVRNANYSIHSYGNG-NDIQEILFLEIW 204 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK------- 259 T+GS+ +++ ASR L D F+ EE + ++ N ++P Sbjct: 205 TNGSLAPREALYRASRNLIDLFIPFLRAEEQNIDGMDNQNGSNMPSFSFSNISADMERME 264 Query: 260 ---------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++ EL R NCL NI + DL+ ++ D++R+ +FG+KS+ ++ VL Sbjct: 265 EEVAFKHIFIDQSELPPRVYNCLGRVNIHTLSDLLNYSQEDLMRIGHFGKKSVEQVSEVL 324 Query: 311 GTMGLFLGMNLPD 323 ++LP Sbjct: 325 ---QKHFAVDLPK 334 >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 = 269 bits (687), Expect = 5e-70, Method: Composition-based stats. Identities = 97/305 (31%), Positives = 164/305 (53%), 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++ V+ P Sbjct: 186 AEGGSARERLRIEICTDGSITPDDALAQTANQLLELFQPLATVT-----LVEEVGVEPEP 240 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 A + +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 241 SAEAQI-PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >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 = 269 bits (687), Expect = 5e-70, 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 LTLDSDDAVLNVELEVELGRGYRPPES--AENTPIGTIPVDAIFTPIRKVNFTTEPMHVG 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|69215828|gb|AAZ03870.1| RNA polymerase alpha chain [Yucca schidigera] Length = 337 Score = 269 bits (687), Expect = 5e-70, Method: Composition-based stats. Identities = 92/330 (27%), Positives = 161/330 (48%), Gaps = 26/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RR L+ + G IT + + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I +N+K I ++ + +I RGP VTA DI + +E+++ Sbjct: 72 HEYSTIVGIEESVHEIFINLKEIV--LNLYGVRDASICVRGPRYVTAQDIISPPSVEIVD 129 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +R+EL + + GY + T N G IDA+ P++ ++++ S Sbjct: 130 TTQHIANLTEPIDLRIELQIKRDRGYRI---NPTNNSQDGSYPIDAVSMPVRNANHSIHS 186 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 187 YGNG-NEKQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEGDIHFEENKNRFT 245 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 LP P +++LEL R+ NCL+ NI + DL+ ++ D++ Sbjct: 246 LPLFTFQNRLTNLKKNKKGIPLKCIFIDQLELPPRTYNCLKRSNIHTLLDLLSNSQEDLM 305 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 R+ F ++K +L T+ +NLP Sbjct: 306 RIEYFRT---EDVKQILDTLQKHFAINLPK 332 >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 = 269 bits (687), Expect = 5e-70, Method: Composition-based stats. Identities = 90/332 (27%), Positives = 163/332 (49%), Gaps = 24/332 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + + PL +G A T+G A+RR L+ + G IT + VL Sbjct: 13 LQWKCVES-RVDSKRLYYGRFVLSPLMKGQADTIGIAMRRALLGRIEGTCITRATSENVL 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S I G+ E + DI++N+K I LK + + +I RGP +TA DI + +++++ Sbjct: 72 HEYSMIAGIEESVHDILINLKEIVLKSNLYGVRDASICVRGPKYITAQDIISPPSVKIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL + +EL + +G GY + + + G ID + P++ ++++ S Sbjct: 132 TTQHIANLTEPIDLCIELQIKRGRGYHMKSTNESHD---GSYPIDIVSMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + L + I T+GS+T ++++ ASR L D L F++ EE ++E+ Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKEALYEASRNLIDLLIPFLHAEEEDMNLEENEKRWN 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 K+ P +++ ELS R+ NCL+ NI + DL+ ++ D++ Sbjct: 248 LPLFSFQDRFTNLKKNKKGIPLTCIFIDQSELSSRTYNCLKRSNIHTLLDLLNHSQEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 +M F + ++K +LGT+ +NLP Sbjct: 308 KMEYFR---IEDVKQILGTLQKHFAINLPKKK 336 >gi|290489696|gb|ADD31232.1| RNA polymerase alpha subunit protein [Plumbago auriculata] Length = 333 Score = 269 bits (687), Expect = 6e-70, Method: Composition-based stats. Identities = 80/329 (24%), Positives = 160/329 (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 + ++ G IDA++ P++ V++++ Sbjct: 131 DNTQHIATLTEPIDLCIGLQLERNRGYRIQTQNNFQD---GSYPIDAVFMPVRNVNHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE + + + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEENLHFEANQHKV 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 MQIEDFR---IEDLKQIWGTLEKNFSIDL 332 >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 = 269 bits (687), Expect = 6e-70, Method: Composition-based stats. Identities = 117/299 (39%), Positives = 184/299 (61%), Gaps = 9/299 (3%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EE+ + + L +G A LGN+LRR+L+SS+ G+A++ V++D V HE SSI GV ED+ Sbjct: 16 EEQGYARFVCDSLAKGEATVLGNSLRRILLSSMPGSAVSEVKLDSVYHEFSSIPGVKEDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRG--PGVVTAGDIQTVNDIEVLNPDHVICNLD-V 139 ++II+N+K + L+ +G + V + GVV A DI+ +++E++NPD V+ +L Sbjct: 76 SEIIMNLKNLALRYTGSGEEPVMAYVDYMGEGVVKASDIKVSSEVEIMNPDLVLAHLSGK 135 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 DA + ME+ VSKG GY A + IG+I +DA+YSP+KKV+ VE + + Sbjct: 136 DAKIYMEMKVSKGKGYDGANTRDHSDLAIGVIAVDAIYSPVKKVNVFVEEQG-----NTE 190 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 +L + + TD ++ E++V+LA+RILQ L +F++ + KE + + + K Sbjct: 191 RLILDVTTDRTMMPEEAVSLAARILQTHLQLFMHMDTSAKEQGAAVANQEAGRDELN-KS 249 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 ++ELELSVRS NCL+ I + DL +T D++++ N GRKSL EI L +MGLFL Sbjct: 250 IDELELSVRSYNCLKRAGINTVEDLCAKTMDDLMKVRNMGRKSLDEILNKLESMGLFLS 308 >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 = 269 bits (687), Expect = 6e-70, Method: Composition-based stats. Identities = 122/359 (33%), Positives = 187/359 (52%), Gaps = 27/359 (7%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + P I + + IAEP +GF HT+GN+LRR+++SSL AI +V+I+G Sbjct: 7 KFEIPQQI-SVDEETLSQTFGRFIAEPFEKGFGHTVGNSLRRMMLSSLEAPAIVSVRIEG 65 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKM-------SGDSHKRVT----------IFKRG 110 + HE +I+G+ ED+T+IILN+KG ++ + + VT 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------PESIEELAKKYEDKC 340 E ML NFG+KSL EIK L MGL LGM+L + E I + K+ +DK Sbjct: 306 PERRMLEFRNFGKKSLNEIKAKLTEMGLHLGMDLSKYGITADNVKEKIAQYHKEAKDKS 364 >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 = 269 bits (687), Expect = 6e-70, Method: Composition-based stats. Identities = 113/310 (36%), Positives = 185/310 (59%), Gaps = 7/310 (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 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI-------NFEEPKKEVKEDINVKSL 250 +DKL++ ++TDGSI D+++ A +L+ L F+ N + +E+ 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 GTMGLFLGMN 320 +G L N Sbjct: 329 KDLGYDLEKN 338 >gi|290489676|gb|ADD31222.1| RNA polymerase alpha subunit protein [Ximenia americana] Length = 337 Score = 269 bits (687), Expect = 6e-70, Method: Composition-based stats. Identities = 80/330 (24%), Positives = 157/330 (47%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RRVL+ + G IT + + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLMKGRADTIGIAMRRVLLGEIEGTCITRAKSEQVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+ G+ E + +I++N+K I L+ + +I RGP +TA DI + +E+++ Sbjct: 72 HEYSTAIGIQESIHEILMNLKEIVLRSNLYGTCNASICVRGPRYITAQDIISPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I +L +EL + + GY + ++ G IDA++ P++ ++++ S Sbjct: 132 NTQYIASLTEPIDFCIELQIERNRGYHIKMPNNFQD---GSYPIDAVFMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV-- 247 G + L + I T+GS+T + ++ AS+ L D F++ EE ++++ + Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKKALYEASQNLIDLFIPFLHAEEENLHLEDNQHKVI 247 Query: 248 --------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 K+ +++ EL R NCL+ NI + DL ++ D++ Sbjct: 248 LPLFTPHDRLAKLRKNKEKIALKSIFIDQSELPSRIYNCLKRSNIHTLLDLFNNSQKDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ +F + + K +LG + ++LP Sbjct: 308 KIEHFR---VEDGKQILGILEKHFAVDLPK 334 >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 = 269 bits (687), Expect = 6e-70, Method: Composition-based stats. Identities = 122/336 (36%), Positives = 199/336 (59%), 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 VLHEISSIKGVHEDLTDIILNIKGINL--KMSGDSHKRVTIFKRGPGVVTAGDI-QTVND 124 V +E S+I+GV ED+T+I+LN K I L K+SG + 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 YT+E+ R GQ D++ LS+ I TDGSI + ++ AS+IL +F + + KK+ +E Sbjct: 182 KYTIENCRVGQKTDFENLSLEIQTDGSICPKSALMEASKILIQYFSIFSHEKIGKKKQEE 241 Query: 244 -----DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 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|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 = 268 bits (686), Expect = 6e-70, Method: Composition-based stats. Identities = 111/318 (34%), Positives = 183/318 (57%), Gaps = 10/318 (3%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 ++ ++P I ++ +++N PL RGF TLGNA+RR L+++ GA++ A++I Sbjct: 1 MKQFVRPEFI--LLKEGQDKNYGKFSVSPLERGFGITLGNAIRRTLLAATPGASVYAIKI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQ 120 G HE +SI G+ E++T IILNIK + L++ D ++ I G V AGD++ Sbjct: 59 AGATHEFTSIPGIIENVTKIILNIKQLVLRIDTSIYGDDEVVQLKIRSDIQGPVYAGDLE 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSP 179 +EVLN D +I + ++ + L GY K ++ E N G+ITID+ YSP Sbjct: 119 LPAGVEVLNQDLLIATISEGGILDLVLYAKNSRGYKTFKDNKNEKNIEPGMITIDSNYSP 178 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I KV+Y+V+SA+ G+ +D +KL + + TDGSIT D++++AS+IL L FI+ Sbjct: 179 IIKVAYSVDSAKIGRAIDLEKLELEVTTDGSITAIDAISIASKILVAHLEFFIDLNREIS 238 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 ++ + + + L + VEEL+ + RS NCL+ I + +L+ + E ++ + N G Sbjct: 239 VLE--VIGVNQTDDKELDRTVEELDFTQRSLNCLKRAGINTLRELVTKNEDEIGSIRNLG 296 Query: 300 RKSLVEIKGVLGTMGLFL 317 RKSL EIK + ++GL Sbjct: 297 RKSLKEIKDKVASLGLAF 314 >gi|307697293|gb|ADN86101.1| RNA polymerase alpha subunit [Chasmanthium latifolium] Length = 339 Score = 268 bits (686), Expect = 7e-70, Method: Composition-based stats. Identities = 92/330 (27%), Positives = 162/330 (49%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGNVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIVGIEESIQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY +++ G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLREPIDFCIELQIKRDRGYHTELRKNSQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGSSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLLTFQKRFTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 R+ +F + + K + T+ L ++LP Sbjct: 308 RIDSFR---MEDGKLIWDTLEKHLPIDLPQ 334 >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 = 268 bits (686), Expect = 7e-70, Method: Composition-based stats. Identities = 93/330 (28%), Positives = 163/330 (49%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LEWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGNVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIVGIEESIQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY +++ G IDA++ P++ V+Y++ S Sbjct: 132 TTQPIANLREPIDFCIELQIKRDRGYHTELRKNSQD---GSYPIDAVFMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D FI+ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFIHTEEEGTSFEENKNRLT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLLTFQKRFTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRSNIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 R+ +F + + K + T+ L ++LP Sbjct: 308 RINSFR---MEDGKLIWDTLEKHLPIDLPK 334 >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 = 268 bits (686), Expect = 7e-70, Method: Composition-based stats. Identities = 113/310 (36%), Positives = 185/310 (59%), Gaps = 7/310 (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 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI-------NFEEPKKEVKEDINVKSL 250 +DKL++ ++TDGSI D+++ A +L+ L F+ N + +E+ 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 GTMGLFLGMN 320 +G L N Sbjct: 329 KDLGYDLEKN 338 >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 = 268 bits (686), Expect = 7e-70, Method: Composition-based stats. Identities = 115/303 (37%), Positives = 186/303 (61%), Gaps = 6/303 (1%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 +I +E + + EPL RG+ HTLGNALRRVL+SS+ GAAI ++I+GVL E S + Sbjct: 12 HITEVRESAFKGQFVVEPLYRGYGHTLGNALRRVLLSSIPGAAIKGIRIEGVLSEFSVMD 71 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV E +T+IILN+K I +K +++T+ +GP VVTA DI +E++NP+ IC Sbjct: 72 GVKEAVTEIILNVKEIVVKSETAGERKMTLSVKGPKVVTAADIIPDIGLEIINPEQEICT 131 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + D + +E V G G+V ++ + + I +DA+Y+PI+KVSY ++ G++ Sbjct: 132 ITTDRSLDIEFLVDTGEGFVVSEEIERDGWVVDYIAVDAIYTPIRKVSYEIQDTMVGRMT 191 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKSLPF 252 D+DKL+++++TDGSI D+++ A +L+ L F+ E + EV+E++ +S Sbjct: 192 DFDKLTLSVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRLEVEEEMENQSSSM 251 Query: 253 --NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + L K+EEL+L+VRS NCL+ I +G L + + ++L++ N GRKSL EI + Sbjct: 252 KDDINLNIKIEELDLTVRSFNCLKKAGIEEVGQLSKLSMNELLKIKNLGRKSLDEILEKM 311 Query: 311 GTM 313 + Sbjct: 312 KEL 314 >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 = 268 bits (686), Expect = 7e-70, Method: Composition-based stats. Identities = 113/318 (35%), Positives = 182/318 (57%), Gaps = 10/318 (3%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 ++ ++P I ++ +++N PL RGF TLGNA+RR L+++ GA++ A++I Sbjct: 1 MKQFVRPEFI--LLKEGQDKNYGKFSVSPLERGFGITLGNAIRRTLLAATPGASVYAIKI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQ 120 G HE +SI G+ E++T IILNIK + LK+ D ++ I G V AGD+ Sbjct: 59 AGATHEFTSIPGIIENVTKIILNIKQLVLKIDTSIYSDDEVVQLRIRSDIQGPVYAGDLD 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSP 179 +E+LN D +I + V+ + L GY K ++ E N G+ITID+ YSP Sbjct: 119 IPAGVEILNKDLLIATISEGGVLDLVLYAKNSRGYKTFKDNKNEKNIEPGMITIDSNYSP 178 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I KV+Y+V+SA+ G+ +D +KL + + TDGSIT D++++ASRIL L FI+ Sbjct: 179 IIKVAYSVDSAKIGRAIDLEKLELEVTTDGSITAIDAISIASRILVAHLEFFIDLNREIS 238 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 ++ ++ + L + VEEL+ + RS NCL+ I + +L+ + E ++ + N G Sbjct: 239 VLEVIGTNQTD--DKELDRTVEELDFTQRSLNCLKRAGINTLRELVSKNEDEIGSIRNLG 296 Query: 300 RKSLVEIKGVLGTMGLFL 317 RKSL EIK + ++GL Sbjct: 297 RKSLKEIKDKVASLGLAF 314 >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 = 268 bits (686), Expect = 7e-70, Method: Composition-based stats. Identities = 124/354 (35%), Positives = 190/354 (53%), Gaps = 24/354 (6%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +K + +E V G + +A+PL +G HTLG+ALRR L+ L AI + + G Sbjct: 17 ESVKMSPVEGAVGGI--DKVARFVADPLEKGMGHTLGSALRRALLIGLEAPAIVSFSMTG 74 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK---------RVTIFKRG-------- 110 VLHE +++G+ ED+T+I+LN+KG LK R TI Sbjct: 75 VLHEYMAVEGIIEDVTNIVLNLKGSLLKKYPLQDCEGGRCSQKLRATISVDASDLAAAGG 134 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL 170 VT GD+ E +NP+HVI + + + L V+ G GY P++ E + Sbjct: 135 QKEVTLGDLLQEGTFEAVNPEHVIFTVTRPMQLEVMLRVAFGRGYSPSERIVLEERGMNE 194 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG + +++VA A++IL + Sbjct: 195 IVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLVLQVETDGRVAPKEAVAFATQILSKHFSV 254 Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLK---KVEELELSVRSTNCLRGENIVYMGDLIQR 287 F +E + +E I+V+ + L K + E+ELSVRSTNCL NI +G+L+ Sbjct: 255 FEKMDEKRIVFEEAISVEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIGELVIM 314 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 315 PEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 368 >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 = 8e-70, Method: Composition-based stats. Identities = 81/328 (24%), Positives = 161/328 (49%), Gaps = 26/328 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 + ++ G IDA+ P++ ++++ Sbjct: 131 DTTQHIAVLTEPVDLCIELKIERGRGYCTRTQNNYQD---GSYPIDAVSMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP--KKEVKEDIN 246 S G + L + I T+GS+T ++++ ASR L D F++ EE + +++++ Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEQDINRNMEDNLK 246 Query: 247 VKSLPFNPALL-------------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 S+PF +++LEL R+ NCL+ NI + DL+ +++ D++ Sbjct: 247 RASVPFFAFDDGLDNIKREIILKRIFIDQLELPPRTYNCLKRSNIHTLLDLLSKSQEDLM 306 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + ++K + + ++L Sbjct: 307 RIEHFR---VEDVKQIFDILQKGFTIDL 331 >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 = 80/326 (24%), Positives = 159/326 (48%), Gaps = 24/326 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 + ++ G IDA+ P++ ++++ Sbjct: 131 DTTQHIAILTEPVDLCIELKIERGRGYCMRTPNNYQD---GSYPIDAVSMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE +++++ Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEQDINIEDNLKRA 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 EHFR---VEDVKQIFDILQKGFTIDL 329 >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 = 268 bits (686), Expect = 8e-70, Method: Composition-based stats. Identities = 93/330 (28%), Positives = 163/330 (49%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LEWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFWNVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIVGIEESIQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY +++ G IDA++ P++ V+Y++ S Sbjct: 132 TTQPIANLREPVDFCIELQIKRDRGYHTELRKNSQD---GSYPIDAVFMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D FI+ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFIHTEEEGTSFEENKNRLT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLLTFQKRFTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 R+ +F + + K + T+ L ++LP Sbjct: 308 RINSFR---MEDGKLIWDTLEKHLPIDLPK 334 >gi|161513438|emb|CAP16862.1| DNA-directed RNA polymerase subunit alpha [Pediococcus damnosus] Length = 234 Score = 268 bits (686), Expect = 8e-70, Method: Composition-based stats. Identities = 102/234 (43%), Positives = 154/234 (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 TVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 T G GYV A ++ ++ 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|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 = 268 bits (685), Expect = 8e-70, Method: Composition-based stats. Identities = 113/310 (36%), Positives = 185/310 (59%), Gaps = 7/310 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + G Sbjct: 13 ITEVKESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDG 72 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V E +T+IILN+K I +K +R+++ +GP VV A DI +E++NP+ +IC + Sbjct: 73 VKEAVTEIILNVKEIVVKAESSGERRMSLSIKGPKVVKAADIVADIGLEIVNPEQIICTV 132 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D Sbjct: 133 TTDRTLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTD 192 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI-------NFEEPKKEVKEDINVKSL 250 +DKL++ ++TDGSI D+++ A +L+ L F+ N + +E+ E+ + Sbjct: 193 FDKLTLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEMIEEPMDIQV 252 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + Sbjct: 253 IDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKM 312 Query: 311 GTMGLFLGMN 320 +G L N Sbjct: 313 KDLGYDLEKN 322 >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 = 268 bits (685), Expect = 8e-70, Method: Composition-based stats. Identities = 90/330 (27%), Positives = 162/330 (49%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LEWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGNVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIVGIEESIQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + Y +++ G IDA++ P++ V+Y++ S Sbjct: 132 TTQPIANLREPVDFCIELQIKRDRAYHTELRKNSQD---GSYPIDAVFMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTSFEENKNRLT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLLTFQKRFTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ +F + + K + T+ L ++LP Sbjct: 308 QINSFR---MEDGKLIWDTLEKHLPIDLPK 334 >gi|99024202|dbj|BAE94567.1| plastid DNA-dependent RNA polymerase subunit alpha [Takakia lepidozioides] Length = 341 Score = 268 bits (685), Expect = 9e-70, Method: Composition-based stats. Identities = 82/331 (24%), Positives = 158/331 (47%), Gaps = 25/331 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + + P G A T+G A+RR L+ + G IT + V Sbjct: 13 LQWRCVES-RVDSARLHYSRFAISPFRSGQASTVGIAMRRALLGEVEGTCITCAEFKRVT 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + D+++N+ I L+ ++ I GP VTA DI +++++ Sbjct: 72 HEYSTILGIQESVHDVLINLGEIVLRSDSYETQKAFISILGPKKVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I + + +EL + K GY ++ + G +DA++ PI+ V+Y+V S Sbjct: 132 TTQYIATVXKAIHLDIELKIEKDFGYRIEDPIKSAD---GNFPVDAVFMPIRNVNYSVHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP------KKEVKE 243 G + L + I T+GS+T ++++ ASR L + F++ E+ K + Sbjct: 189 FENGNET-QEILFLEIWTNGSVTPKEALYEASRSLINLFIPFLHAEKKEFIYGLKNTYES 247 Query: 244 DINVKSLPFNPALLKK-----------VEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +++ S P A + + +++LEL R+ NC + N + DL+ ++ D+ Sbjct: 248 NMSYFSSPSLSADIDEMTKGVTFKHIFIDQLELPARAYNCXKRVNXHTISDLLNYSQDDL 307 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ NFG+KS+ ++ L + +N P Sbjct: 308 MKIKNFGKKSVEQV---LEALQKRFSINXPK 335 >gi|58758777|gb|AAW81780.1| RNA polymerase alpha subunit [Dendroligotrichum dendroides] Length = 340 Score = 268 bits (685), Expect = 9e-70, Method: Composition-based stats. Identities = 89/342 (26%), Positives = 160/342 (46%), Gaps = 27/342 (7%) Query: 1 MIQKNWQ---ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRG 57 MIQ + ++ +E V + + P G A+T+G A+RR L+ + G Sbjct: 1 MIQNEISISAQALQWRCVESKVDSERLH-YSRFAISPFRCGQANTVGIAMRRALLGEIEG 59 Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 IT + V HE S+I G+ E DI++N+K I LK + ++ + GP +TA Sbjct: 60 TCITCARSKKVTHEYSTIVGIQESAHDILINLKEIVLKSNSYETQKAFLSILGPKKITAQ 119 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 DI +++++ I + + +EL + K GY ++ + G +IDA++ Sbjct: 120 DIILPPSVKIIDTTQYIATITKPIHLDIELEIDKDCGYRIXDSVKSID---GYFSIDAIF 176 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 PI+ +Y+V S E + L + I T+GSIT ++++ ASR L D F++ E+ Sbjct: 177 MPIRNANYSVHSF-ENNNKIQEILFIEIWTNGSITPKEALYEASRSLIDLFIPFLHTEKK 235 Query: 238 KKEVKEDINVKSLPFN----------------PALLKKVEELELSVRSTNCLRGENIVYM 281 + KS + +++LEL R+ NCL+ N+ + Sbjct: 236 ETINGLKTEYKSNDMSDFSSFSPLADKLTKEIKFKHIFIDQLELPARAYNCLKRVNVHPI 295 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 DL+ + D +++ NFG+KS+ ++ L + +NLP+ Sbjct: 296 SDLLNYXQDDFMKIKNFGKKSVEQV---LEALQKQFSINLPE 334 >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 = 268 bits (685), Expect = 9e-70, Method: Composition-based stats. Identities = 112/316 (35%), 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 + E+++ Sbjct: 184 ENTRVEQTLNYDKLIIEIWTDGSVSPKDALMRSAEILRKILVIFTD----NAFKTEEVSA 239 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L K V +++SV++ L+ I + DL++ E D+L N ++S EIK Sbjct: 240 DKEEQDGILGKPVSIMDISVKTLKSLKSAGIETVEDLVKIKEEDLLNFNNLSKRSCEEIK 299 Query: 308 GVLGTMGLFLGMNLPD 323 + +GL LGM + D Sbjct: 300 NRVKELGLSLGMKIED 315 >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 = 268 bits (685), Expect = 9e-70, Method: Composition-based stats. Identities = 124/354 (35%), Positives = 190/354 (53%), Gaps = 24/354 (6%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +K + +E V G + +A+PL +G HTLG+ALRR L+ L AI + + G Sbjct: 17 ESVKMSPVEGAVGGI--DKVARFVADPLEKGMGHTLGSALRRALLIGLEAPAIVSFSMTG 74 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK---------RVTIFKRG-------- 110 VLHE +++G+ ED+T+I+LN+KG LK R TI Sbjct: 75 VLHEYMAVEGIIEDVTNIVLNLKGSLLKKYPLQDCEGGRCSQKLRATISIDASDLAAAGG 134 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL 170 VT GD+ E +NP+HVI + + + L V+ G GY P++ E + Sbjct: 135 QKEVTLGDLLQEGTFEAVNPEHVIFTVTRPMQLEVMLRVAFGRGYSPSERIVLEERGMNE 194 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG + +++VA A++IL + Sbjct: 195 IVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLVLQVETDGRVAPKEAVAFATQILSKHFSV 254 Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLK---KVEELELSVRSTNCLRGENIVYMGDLIQR 287 F +E + +E I+V+ + L K + E+ELSVRSTNCL NI +G+L+ Sbjct: 255 FEKMDEKRIVFEEAISVEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIGELVIM 314 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 315 PEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 368 >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 = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 112/318 (35%), Positives = 182/318 (57%), Gaps = 10/318 (3%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 ++ ++P I ++ +++N PL RGF TLGNA+RR L+++ GA++ A++I Sbjct: 1 MKQFVRPEFI--LLKEGQDKNYGKFSVSPLERGFGITLGNAIRRTLLAATPGASVYAIKI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQ 120 G HE +SI G+ E++T IILNIK + LK+ D ++ I G + AGD+ Sbjct: 59 AGATHEFTSIPGIIENVTKIILNIKQLVLKIDTSIYSDDEVVQLRIRSDIQGPIYAGDLD 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSP 179 +E+LN D +I + V+ + L GY K ++ E N G+ITID+ YSP Sbjct: 119 IPAGVEILNKDLLIATISEGGVLDLVLYAKNSRGYKTFKDNKNEKNIEPGMITIDSNYSP 178 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I KV+Y+V+SA+ G+ +D +KL + + TDGSIT D++++ASRIL L FI+ Sbjct: 179 IIKVAYSVDSAKIGRAIDLEKLELEVTTDGSITAIDAISIASRILVAHLEFFIDLNREIS 238 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 ++ ++ + L + VEEL+ + RS NCL+ I + +L+ + E ++ + N G Sbjct: 239 VLEVIGTNQTD--DKELDRTVEELDFTQRSLNCLKRAGINTLRELVSKNEDEIGSIRNLG 296 Query: 300 RKSLVEIKGVLGTMGLFL 317 RKSL EIK + ++GL Sbjct: 297 RKSLKEIKDKVASLGLAF 314 >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 = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 111/318 (34%), Positives = 183/318 (57%), Gaps = 10/318 (3%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 ++ ++P I ++ +++N PL RGF TLGNA+RR L+++ GA++ A++I Sbjct: 1 MKQFVRPEFI--LLKEGQDKNYGKFSVSPLERGFGITLGNAIRRTLLAATPGASVYAIKI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQ 120 G HE +SI G+ E++T IILNIK + L++ D ++ I G V AGD++ Sbjct: 59 AGATHEFTSIPGIIENVTKIILNIKQLVLRIDTSIYSDDEVVQLKIRSDIQGPVYAGDLE 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSP 179 +EVLN D +I + ++ + L GY K ++ E N G+ITID+ YSP Sbjct: 119 LPAGVEVLNQDLLIATISEGGILDLVLYAKNSRGYKTFKDNKNEKNIEPGMITIDSNYSP 178 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I KV+Y+V+SA+ G+ +D +KL + + TDGSIT D++++AS+IL L FI+ Sbjct: 179 IIKVAYSVDSAKIGRAIDLEKLELEVTTDGSITAIDAISIASKILVAHLEFFIDLNREIS 238 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 ++ + + + L + VEEL+ + RS NCL+ I + +L+ + E ++ + N G Sbjct: 239 VLE--VIGVNQTDDKELDRTVEELDFTQRSLNCLKRAGINTLRELVTKNEDEIGSIRNLG 296 Query: 300 RKSLVEIKGVLGTMGLFL 317 RKSL EIK + ++GL Sbjct: 297 RKSLKEIKDKVASLGLAF 314 >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 = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 82/331 (24%), Positives = 160/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 DNTQHIASLTEPIDFCIGLQIERNRGYLIKT---PQNFQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN-- 246 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEDNLYLQDNQHTV 246 Query: 247 --------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +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|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 = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 113/310 (36%), Positives = 185/310 (59%), Gaps = 7/310 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I +E + + EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GV+ E + + G Sbjct: 29 ITEVKESNYKGHFVVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVMSEFTVMDG 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 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI-------NFEEPKKEVKEDINVKSL 250 +DKL++ ++TDGSI D+++ A +L+ L F+ N + +E+ E+ + Sbjct: 209 FDKLTLNVETDGSIEIRDAISYAVELLRLHLDPFLEIGNKMENLRDEIEEIIEEPIDIQV 268 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + Sbjct: 269 IDDKSHDMKIEELDLTVRSFNCLKKAGIEDVSQLASLSLNELLKIKNLGKKSLDEILEKM 328 Query: 311 GTMGLFLGMN 320 +G L N Sbjct: 329 KDLGYDLEKN 338 >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 = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 113/310 (36%), Positives = 185/310 (59%), Gaps = 7/310 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + G Sbjct: 29 ITEVKESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDG 88 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V E +T+IILN+K I +K +R+++ +GP VV A DI +E++NP+ VIC + Sbjct: 89 VKEAVTEIILNVKEIVVKAESSGERRMSLSIKGPKVVKAADIVADIGLEIVNPEQVICTV 148 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + +E V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D Sbjct: 149 TTDRTLDIEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTD 208 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVK---SL 250 +DKL++ ++TDGSI D+++ A +L+ L F+ E + +++E I + Sbjct: 209 FDKLTLNVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRDDIEEMIEEPMDIQV 268 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + Sbjct: 269 IDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKM 328 Query: 311 GTMGLFLGMN 320 +G L N Sbjct: 329 KDLGYDLEKN 338 >gi|71056876|emb|CAH58993.1| DNA-directed RNA polymerase alpha chain [Enterococcus canis] Length = 235 Score = 267 bits (684), Expect = 1e-69, 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|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 (684), Expect = 1e-69, Method: Composition-based stats. Identities = 77/329 (23%), Positives = 162/329 (49%), Gaps = 25/329 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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+ ++ G IDA++ P++ V++++ Sbjct: 131 DNTQHIASLTEPIELCIGLQIERNRGYLIKTAKNFQD---GSYPIDAVFMPVRNVNHSIY 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G ++ L + I T+GS+T ++++ A+R L D F++ EE +++++ ++ Sbjct: 188 SYGTG-NDKHEILFLEIWTNGSLTPKEALHEAARNLIDLFIPFLHTEEENLDLEDNQHML 246 Query: 249 SLPFN--------------PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + +++ EL R NCL+ NI + DL+ ++ D+++ Sbjct: 247 PFRPSILPEKFVKIKNKKISLKSIFIDQSELPPRVYNCLKRSNIYTLLDLLNNSQEDLMK 306 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 + +F + ++K +L + G++LP Sbjct: 307 IEHFR---VEDLKRILDILEKNFGIDLPQ 332 >gi|194132131|gb|ACF33385.1| RNA polymerase alpha subunit [Gonystylus bancanus] Length = 329 Score = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 82/320 (25%), Positives = 157/320 (49%), Gaps = 21/320 (6%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 15 LQWKCVES-RIDSKHLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIP 73 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S I G+ E + +I++N+K I L+ + + I +GPG VTA DI +E+++ Sbjct: 74 HEYSIIAGIQESVHEILMNLKEIVLRSNLYGTRNAFICAKGPGYVTAQDIILPPSVEIVD 133 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I +L + + L + + GY + + G ID ++ P++ V++++ S Sbjct: 134 NTQHIASLTEPIDLCIGLQIERNRGYGIKTPNNFHD---GSYPIDVVFMPVRNVNHSIHS 190 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L D F++ EE ++ + + Sbjct: 191 YGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENSHLENSQHKVT 249 Query: 250 LPFNPALLKK----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 LPF P K +++ EL R NCL+ NI + DL+ +++ D++ Sbjct: 250 LPFFPFHDKLTKLRKKKKEIALKYFFIDQSELPPRIYNCLKTSNIHTLFDLLNKSQEDLM 309 Query: 294 RMANFGRKSLVEIKGVLGTM 313 ++ +F R+ + +I G++ Sbjct: 310 KIEHFHREDVKQILGIIENK 329 >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 = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 91/330 (27%), Positives = 160/330 (48%), Gaps = 26/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G I + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCIARAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TSQPIANLTEPIDFCIELQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP------------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 P P +++LEL R+ NCL+ NI + DL+ +TE D Sbjct: 248 PPLFTFQKRLTNLNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEED 307 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 ++R+ +F + + K + T+ +L ++L Sbjct: 308 LMRIDSFH---MEDGKQIWDTLEKYLPIDL 334 >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 = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 124/354 (35%), Positives = 190/354 (53%), Gaps = 24/354 (6%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +K + +E V G + +A+PL +G HTLG+ALRR L+ L AI + + G Sbjct: 17 ESVKMSPVEGAVGGI--DKVARFVADPLEKGMGHTLGSALRRALLIGLEAPAIVSFSMTG 74 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK---------RVTIFKRG-------- 110 VLHE +++G+ ED+T+I+LN+KG LK R TI Sbjct: 75 VLHEYMAVEGIIEDVTNIVLNLKGSLLKKYPLQDCEGGRCSQKLRATISIDASDLAAAGG 134 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL 170 VT GD+ E +NP+HVI + + + L V+ G GY P++ E + Sbjct: 135 QKEVTLGDLLQEGTFEAVNPEHVIFTVTRPMQLEVMLRVAFGRGYSPSERIVLEERGMNE 194 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG + +++VA A++IL + Sbjct: 195 IVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLVLQVETDGRVAPKEAVAFATQILSKHFSV 254 Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLK---KVEELELSVRSTNCLRGENIVYMGDLIQR 287 F +E + +E I+V+ + L K + E+ELSVRSTNCL NI +G+L+ Sbjct: 255 FEKMDEKRIVFEEAISVEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIGELVIM 314 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 315 PEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 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 = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 124/354 (35%), Positives = 190/354 (53%), Gaps = 24/354 (6%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +K + +E V G + +A+PL +G HTLG+ALRR L+ L AI + + G Sbjct: 17 ESVKMSPVEGAVGGI--DKVARFVADPLEKGMGHTLGSALRRALLIGLEAPAIVSFSMTG 74 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK---------RVTIFKRG-------- 110 VLHE +++G+ ED+T+I+LN+KG LK R TI Sbjct: 75 VLHEYMAVEGIIEDVTNIVLNLKGSLLKKYPLQDCEGGRCSQKLRATISIDASDLAAAGG 134 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL 170 VT GD+ E +NP+HVI + + + L V+ G GY P++ E + Sbjct: 135 QKEVTLGDLLQEGTFEAVNPEHVIFTVTRPMQLEVMLRVAFGRGYSPSERIVLEERGMNE 194 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG + +++VA A++IL + Sbjct: 195 IVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLVLQVETDGRVAPKEAVAFATQILSKHFSV 254 Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLK---KVEELELSVRSTNCLRGENIVYMGDLIQR 287 F +E + +E I+V+ + L K + E+ELSVRSTNCL NI +G+L+ Sbjct: 255 FEKMDEKRIVFEEAISVEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIGELVIM 314 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 315 PEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 368 >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 = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 79/331 (23%), Positives = 158/331 (47%), 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 DTTQHIASLTEPIDLCIGLQIERDRGYRMKTPNNDQD-GSYPIPIEAVSMPVRNANHSIH 189 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ AS L D F++ EE +++ +N Sbjct: 190 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASHNLIDLFIPFLHGEEEDINLEDSLNRG 248 Query: 249 SLPFN----------------PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LPF +++ EL R+ NCL+ NI + DL+ ++ D+ Sbjct: 249 TLPFFTFQDKLANLRKNKKAIALECIFIDQSELPPRTYNCLKRSNIHTLLDLLSNSQEDL 308 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +R+ + + ++K +L + ++LP Sbjct: 309 MRIEHLR---IEDVKRILDILQKHFTIDLPK 336 >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 = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 113/310 (36%), Positives = 185/310 (59%), Gaps = 7/310 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + G Sbjct: 13 ITEVKESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDG 72 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V E +T+IILN+K I +K +R+++ +GP VV A DI +E++NP+ VIC + Sbjct: 73 VKEAVTEIILNVKEIVVKAESSGERRMSLSIKGPKVVKAADIVADIGLEIVNPEQVICTV 132 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + +E V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D Sbjct: 133 TTDRTLDIEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTD 192 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVK---SL 250 +DKL++ ++TDGSI D+++ A +L+ L F+ E + +++E I + Sbjct: 193 FDKLTLNVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRDDIEEMIEEPMDIQV 252 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + Sbjct: 253 IDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKM 312 Query: 311 GTMGLFLGMN 320 +G L N Sbjct: 313 KDLGYDLEKN 322 >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 = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 93/330 (28%), Positives = 162/330 (49%), Gaps = 27/330 (8%) Query: 14 NIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +E+ + ++ I PL +G A T+G ALRR L+ + G IT + V Sbjct: 12 KLEWKCVESRVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGNVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIVGIEESIQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY +++ G IDA++ P++ V+Y++ S Sbjct: 132 TAQPIANLREPIDFCIELQIKRDRGYHTELRKNSQD---GSYPIDAVFMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D FI+ EE +E N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFIHTEEEGTSFEESKNRLT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLLTFQKRFTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 R+ +F + + K + T+ L ++LP Sbjct: 308 RINSFR---MEDGKLIWDTLEKHLPIDLPK 334 >gi|328813983|gb|AEB52107.1| DNA-directed RNA polymerase alpha chain [Lactobacillus parabuchneri] Length = 244 Score = 267 bits (683), Expect = 1e-69, Method: Composition-based stats. Identities = 114/244 (46%), 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 VSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +KG GYV A ++ 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|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 = 267 bits (683), Expect = 1e-69, Method: Composition-based stats. Identities = 95/305 (31%), Positives = 161/305 (52%), Gaps = 8/305 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + I++ + + + PL RG A TLGN+LRRVLM L G+A+TAV+I G+ HE Sbjct: 7 DRIDHQISDDRSQT-GTFLIGPLERGQATTLGNSLRRVLMGGLEGSAVTAVRISGINHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K +++ S + + GP V A DIQ + +E+++ + Sbjct: 66 ATIPGVREDVLDILLNCKQLSINSSNPETEIGRLVVNGPMEVKANDIQFSSQVEIVDGEK 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P E I L+ IDA++ P+K+V++T++ Sbjct: 126 PIATIQEGHNLELEIHVERGVGYRPVDRRNQETTAIDLLQIDAVFMPVKRVNFTIDETAV 185 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L+M + TDGS + +D++A A+ L + ++ + Sbjct: 186 AEGATGRERLTMEVVTDGSTSPDDAIAEAANQLIELFQPLATVTMVEEI------PEEPE 239 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 240 PSPEAQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >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 = 267 bits (683), Expect = 1e-69, Method: Composition-based stats. Identities = 83/330 (25%), Positives = 160/330 (48%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +K +E + I PL +G A T+G A+RR L+ + G IT V+ + V Sbjct: 13 LKWKCVESRT-DSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRVKSEKVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + +I +GPG VTA DI +E+++ Sbjct: 72 HEYSTIMGIQESVHEILMNLKEIVLRSNLYGTSDASICVKGPGYVTAQDIILPPYVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I +L + L + + GY+ H ++ G IDA++ P++ ++++ S Sbjct: 132 NTQHIASLTETIDFCIGLQIKRNRGYLIKTPHNFQD---GSYPIDAVFMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHIEEDNLYLQDNQHTVP 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 +K+ +++ EL R NCL+ NI + DL+ ++ D++ Sbjct: 248 LSPFTFHDKLAKLIKNKKKIALKSIFIDQSELPSRIYNCLKMSNIYTLLDLLNNSQEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ +F ++K +LG + + ++L Sbjct: 308 KIEHFRS---EDVKQILGILEKYFVIDLAK 334 >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 = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 78/320 (24%), Positives = 155/320 (48%), Gaps = 24/320 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 + ++ G IDA++ P++ ++++ Sbjct: 131 DNTQHIANLTEPINLCIELQIERNRGYRIKTPNNFQD---GSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S + L + I T+GS+T ++++ ASR L D F++ EE +++ + + Sbjct: 188 SY-VNGNEKQEILFLEIWTNGSLTPKEALHDASRNLIDLFIPFLHAEEENLQLENNQHKV 246 Query: 249 SLP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPLFTFHGRLAKQRKNKKEIALQYIFIDQSELFPRVYNCLKRSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGT 312 +++ +F + + I +L Sbjct: 307 MKIKHFRIEDVKHILNILEI 326 >gi|71056822|emb|CAH58966.1| DNA-directed RNA polymerase alpha chain [Enterococcus avium] Length = 245 Score = 267 bits (683), Expect = 2e-69, 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|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 = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 113/310 (36%), Positives = 185/310 (59%), Gaps = 7/310 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + G Sbjct: 29 ITEVKESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMDG 88 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V E +T+IILN+K I +K +R+++ +GP VV A DI +E++NP+ VIC + Sbjct: 89 VKEAVTEIILNVKEIVVKAESSGERRMSLSIKGPKVVKAADIVADIGLEIVNPEQVICTV 148 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + +E V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D Sbjct: 149 TTDRALDIEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMTD 208 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVK---SL 250 +DKL++ ++TDGSI D+++ A +L+ L F+ E + +++E I + Sbjct: 209 FDKLTLNVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRDDIEEMIEEPMDIQV 268 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + Sbjct: 269 IDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEKM 328 Query: 311 GTMGLFLGMN 320 +G L N Sbjct: 329 KDLGYDLEKN 338 >gi|165910449|gb|ABY73979.1| RNA polymerase alpha subunit [Cuscuta lupuliformis] Length = 335 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 83/331 (25%), Positives = 156/331 (47%), Gaps = 29/331 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV- 247 S + L + I T+GS+T ++++ ASR L D F++ E+ +++ Sbjct: 188 SYGNE---KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHIEKENLHLEDADRTI 244 Query: 248 ---------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 K+ +++LE NCL+ NI + DL+ ++ D+ Sbjct: 245 PLSPFTVYDKVAKLRKNKKKLALESLFIDQLEFPPNIYNCLKKSNIFTLLDLLNNSQEDL 304 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F L ++K +LG +G ++LP Sbjct: 305 MKIEHFR---LEDVKQILGILGKHFALDLPK 332 >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 = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 80/325 (24%), Positives = 153/325 (47%), Gaps = 22/325 (6%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +K +E + I PL +G A T+G A+R+ L+ + G IT + + + Sbjct: 13 LKWKCVES-RADSKRLYYGRFILSPLMKGQADTIGIAMRKALLGEIEGTCITRAKSEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I +N+K I L+ + + +I +GPG VTA DI +E+++ Sbjct: 72 HEYSTIVGIQESVHEIFMNLKEIVLRSNLYGTRDASICVKGPGYVTAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL + +EL + + GY + ++ G IDA++ P++ ++++ S Sbjct: 132 NTQHIANLTEPINLCIELQIERNRGYRIKTPNNFQD---GSYPIDAVFMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + L + I T+GS+T ++++ ASR L D F++ EE +K + + + Sbjct: 189 Y-VNGNEKQEILFLEIWTNGSLTPKEALYEASRNLIDFFIPFLHAEEENFHLKNNQHKVT 247 Query: 250 LPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 LP + +++ EL R NCL+ NI + DL+ + D++ Sbjct: 248 LPLFTFHDRLAKLRKNKKEIALKYIFIDQSELPPRIYNCLKRSNIHTLLDLLNNSPDDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLG 318 ++ +F + + I +L + Sbjct: 308 KIKHFRIEDVKHILDIL-EIEKHFA 331 >gi|313292082|gb|ADR51230.1| DNA-directed RNA polymerase alpha chain [Enterococcus gallinarum] Length = 241 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 108/234 (46%), Positives = 155/234 (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 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 +M I TDGSI ++++LA++I+ + L +F+N + K + + + Sbjct: 186 TMEIWTDGSIEPLEAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 239 >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 = 267 bits (682), Expect = 2e-69, Method: Composition-based stats. Identities = 124/354 (35%), Positives = 190/354 (53%), Gaps = 24/354 (6%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +K + +E V G + +A+PL +G HTLG+ALRR L+ L AI + + G Sbjct: 34 ESVKMSPVEGAVGGI--DKVARFVADPLEKGMGHTLGSALRRALLIGLEAPAIVSFSMTG 91 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK---------RVTIFKRG-------- 110 VLHE +++G+ ED+T+I+LN+KG LK R TI Sbjct: 92 VLHEYMAVEGIIEDVTNIVLNLKGSLLKKYPLQDCEGGRCSQKLRATISIDASDLAAAGG 151 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL 170 VT GD+ E +NP+HVI + + + L V+ G GY P++ E + Sbjct: 152 QKEVTLGDLLQEGTFEAVNPEHVIFTVTRPMQLEVMLRVAFGRGYSPSERIVLEERGMNE 211 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG + +++VA A++IL + Sbjct: 212 IVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLVLQVETDGRVAPKEAVAFATQILSKHFSV 271 Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLK---KVEELELSVRSTNCLRGENIVYMGDLIQR 287 F +E + +E I+V+ + L K + E+ELSVRSTNCL NI +G+L+ Sbjct: 272 FEKMDEKRIVFEEAISVEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIGELVIM 331 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 332 PEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 385 >gi|157493277|gb|ABV58004.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 269 Score = 267 bits (682), Expect = 2e-69, Method: Composition-based stats. Identities = 120/272 (44%), Positives = 183/272 (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++ + + + F+P LL+ V++LEL+ Sbjct: 181 TNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELT 237 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 VRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 269 >gi|119662335|emb|CAJ33156.1| RNA polymerase alpha subunit [Lactobacillus paracasei subsp. paracasei] Length = 213 Score = 267 bits (682), Expect = 2e-69, 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|68124013|emb|CAJ01914.1| DNA-directed RNA polymerase alpha chain [Chrysanthemum x morifolium] Length = 335 Score = 267 bits (682), Expect = 2e-69, Method: Composition-based stats. Identities = 82/330 (24%), Positives = 161/330 (48%), Gaps = 26/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 13 LQWKCVES-AADSKRPFYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKIS 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + +I RGPG VTA DI +E+++ Sbjct: 72 HEYSTIMGIQESVHEILMNLKEIVLRSNLYGTCEASICVRGPGYVTAQDIILPPYVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + + L + K GY+ + ++ G ID ++ P++ ++++ S Sbjct: 132 NTQHIATLTEPIELVIGLQIEKNRGYLIKAPNTFQD---GSYPIDPVFMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV-- 247 G + + L + I T+GS+T ++++ ASR L D L F++ +E ++++ ++ Sbjct: 189 YENG---NKEILFLEIWTNGSLTPKEALHEASRNLIDLLIPFLHTKEENLNLEDNQHMIP 245 Query: 248 --------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 K+ +++ EL R NCL+ NI + DL+ ++ D++ Sbjct: 246 LPPFTFYDKLAKLTKNKKKMALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQDDLM 305 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +M +F + ++K +LG + ++LP Sbjct: 306 KMEHFH---IEDVKQILGILEKNFVIDLPK 332 >gi|58491826|gb|AAW78552.1| RNA polymerase alpha subunit [Sphagnum fimbriatum] Length = 338 Score = 267 bits (682), Expect = 2e-69, Method: Composition-based stats. Identities = 88/327 (26%), Positives = 160/327 (48%), Gaps = 21/327 (6%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E V + P G A+T+G A+RR L+ + G IT + + V Sbjct: 14 LQWRCVESKVDSERLH-YGRFAISPFRSGQANTVGIAVRRALLGGVEGTCITRAKSEKVT 72 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 HE S+I G+ E + DI++N+K I LK + ++ + GP VTA DI +EV Sbjct: 73 HEYSTILGIQESVRDILINLKEIVLKSKSNSCETQKAFLSIFGPKEVTARDIIFPPSVEV 132 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 ++ I L + +EL + K GY ++ + G ++DA+++PI+ +Y+V Sbjct: 133 IDTTQYIATLTKAIHLDIELKIEKDCGYRTQDSIKSAD---GYFSVDAVFTPIRNANYSV 189 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EPKKEVKEDIN 246 S + L + I T+GS+T ++++ ASR L D F++ E E K + N Sbjct: 190 HSFENKNET-QEILFIEIWTNGSVTPKEALYEASRSLIDLFIPFLHAEKEEVMHDKNESN 248 Query: 247 VKSLPFNPALLKK----------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 +P+ K +++LEL R+ NCL+ ++ + DL+ ++ D++++ Sbjct: 249 TLHFSSSPSENKMEKEMTFKHIFIDQLELPARAYNCLKRVDVHTISDLLSYSQDDLMKIK 308 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPD 323 NFG+KS+ ++ L + + LP Sbjct: 309 NFGKKSVEQV---LEALQKRFSIKLPK 332 >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 = 267 bits (682), Expect = 2e-69, Method: Composition-based stats. Identities = 114/328 (34%), Positives = 175/328 (53%), Gaps = 18/328 (5%) Query: 8 ELIKPNNIEYIVL-GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E + P ++ + E + P+ +G+ T+GNALRRVL+SS+ AI ++ Sbjct: 3 EYVIPKKLKIEEERSETEYYYARYVLSPMEKGYGTTIGNALRRVLLSSIPSVAIVGIRFI 62 Query: 67 G--VLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTV 122 HE ++ GV ED+ +IILN+K I L+ ++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 AGFEIANPSLKIATLDEEADLFFELYAQAGKGFVPAQEM-DDHPEIGWIPIDGVFSPVMK 181 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN--------- 233 V++ VESAR + DYDK+ + I T +I +++ A IL + L + + Sbjct: 182 VNFRVESARVEKRTDYDKMILEIWTKKTIFPNEALKRAVDILMNHLQIITDSLPEGMPPL 241 Query: 234 --FEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 P + + + KK++ELEL++RS NCLR + I +GDL++RTE D Sbjct: 242 TTEFVPISQEEVKVEQTVSEEEAVYSKKIDELELTIRSLNCLRRDKIETIGDLLKRTEED 301 Query: 292 MLRMANFGRKSLVEIKGV-LGTMGLFLG 318 +L++ NFG KSL E+K L GL L Sbjct: 302 LLKIKNFGPKSLDEVKQKLLEKFGLSLK 329 >gi|161513430|emb|CAP16858.1| DNA-directed RNA polymerase subunit alpha [Pediococcus parvulus] Length = 224 Score = 267 bits (682), Expect = 2e-69, Method: Composition-based stats. Identities = 100/224 (44%), Positives = 153/224 (68%), 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 SKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 G GYV A ++ ++ 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|71056824|emb|CAH58967.1| DNA-directed RNA polymerase alpha chain [Enterococcus gallinarum] Length = 235 Score = 267 bits (682), Expect = 2e-69, Method: Composition-based stats. Identities = 107/233 (45%), Positives = 152/233 (65%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ II Sbjct: 3 YGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQII 62 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LNIKG+ LKM GD K + I GP VTAGDI +D+E+LN D ICN+ A Sbjct: 63 LNIKGLALKMYGDEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICNVSEGASFHAR 122 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I Sbjct: 123 LTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIW 182 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 TDGSI ++++LA++I+ + L +F+N + K + + + L Sbjct: 183 TDGSIEPLEAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMT 235 >gi|71056884|emb|CAH58998.1| DNA-directed RNA polymerase alpha chain [Enterococcus pseudoavium] Length = 236 Score = 266 bits (681), Expect = 2e-69, 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|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 = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 83/334 (24%), Positives = 164/334 (49%), Gaps = 25/334 (7%) Query: 10 IKPNNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 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 ++ G +IDA++ P++ ++ Sbjct: 128 EIIDNTQHIASLREPIDLHIGLEIERNRGYCMKPPKNFQD---GSYSIDAVFMPVRNANH 184 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 +V S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ Sbjct: 185 SVHSYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEESFHLEKNQ 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|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 = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 83/334 (24%), Positives = 164/334 (49%), Gaps = 25/334 (7%) Query: 10 IKPNNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 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 ++ G +IDA++ P++ ++ Sbjct: 128 EIIDNTQHIASLREPIDLHIGLEIERNRGYCMKPPKNFQD---GSYSIDAVFMPVRNANH 184 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 +V S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ Sbjct: 185 SVHSYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENFHLEKNQ 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|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 = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 83/331 (25%), Positives = 162/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 ++ G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDFCIGLQIERNRGYLIKTPHNFQD---GSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN-- 246 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNG-NEKQEILFIEIWTNGSLTPKEALHDASRNLIDLFIPFLHMEEDNLYLQDNQHTV 246 Query: 247 --------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +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|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 = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 99/316 (31%), Positives = 161/316 (50%), Gaps = 10/316 (3%) Query: 10 IKPNNIEYIVLGQEEEN--RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + P+ I I E + EPL G T+GN LRR+L+ + GAAIT+V+I G Sbjct: 6 LFPSTIYCIESKIESPRNLYGRFLIEPLAIGQGITVGNTLRRILLGDIEGAAITSVKIPG 65 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 +E S + G+ E + +I+LN+K I + ++ + +GP VV A ++Q IEV Sbjct: 66 ANNEFSILPGIRESVLEILLNLKEIVFRTKSLDVQKGYLSIQGPCVVKAANLQLPTSIEV 125 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 ++ I L +A + ME ++ G GY A + +N I + +DA++ PI KV+Y V Sbjct: 126 VDGGQYIATLSGNANLDMEFVINTGKGYQMADYAIKKNSYISSLPVDAIFMPIHKVNYMV 185 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E + L +++ + I T+GSI+ D++ + + + D + K D + Sbjct: 186 EQDHTSKFLT-ERVILEIWTNGSISPRDALDIGIKKVIDLFNPLHHCSSEYSTNKNDFST 244 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 +S VEELELSVR+ NCL+ I + DL+ ++ D+L + NFGR+S E+ Sbjct: 245 ES----KINDILVEELELSVRAYNCLKRAQIHTISDLLAYSQEDLLEIKNFGRRSAEEVI 300 Query: 308 GVLGTMGLFLGMNLPD 323 L L + LP Sbjct: 301 EALE---KKLNIYLPK 313 >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 = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 119/359 (33%), Positives = 189/359 (52%), Gaps = 25/359 (6%) Query: 6 WQELIKPNNIEYIVLGQEE---ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 + + P +++ + + +A+PL +G HTLG+ALRR L+ L AI + Sbjct: 10 YNKFELPESVKMSPVEGAAGGIDKVARFVADPLEKGMGHTLGSALRRALLIGLEAPAIVS 69 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK---------RVTIFKRG--- 110 + GVLHE +++G+ ED+T+I+LN+KG LK R TI Sbjct: 70 FSMTGVLHEYMAVEGIIEDVTNIVLNLKGSLLKKYPLQDCEGGRASQKLRATISIDASDL 129 Query: 111 -----PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 +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 DQLGMFINFEEPKKEVKEDINVKSLPFNPALLK---KVEELELSVRSTNCLRGENIVYMG 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|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 = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 82/331 (24%), Positives = 161/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 ++ G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDFCIGLQIERNRGYLIKTPHNFQD---GSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN-- 246 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNG-NEKQEILFIEIWTNGSLTPKEALHDASRNLIDLFIPFLHMEEDNLYLQDNQHTV 246 Query: 247 --------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +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|71056800|emb|CAH58955.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] Length = 233 Score = 266 bits (681), Expect = 3e-69, 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|157493279|gb|ABV58005.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|157493281|gb|ABV58006.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 268 Score = 266 bits (680), Expect = 3e-69, Method: Composition-based stats. Identities = 120/271 (44%), Positives = 183/271 (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++ + + + F+P LL+ V++LEL+V Sbjct: 181 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTV 237 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 RS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RSANCLKAEAIHYIGDLVQRTEVELLKTPNL 268 >gi|71056828|emb|CAH58969.1| DNA-directed RNA polymerase alpha chain [Enterococcus sulfureus] Length = 234 Score = 266 bits (680), Expect = 3e-69, 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|313292086|gb|ADR51232.1| DNA-directed RNA polymerase alpha chain [Enterococcus gilvus] Length = 241 Score = 266 bits (680), Expect = 3e-69, Method: Composition-based stats. Identities = 106/238 (44%), Positives = 154/238 (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 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 +DKL+M I TDGSI +++++LA++IL + L +F+N + K + + + Sbjct: 182 FDKLTMEIWTDGSIIAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 239 >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 = 266 bits (680), Expect = 4e-69, Method: Composition-based stats. Identities = 104/230 (45%), Positives = 153/230 (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 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 SI +++++LA++I+ + L +F+N + K + + + L Sbjct: 181 SIIPQEALSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMT 230 >gi|72534399|emb|CAH59014.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] Length = 227 Score = 266 bits (680), Expect = 4e-69, 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|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 = 266 bits (680), Expect = 4e-69, Method: Composition-based stats. Identities = 114/326 (34%), Positives = 178/326 (54%), Gaps = 16/326 (4%) Query: 8 ELIKPNNIEYIV-LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI- 65 E + P ++ E+ + PL +G+A T+GN LRRVL+SS+ AIT V+ Sbjct: 2 EFVMPKRLKMEEHKESEDYYYARYVLSPLEKGYATTIGNTLRRVLLSSIPSLAITDVKFV 61 Query: 66 -DGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTV 122 HE +I+GV ED+ +I+LN+K + L M + +TI +G G + AGDI Sbjct: 62 RPEKYHEFDTIEGVKEDILEILLNLKKVQLSMEDYVEDPVELTIQHKGAGEIKAGDIIVP 121 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + V NP+ I L+ DA + ++L + G G+VPA + D IG I +D +Y+P+ K Sbjct: 122 AGVSVTNPNLHIATLNEDADLEIKLYATIGKGFVPAAERNEKPD-IGWIVLDGVYNPVLK 180 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL----GMFINFEEPK 238 V++ E+ R G+ DYDKL + I T +I D++ A +I+ D F F+E Sbjct: 181 VNWIAENVRVGKKTDYDKLVLEIWTKKNIKPSDALKKAVKIINDHFRIIEESFGEFDEEN 240 Query: 239 -----KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 EV + + N L +K++EL+LS+R+ NCL+ + I +GDL+ R E ++L Sbjct: 241 DIAEVSEVSTVEEEEVVDENDILSRKIDELDLSMRALNCLKRDKIETIGDLLSRGEEELL 300 Query: 294 RMANFGRKSLVEIKGVL-GTMGLFLG 318 ++ NFG+KSL E+K L GL G Sbjct: 301 KIKNFGQKSLDEVKEKLMEKFGLSFG 326 >gi|71056912|emb|CAH59015.1| DNA-directed RNA polymerase alpha chain [Enterococcus raffinosus] Length = 235 Score = 266 bits (680), Expect = 4e-69, 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|153799480|gb|ABS50515.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] gi|153799482|gb|ABS50516.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 240 Score = 266 bits (680), Expect = 4e-69, Method: Composition-based stats. Identities = 102/242 (42%), Positives = 152/242 (62%), Gaps = 4/242 (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 SL 250 Sbjct: 237 DD 238 >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 = 266 bits (680), Expect = 4e-69, Method: Composition-based stats. Identities = 86/334 (25%), Positives = 161/334 (48%), Gaps = 26/334 (7%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 + +E + + + I PL +G A +G A+RR L+ + G IT V+ + V H Sbjct: 14 RWKCVES-RIDSKRLYYSRFILSPLMKGQADMIGIAMRRALLGEIEGTCITRVKSEKVPH 72 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S+I G+ E + +I++N+K I L+ + +I RGP VTA DI +E+++ Sbjct: 73 EFSTIVGIEESVHEIVMNLKEIVLRSNLYGTLDASICIRGPRYVTAQDIILPPSVEIVDA 132 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 I NL + ++L + + GY H E+ G IDA++ P++ +++V S Sbjct: 133 TQHIANLTERVDLCIKLQIERDRGYSMKTPHNDED---GSYPIDAIFMPVRNANHSVHSY 189 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN---- 246 G + L + I T+GS+T ++++ ASR L D F++ EE + ++++ N Sbjct: 190 GNG-NEKQEILFIEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEREIHLEDNANGVPL 248 Query: 247 --------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 K+ +++ EL ++ NCL+ NI + DL+ ++ D+ Sbjct: 249 ALFTFHDEFAITNIRKNKKKMALKSIFIDQSELPSKTYNCLKKSNIHTLLDLLNNSQEDL 308 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 L++ +F + ++K +L + G +LP Sbjct: 309 LKIEHF---CMEDVKRILDILQKHFGFDLPKNGK 339 >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 = 266 bits (679), Expect = 4e-69, Method: Composition-based stats. Identities = 100/297 (33%), Positives = 162/297 (54%), Gaps = 4/297 (1%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + + L G T+GN RRVL+S L G AIT V+I GV E S+I G+ ED+ +I+ Sbjct: 20 YGQFVIKSLHPGQGITIGNLFRRVLLSDLGGTAITGVRIAGVRDEFSTIPGIREDILEIL 79 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+KGI LK + K + +GP VVTA IQ +++E++NP+H I + V+ +E Sbjct: 80 LNLKGIVLKSKTNDLKFGRLKIKGPAVVTANCIQLPSEVEIVNPNHYIATITTSNVLEIE 139 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 + G GY A + + IDA++ P++KV + +E+ + ++L + I Sbjct: 140 FKIESGTGYKLAGQTFCK-KSQDYLQIDAIFMPVQKVDFKIENIYDNSNDLTERLFLDIW 198 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+GS++ E++V+ ASR + + + P++ + + S P NP +EEL LS Sbjct: 199 TNGSMSPEEAVSSASRFIISFFSSLLENKLPQETKESENKTLSAPKNPHTNIAIEELHLS 258 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 VR+ NCL+ I +GDL++ + + + NFGRKS E+ L LG+ L + Sbjct: 259 VRAYNCLKRAQINTIGDLLKYSPEKLQELKNFGRKSADEVFTTLKNK---LGIVLSN 312 >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 = 266 bits (679), Expect = 4e-69, Method: Composition-based stats. Identities = 119/325 (36%), Positives = 181/325 (55%), Gaps = 16/325 (4%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ P+ IE++ G+++ + I P +GF T+GN LRRVL+SS+ G AI+A++I Sbjct: 9 KDFTIPDRIEFLR-GEDDGSYGKFIIYPFEKGFGVTIGNTLRRVLLSSIEGYAISAMRIQ 67 Query: 67 G--------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVT--- 115 V E I GV ED ++I NIK I+LK+ + K TI G T Sbjct: 68 SNQGGSLKIVSSEFDLIPGVVEDTLEVIANIKNIHLKLD-EGVKSATISVSVNGKDTNVL 126 Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDA 175 +EV N D VI L +A + E V G GYV ++H+ + + I +D+ Sbjct: 127 KAVHLEREGVEVCNKDLVIATLSSEANLDFEFQVDYGRGYVSSEHNAKYLEEVNTIALDS 186 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 ++SPI+KV+Y+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L +NFE Sbjct: 187 IFSPIEKVTYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREFLLPLVNFE 246 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + +V ++ + L +E+L LSVRS NCL EN+ +G+LI ++ ++ + Sbjct: 247 D---KVVHSVDDSEFRDSDILNMNIEKLNLSVRSLNCLTKENVKTLGELISKSAEELSKA 303 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMN 320 NFG+KSL EI L GLFLGM+ Sbjct: 304 RNFGKKSLEEIVEKLSVYGLFLGMS 328 >gi|313292084|gb|ADR51231.1| DNA-directed RNA polymerase alpha chain [Enterococcus malodoratus] Length = 241 Score = 266 bits (679), Expect = 4e-69, Method: Composition-based stats. Identities = 106/238 (44%), Positives = 154/238 (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 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 +DKL+M I TDGSI +++++LA++IL + L +F+N + K + + + Sbjct: 182 FDKLTMEIWTDGSIIAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 239 >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 = 266 bits (679), Expect = 4e-69, Method: Composition-based stats. Identities = 119/359 (33%), Positives = 189/359 (52%), Gaps = 25/359 (6%) Query: 6 WQELIKPNNIEYIVLGQEE---ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 + + P +++ + + +A+PL +G HTLG+ALRR L+ L AI + Sbjct: 27 YNKFELPESVKMSPVEGAAGGIDKVARFVADPLEKGMGHTLGSALRRALLIGLEAPAIVS 86 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK---------RVTIFKRG--- 110 + GVLHE +++G+ ED+T+I+LN+KG LK R TI Sbjct: 87 FSMTGVLHEYMAVEGIIEDVTNIVLNLKGSLLKKYPLQDCEGGRASQKLRATISIDASDL 146 Query: 111 -----PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 +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 DQLGMFINFEEPKKEVKEDINVKSLPFNPALLK---KVEELELSVRSTNCLRGENIVYMG 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|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 = 266 bits (679), Expect = 4e-69, Method: Composition-based stats. Identities = 97/291 (33%), Positives = 163/291 (56%), Gaps = 1/291 (0%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 EN EPL +G T+GNALRR L+S++ G AI +I GV HE S I GV ED Sbjct: 14 ATENVAKFCIEPLSKGQGITIGNALRRTLLSNIPGTAIVGTRISGVDHEFSVIPGVKEDA 73 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 +I+LN+K + K + + + +GP +VTAGDI D+E+++P I + + Sbjct: 74 LEILLNLKQLVFKGNLNEPIITRLNIQGPCIVTAGDIDIPTDLELIDPQQYIATITDFSH 133 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + ME + +G YV ++ + N P G + +DA+++PIKKV++ VE++ + L+ ++L Sbjct: 134 LEMEFILEQGESYVLSEKTASNN-PRGFLAVDAVFTPIKKVNFFVETSSSKERLEKERLI 192 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + I+T+GSI +++ LA+ L + + + + E N+ + +EE Sbjct: 193 IEIETNGSILPLEALNLAAERLSSLFKLVNSADLTAEFPTEVENIVQVSQTDVTGVLIEE 252 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 LELSVR+ NCL+ I +G+L++ ++ ++L NFG+KS E+ L Sbjct: 253 LELSVRAYNCLKRAQIHTLGELLKYSKENLLEFKNFGQKSANEVCENLHER 303 >gi|51859683|gb|AAU11121.1| RNA polymerase alpha subunit [Psathyrostachys fragilis subsp. secaliformis] Length = 339 Score = 266 bits (679), Expect = 5e-69, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIXIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >gi|328813973|gb|AEB52102.1| DNA-directed RNA polymerase alpha chain [Lactobacillus fermentum] Length = 243 Score = 266 bits (679), Expect = 5e-69, Method: Composition-based stats. Identities = 106/243 (43%), Positives = 162/243 (66%), 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 KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--EN 165 +GP VTA DIQ D+ +LN D I + A + +++T KG GY A ++T 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|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 = 266 bits (679), Expect = 5e-69, Method: Composition-based stats. Identities = 93/328 (28%), Positives = 162/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + GA IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGACITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >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 = 266 bits (679), Expect = 5e-69, Method: Composition-based stats. Identities = 86/330 (26%), Positives = 163/330 (49%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ++RR L+ + G IT + + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLMKGQADTIGISMRRALLGEIEGTCITRAKSEKVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ G+ E + +I+ N+K I L+ + + +I RGP VTA DI + +E+++ Sbjct: 72 HEYSTVVGIEESVHEILFNLKEIVLRSNLYEIRDASICVRGPRYVTAQDIISPPYVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL + +EL + + GY +++ G IDA++ P++ ++++ S Sbjct: 132 TTQYIANLTEPIDLCIELEIKRDRGYRMKPITNSQD---GSYPIDAVFMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKEALYEASRNLIDLFVPFLHAEEEDINFEENKNKFT 247 Query: 250 LPF----------------NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 LP P +++LEL R+ NCL+ NI + DL+ + + +++ Sbjct: 248 LPPLTFQDRLSNLKKNKKGIPLKYIFIDQLELPSRTYNCLKRSNIHTLLDLLSKGQENLI 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +M F + ++K +L T+ ++LP Sbjct: 308 KMEYFH---IEDVKQILDTLQKHFAVDLPK 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 = 266 bits (679), Expect = 5e-69, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 160/328 (48%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E ++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVETVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >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 = 266 bits (679), Expect = 5e-69, Method: Composition-based stats. Identities = 92/328 (28%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LPFN----------------PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 PPPFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >gi|71056812|emb|CAH58961.1| DNA-directed RNA polymerase alpha chain [Enterococcus hirae] Length = 237 Score = 266 bits (679), Expect = 5e-69, 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|300431286|gb|ADK12608.1| RNA polymerase alpha subunit [Nassella novarae] Length = 339 Score = 266 bits (679), Expect = 5e-69, Method: Composition-based stats. Identities = 90/328 (27%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I+ +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY + ++ G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGXXFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTILDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 + +F + + K + T+ L ++L Sbjct: 308 XIDSFR---MEDGKQIWDTLEKHLPIDL 332 >gi|313292080|gb|ADR51229.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 241 Score = 266 bits (679), Expect = 5e-69, Method: Composition-based stats. Identities = 107/234 (45%), Positives = 154/234 (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 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 +M I TDGSI ++++L+++I+ + L +F+N + K + + + Sbjct: 186 TMEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 239 >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 = 265 bits (678), Expect = 5e-69, Method: Composition-based stats. Identities = 80/324 (24%), Positives = 159/324 (49%), Gaps = 27/324 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 ++ G IDA++ P++ ++++ Sbjct: 131 DNTQYIANLTEPINLCIGLQIERNRGYHIKTPKNFQD---GSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++ + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLENNQYKV 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 MKMEYFR---IEDVKQILDSLEIE 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 = 265 bits (678), Expect = 6e-69, Method: Composition-based stats. Identities = 80/324 (24%), Positives = 152/324 (46%), Gaps = 24/324 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 DNTQHIANLTEPINLCIELQIERNRGYRIKTPN---NFQEGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S + L + I T+GS+T ++++ ASR L D F++ EE + + + Sbjct: 188 SY-VNGNEKQEILFIEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHFENNQHKV 246 Query: 249 SLP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP N +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPLFTFHGKLANPKKIKKENTLKYIFIDQSELPPRVYNCLKRSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLF 316 +++ + + + I +L F Sbjct: 307 MKIKHLRIEDVKHILNILEIKKHF 330 >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 = 265 bits (678), Expect = 6e-69, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >gi|161511773|emb|CAP16897.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 249 Score = 265 bits (678), Expect = 6e-69, Method: Composition-based stats. Identities = 106/243 (43%), Positives = 153/243 (62%), Gaps = 2/243 (0%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E +N + EPL RG+ TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+GV ED Sbjct: 7 DENDNYGRFVIEPLERGYGTTLGNSLRRILLSSLPGAAITSVQIDSVLHEFSTIEGVVED 66 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ IC + Sbjct: 67 VTQIILNLKKVSLKIESDEDKTLEINVAGPANVTAGDIMGDGDVVILNPELPICTVAEGT 126 Query: 142 VVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 LT G GY A ++ + PIG++ ID++Y+PI++V+Y VE+ R GQ DYD Sbjct: 127 TFHAVLTADTGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYD 186 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL++ I TDGSIT ++ +L+++IL + L +F+N + KE + + + L Sbjct: 187 KLTLDIWTDGSITPSEATSLSAKILTEHLAIFVNLNDQAKETEIMVEKEETHKEKMLEMT 246 Query: 260 VEE 262 +EE Sbjct: 247 IEE 249 >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 = 265 bits (678), Expect = 6e-69, Method: Composition-based stats. Identities = 124/305 (40%), Positives = 179/305 (58%), Gaps = 6/305 (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 TDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 D+ LN+K + LK SG + + + G G V + I +D EV+N D +ICN+ Sbjct: 85 ADLALNLKKVVLKSVSGATCGNLHLSVTGGGAVFSNMISPSHDFEVVNADLLICNVAEGV 144 Query: 142 VVRMELTVSKGHGYVPAKH-HRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + ME+ VS G GYV + + E D G + IDA+Y+P++ V++TV+ G + +DK Sbjct: 145 SLEMEMKVSSGFGYVSSVSVRKDEYDLEGAVPIDAIYNPVRAVNFTVKPTSAGSFVGHDK 204 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK----EDINVKSLPFNPAL 256 L + ++T+G++ + +V AS+IL Q F+N +P+ V + L Sbjct: 205 LILYVETNGAMDPKTAVLEASKILSTQARCFLNIADPEHRVHGVPYSVSTSDRNDTSDLL 264 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +++ L LS R+ CL GENIVY+ DL+ RTEAD+L+ NFGR+SL E+K L + GL Sbjct: 265 SARIDRLYLSARARKCLNGENIVYIRDLVSRTEADLLKAPNFGRRSLEEVKKELFSKGLS 324 Query: 317 LGMNL 321 LGMNL Sbjct: 325 LGMNL 329 >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 = 265 bits (678), Expect = 6e-69, Method: Composition-based stats. Identities = 82/336 (24%), Positives = 160/336 (47%), 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 + + G +IDA++ P++ ++ Sbjct: 128 EIIDNTQHIASLTKAIDLCIGLQIERNRGYRIKPTNNFQ-VQDGSYSIDAVFMPVRNANH 186 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 +V S G + L + I T+GS+T ++++ ASR L D F++ EE ++ + Sbjct: 187 SVHSYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDFFIPFLHAEEENLHLEIEK 245 Query: 246 NV------------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 N K+ +++ EL+ + NCL+ NI + DL+ + Sbjct: 246 NQHKVTLPLFCFHDKLTKLRKNKKEIVLKYIFIDQSELTPKIYNCLKRSNIHTLSDLLNK 305 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ D++++ +F + I G+L + ++LP Sbjct: 306 SQEDLMKIEHFRIDDVKHILGIL-EIEKHFTIDLPK 340 >gi|71056880|emb|CAH58996.1| DNA-directed RNA polymerase alpha chain [Enterococcus avium] Length = 235 Score = 265 bits (678), Expect = 6e-69, 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|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 = 265 bits (678), Expect = 6e-69, Method: Composition-based stats. Identities = 92/317 (29%), Positives = 165/317 (52%), Gaps = 15/317 (4%) Query: 13 NNIEYIVLGQEEENR----TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 E L + N + + +PL G TLGNALRR L+S L G AITAV+I GV Sbjct: 2 TQFEIECLDSKVYNARDHWSRFVIDPLKPGQGTTLGNALRRTLLSELEGLAITAVRIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ ED+ +I+LN+K I + +GP +VTA + +I+++ Sbjct: 62 SHEFSTINGIREDVLEILLNLKEIVFSGQLQESTIGRLTVQGPAIVTARSFELPPEIKLI 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 +P+ I + + + ME + G GY + + + + +D+++ P+KKV++ +E Sbjct: 122 DPEQYIATICGNNTLEMEFKIEVGSGYKIVEKDNS-TEHFEFLQVDSVFMPVKKVNFRIE 180 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 R + ++L + I T+GSI+ +++++ A+ L + + + + + + Sbjct: 181 ETRGENNILNEQLILDIWTNGSISAKEAISNAADNLINLFSPLKTIDG-----ESETDYE 235 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRG--ENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + + +EEL+LSVR+ NCL+ +I + DL+ ++ D++ + NFG+KS E+ Sbjct: 236 TNETSHINQILIEELQLSVRAYNCLKRGCAHIHSVADLLDYSQEDLIEIKNFGQKSAEEV 295 Query: 307 KGVLGTMGLFLGMNLPD 323 L LG+NLP Sbjct: 296 IDAL---QKRLGINLPK 309 >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 = 265 bits (678), Expect = 6e-69, Method: Composition-based stats. Identities = 129/351 (36%), Positives = 185/351 (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 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSH-----------------KRVTIFKRGP 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 INFEEPK---KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 + E+KED + L +++E+ELSVRSTNCL G NI + +L+ Sbjct: 247 KKVQTQMVSFDEIKEDSDSDDDEIMDKLALRIDEIELSVRSTNCLSGANIETIAELVSIP 306 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW--PPESIEELAKKYE 337 E ML NFG+KSL EIK L MGL LGM+L + E++ E K+Y+ Sbjct: 307 ERRMLEFRNFGKKSLTEIKAKLQEMGLGLGMDLSRYGITAENVREKIKEYQ 357 >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 = 265 bits (678), Expect = 6e-69, Method: Composition-based stats. Identities = 102/240 (42%), Positives = 152/240 (63%), Gaps = 4/240 (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 >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 = 265 bits (678), Expect = 6e-69, Method: Composition-based stats. Identities = 122/305 (40%), Positives = 175/305 (57%), Gaps = 6/305 (1%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E I EPL GF T+GNA+RRVL+SSL G AI+AV I G+ HE S I GV ED Sbjct: 25 REGYCAEFIVEPLRVGFGLTIGNAMRRVLLSSLSGFAISAVGIKGLTHEFSCIPGVREDF 84 Query: 83 TDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 D+ LN+K + LK + + + G V + I +D EV+N D +ICN+ Sbjct: 85 ADLALNLKKVVLKSISGATCGNLHLSVTDGGAVFSNMISPSHDFEVVNGDLLICNVAEGV 144 Query: 142 VVRMELTVSKGHGYVPAKH-HRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + ME+ VS G GYV + + E D G + IDA+Y+P++ V++TV+ G +DK Sbjct: 145 SLEMEMKVSSGFGYVSSVSVRKDEYDLEGAVPIDAIYNPVRAVNFTVKPTSAGSFAGHDK 204 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI----NVKSLPFNPAL 256 L + ++T+G++ + +V AS+IL Q F+N +P+ V + L Sbjct: 205 LILYVETNGAMDPKTAVLEASKILSTQARCFLNIADPEHRVHGVPCGVSTSDRNDASDLL 264 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +++ L LS R+ CL GENIVY+ DL+ RTEAD+L+ NFGR+SL E+K L + GL Sbjct: 265 SARIDRLYLSARARKCLNGENIVYIRDLVSRTEADLLKAPNFGRRSLEEVKKELFSKGLS 324 Query: 317 LGMNL 321 LGMNL Sbjct: 325 LGMNL 329 >gi|311990464|gb|ADQ26362.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 243 Score = 265 bits (678), Expect = 7e-69, 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|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 = 265 bits (678), Expect = 7e-69, Method: Composition-based stats. Identities = 92/328 (28%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 PPLFTFQKRLTNPKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---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 = 265 bits (678), Expect = 7e-69, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFH---MEDRKHIWDTLEKHLPIDL 332 >gi|71056888|emb|CAH59000.1| DNA-directed RNA polymerase alpha chain [Enterococcus mundtii] Length = 238 Score = 265 bits (678), Expect = 7e-69, 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: 3 YGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQII 62 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LNIKG+ LKM G K + I GP VTAGDI +++E+LN D IC++ A Sbjct: 63 LNIKGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHAR 122 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I Sbjct: 123 LTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIW 182 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 TDGSI ++++L+++I+ + L +F+N + K + + + L +EE Sbjct: 183 TDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 238 >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 = 265 bits (678), Expect = 7e-69, Method: Composition-based stats. Identities = 92/328 (28%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >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 = 265 bits (677), Expect = 7e-69, Method: Composition-based stats. Identities = 90/328 (27%), Positives = 160/328 (48%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G I + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCIARAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFKKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >gi|290489658|gb|ADD31213.1| RNA polymerase alpha subunit protein [Dillenia indica] Length = 353 Score = 265 bits (677), Expect = 7e-69, Method: Composition-based stats. Identities = 82/328 (25%), Positives = 162/328 (49%), Gaps = 22/328 (6%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 13 LQWKCVES-RIDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+++G+ E + +I++N+K I L+ + + +I RGPG VTA DI +E+++ Sbjct: 72 HEYSTMRGIQESVHEILMNLKEIVLRSNLYGTRNASICARGPGYVTAQDIILPPSVEIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I +L + +EL + + GY + +++ IDA++ P++ ++++ S Sbjct: 132 NTQHIASLTEPINLYIELQIERNRGYHIKTPNNFQDES---YPIDAVFMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR D FI+ E+ + ++ + + Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNFIDLFIPFIHVEKENLYLGDNQDKDT 247 Query: 250 LPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P + +++LEL R NCL+ NI + DL+ ++ D++ Sbjct: 248 FPLFTFHDELAKLRKNKKEIALKYLFIDQLELPPRIYNCLKRSNIHTLLDLLNNSQEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGT-MGLFLGMN 320 ++ F R+ + +I G+L + FL N Sbjct: 308 KIEYFRREDVKQIFGILEKHLNFFLTKN 335 >gi|228016583|gb|ACP51413.1| RNA polymerase alpha subunit [Abies firma] Length = 336 Score = 265 bits (677), Expect = 7e-69, Method: Composition-based stats. Identities = 88/330 (26%), Positives = 157/330 (47%), Gaps = 25/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + PL +G A T+G A+RR L+ + G IT V++D + Sbjct: 13 LRWKCLESRAYSKRLH-YGRFALSPLCKGRADTIGIAMRRALLGEVEGTCITHVKLDNIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITFDIRLRIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED----- 244 G + + L + I T+G +T +++ ASR L D L F++ EE + + Sbjct: 189 YGSGNEI-REVLFLEIWTNGGLTPREALYEASRNLIDLLIPFLHGEEQNIDGMNNRKGSS 247 Query: 245 ------------INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 ++ +++LEL R+ NCLR NI + DL+ + D+ Sbjct: 248 NMPPFPLSHVFTDTGETKEKIAFQHIFIDQLELPPRTYNCLRRANIHTLLDLLNYSREDL 307 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 +R+ +FG++S+ ++ VL +NLP Sbjct: 308 MRIEHFGKESIEQVLEVLR---KRFAINLP 334 >gi|4379135|emb|CAA83722.1| DNA-directed RNA Polymerase (alpha) [Mycoplasma capricolum subsp. capricolum ATCC 27343] Length = 317 Score = 265 bits (677), Expect = 7e-69, Method: Composition-based stats. Identities = 111/318 (34%), Positives = 183/318 (57%), Gaps = 10/318 (3%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 ++ ++P I ++ +++N PL RGF TLGNA+RR L+++ GA++ A++I Sbjct: 1 MKQFVRPEFI--LLKEGQDKNYGKXXVSPLERGFGITLGNAIRRTLLAATPGASVYAIKI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQ 120 G HE +SI G+ E++T IILNIK + L++ D ++ I G V AGD++ Sbjct: 59 AGATHEFTSIPGIIENVTKIILNIKQLVLRIDTSIYSDDEVVQLKIRSDIQGPVYAGDLE 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSP 179 +EVLN D +I + ++ + L GY K ++ E N G+ITID+ YSP Sbjct: 119 LPAGVEVLNQDLLIATISEGGILDLVLYAKNSRGYKTFKDNKNEKNVEPGMITIDSNYSP 178 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I KV+Y+V+SA+ G+ +D +KL + + TDGSIT D++++AS+IL L FI+ Sbjct: 179 IIKVAYSVDSAKIGRAIDLEKLELEVTTDGSITAIDAISIASKILVAHLEFFIDLNREIS 238 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 ++ + + + L + VEEL+ + RS NCL+ I + +L+ + E ++ + N G Sbjct: 239 VLE--VIGVNQTDDKELDRTVEELDFTQRSLNCLKRAGINTLRELVTKNEDEIGSIRNLG 296 Query: 300 RKSLVEIKGVLGTMGLFL 317 RKSL EIK + ++GL Sbjct: 297 RKSLKEIKDKVASLGLAF 314 >gi|311990563|gb|ADQ26408.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus helveticus] Length = 243 Score = 265 bits (677), Expect = 7e-69, 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|317016851|gb|ADU85966.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 238 Score = 265 bits (677), Expect = 7e-69, Method: Composition-based stats. Identities = 93/238 (39%), Positives = 144/238 (60%), Gaps = 2/238 (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 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 + I T+GSI D+++L ++IL + L +F++ E + + + + + Sbjct: 181 TFDIWTNGSIKPSDALSLGAKILAEHLNLFMDISPVAAEAXVMVEAEPVAVSASDSAP 238 >gi|51859679|gb|AAU11119.1| RNA polymerase alpha subunit [Psathyrostachys lanuginosa] Length = 339 Score = 265 bits (677), Expect = 7e-69, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGXVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 MAQPIANLTEPIDFCIDLRIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---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 = 265 bits (677), Expect = 7e-69, Method: Composition-based stats. Identities = 92/328 (28%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LPFN----------------PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 PPPFTFKKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >gi|71056890|emb|CAH59001.1| DNA-directed RNA polymerase alpha chain [Enterococcus cecorum] Length = 235 Score = 265 bits (677), Expect = 8e-69, Method: Composition-based stats. Identities = 105/233 (45%), Positives = 152/233 (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 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 TDGSI D+++LA++IL + L +F+N + + + + + L Sbjct: 183 TDGSIEPLDAMSLAAKILTEHLDIFVNLTDEARHAEIMVEKEETQKEKMLEMT 235 >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 = 265 bits (677), Expect = 8e-69, Method: Composition-based stats. Identities = 119/335 (35%), Positives = 185/335 (55%), Gaps = 19/335 (5%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +++ ++ P IE++ Q++ + P RGF T+GN LRRVL+SS+ G AIT Sbjct: 3 MERFLKDFTIPEKIEFLK-SQDDGSYGKFTIYPFERGFGVTIGNTLRRVLLSSIEGYAIT 61 Query: 62 AVQIDG---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG 112 A+++ V E I GV ED ++I NIK I+LK+ + +R TI G Sbjct: 62 AMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKLR-EGEQRKTISFSVSG 120 Query: 113 ----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 V+ A + +EV N D VI L D + E ++ G GYV ++ + + + Sbjct: 121 KDTNVLKASHFERD-GVEVFNKDLVIATLSHDVNLDFEFQINYGRGYVSSEQNSKYLEEV 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---SVSVSFDKSKSESSNLLDMSIEKLDLSVRSLNCLAKENVRTLGELISKN 296 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ LFLGM+ D Sbjct: 297 AEELSKARNFGKKSLEEIIEKLGSYQLFLGMSKED 331 >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 = 265 bits (677), Expect = 8e-69, Method: Composition-based stats. Identities = 116/333 (34%), Positives = 187/333 (56%), Gaps = 17/333 (5%) Query: 9 LIKPNNIEYIVL-------GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 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-QTVNDIEVLNPDHVICNLDV--DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDA 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 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 +L+ NFG+K+ E++G L +GL +L + Sbjct: 306 LLKFRNFGKKTFEELEGFLAEVGLEFATDLSKY 338 >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 = 265 bits (677), Expect = 8e-69, Method: Composition-based stats. Identities = 81/331 (24%), Positives = 161/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 ++ G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDFCIGLQIERNRGYLIKTPHNFQD---GSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN-- 246 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEDNLYLQDNQHTV 246 Query: 247 --------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +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|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 = 265 bits (677), Expect = 9e-69, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGXVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >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 = 265 bits (677), Expect = 9e-69, Method: Composition-based stats. Identities = 92/328 (28%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 RAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >gi|290489686|gb|ADD31227.1| RNA polymerase alpha subunit protein [Ficus sp. Moore 315] Length = 323 Score = 265 bits (677), Expect = 9e-69, Method: Composition-based stats. Identities = 82/329 (24%), Positives = 157/329 (47%), Gaps = 23/329 (6%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLR 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 QDIILPPSVEIVDNTQHIANLTEPITLCIELQIKRDRGYRIKTPNNFQN---GSYPIDAV 175 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 + P++ ++++ S + + L + I T+GS+T ++++ ASR L D F + EE Sbjct: 176 FMPVRNANHSIHSY-VNGNENQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFFHAEE 234 Query: 237 PKKEVKE-------------DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGD 283 + + K+ +++ EL+ R NCL+ NI D Sbjct: 235 HLENNQHKGTLPLFNFHGRLAKPRKTKKEKALKYIYIDQSELTPRVYNCLKRSNINTFLD 294 Query: 284 LIQRTEADMLRMANFGRKSLVEIKGVLGT 312 L+ ++ +++++ +F + + I VL Sbjct: 295 LLNNSQEELMKIKDFTIEDVKHILDVLEI 323 >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 = 265 bits (677), Expect = 9e-69, Method: Composition-based stats. Identities = 119/335 (35%), Positives = 185/335 (55%), Gaps = 19/335 (5%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +++ ++ P IE++ Q++ + P RGF T+GN LRRVL+SS+ G AIT Sbjct: 1 MERFLKDFTIPEKIEFLK-SQDDGSYGKFTIYPFERGFGVTIGNTLRRVLLSSIEGYAIT 59 Query: 62 AVQIDG---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG 112 A+++ V E I GV ED ++I NIK I+LK+ + +R TI G Sbjct: 60 AMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKLR-EGEQRKTISFSVSG 118 Query: 113 ----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 V+ A + +EV N D VI L D + E ++ G GYV ++ + + + Sbjct: 119 KDTNVLKASHFERD-GVEVFNKDLVIATLSHDVNLDFEFQINYGRGYVSSEQNSKYLEEV 177 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L Sbjct: 178 NVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREFL 237 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 ++FE+ V + + L +E+L+LSVRS NCL EN+ +G+LI + Sbjct: 238 FPLVDFED---SVSVSFDKSKSESSNLLDMSIEKLDLSVRSLNCLAKENVRTLGELISKN 294 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ LFLGM+ D Sbjct: 295 AEELSKARNFGKKSLEEIIEKLGSYQLFLGMSKED 329 >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 = 265 bits (677), Expect = 9e-69, Method: Composition-based stats. Identities = 119/325 (36%), Positives = 181/325 (55%), Gaps = 16/325 (4%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ P+ IE++ G+++ + I P +GF T+GN LRRVL+SS+ G AI+A++I Sbjct: 9 KDFTIPDRIEFVR-GEDDSSYGKFIMYPFEKGFGVTIGNTLRRVLLSSIEGYAISAMRIQ 67 Query: 67 G--------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVT--- 115 V E I GV ED ++I NIK I+LK+ + TI G T Sbjct: 68 SNQGGSLKIVSSEFDLIPGVVEDTLEVIANIKNIHLKLD-EGVNSTTISLSVNGKDTNVL 126 Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDA 175 +EV N D VI L +A + E ++ G GYV ++ + + + I +D+ Sbjct: 127 KAVHLEREGVEVFNKDLVIATLSSEANLDFEFQINYGRGYVSSEQNAKYLEEVNTIALDS 186 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 ++SPI+KV+Y+VE R GQ DYDKL M I T G I+ +D++ A+ I++D L +NFE Sbjct: 187 IFSPIEKVTYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVRDFLLPLVNFE 246 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + E+ ++ + L +E+L LSVRS NCL EN+ +G+LI ++ D+ + Sbjct: 247 DKVVHSVENSELRD---SDILSINIEKLNLSVRSLNCLTKENVKTLGELISKSAEDLSKA 303 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMN 320 NFG+KSL EI L T GLFLGM+ Sbjct: 304 RNFGKKSLEEIIEKLNTYGLFLGMS 328 >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 = 264 bits (676), Expect = 9e-69, Method: Composition-based stats. Identities = 92/328 (28%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >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 = 264 bits (676), Expect = 9e-69, Method: Composition-based stats. Identities = 117/327 (35%), Positives = 197/327 (60%), Gaps = 12/327 (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 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT-ENDPIGLITIDALYSPIKKV 183 +VLN D VIC+ + + M T+ +G GYVPA+ ++ ND IG I ID++Y+PIK V Sbjct: 122 FQVLNTDVVICHKEKSIPLEMSFTIEEGRGYVPAEENKKNNNDLIGNIPIDSIYTPIKNV 181 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF-----EEPK 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 GRKSLVEIKGVLGTMGLFLGMNLPDWP 325 GRKSL E++ + GL+ GM++ ++ Sbjct: 302 GRKSLEELESQMKEKGLYFGMDISEYK 328 >gi|1771084|emb|CAB01369.1| alpha subunit of RNA polymerase [Hordeum vulgare subsp. spontaneum] Length = 339 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 159/328 (48%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E ++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVETVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ F + + K + T+ L ++L Sbjct: 308 RIDXFR---MEDRKHIWDTLEKHLPIDL 332 >gi|22657232|gb|AAM97419.1| RNA polymerase alpha subunit [Aegilops tauschii] Length = 339 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 92/328 (28%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNSIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >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 = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 114/325 (35%), Positives = 185/325 (56%), Gaps = 16/325 (4%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ P+ IE++ G+++ + + P +GF T+GN LRRVL+SS+ G AI+A++I Sbjct: 8 KDFTIPDRIEFVR-GEDDGSYGKFVIYPFEKGFGVTIGNTLRRVLLSSIEGYAISAMRIQ 66 Query: 67 G--------VLHEISSIKGVHEDLTDIILNIKGINLKMSG---DSHKRVTIFKRGPGVVT 115 V E I GV ED ++I NIK ++LK+ ++ +++ + V+ Sbjct: 67 SNQEESLKIVSSEFDLIPGVMEDTLEVIANIKNVHLKLDEGVTNTTINLSVNGKDNNVLK 126 Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDA 175 AG ++ +EV N D VI L DA + E V+ G GYV ++ + + + I +D+ Sbjct: 127 AGHLERE-GVEVFNKDLVIATLSSDANLDFEFQVNYGRGYVSSEQNAKYLEEVNTIALDS 185 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 ++SPI+KV+Y+VE R GQ DYDKL M I T G I+ +D++ A+ ++++ L +NFE Sbjct: 186 IFSPIEKVTYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASVVREFLLPLVNFE 245 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + ++ + L VE+L LSVRS NCL EN+ +G+LI ++ ++ + Sbjct: 246 DKVIH---SVDYAEFRDSDILSMNVEKLNLSVRSLNCLIKENVKTLGELISKSPVELSKA 302 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMN 320 NFG+KSL EI L GLFLGM+ Sbjct: 303 RNFGKKSLEEIVEKLNAYGLFLGMS 327 >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 = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFWSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFH---MEDRKHIWDTLEKHLPIDL 332 >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 = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 90/329 (27%), Positives = 162/329 (49%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE V + + PL +G A T+G A+RR L+ ++G IT V+++ + Sbjct: 13 LRWKCIESRVYSKRFH-YGRFVLSPLRKGRADTIGIAMRRALLGEVKGTCITHVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIQEASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITFDIRLRIEKNRGYLI---HSPTNYGDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK---EVKEDIN 246 G + + L + I T+G +T +++ ASR L + F++ EE ++ N Sbjct: 189 YGSGNEI-REVLFLEIWTNGGLTPREALYEASRNLINFFIPFLHGEEQNIDGMNSRKGSN 247 Query: 247 VKSLPFNPALLKK-------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 + S P + L +++LEL R NCLR NI + DL+ ++ D++ Sbjct: 248 IPSFPLSHVLTNTGETKEIFEFQHIFIDQLELPSRIYNCLRRANIYTLLDLLNYSQEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ FG+KS+ ++ +L ++LP Sbjct: 308 RIEQFGKKSVEQVLEILR---KRFAIDLP 333 >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 = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 107/302 (35%), Positives = 170/302 (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 +DAL+SP+++V++ VE R GQ D DKL++ Sbjct: 136 VMEVRVDEGVGYVPAEKHGIKDRIS-SIPVDALFSPVRRVAFQVEDTRLGQRTDLDKLTL 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|71056886|emb|CAH58999.1| DNA-directed RNA polymerase alpha chain [Enterococcus saccharolyticus] Length = 231 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 105/231 (45%), Positives = 150/231 (64%) 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 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 GSI D+++LA++I+ + L +F+N + K + + + L Sbjct: 181 GSIEPLDAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMT 231 >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 = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 92/328 (28%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVXMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >gi|296936704|gb|ADH94376.1| RNA polymerase alpha subunit [Syzygium cumini] Length = 337 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 77/324 (23%), Positives = 156/324 (48%), Gaps = 27/324 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 ++ G IDA++ P++ ++++ Sbjct: 131 DNTQYIASLTEPINLCIGLQIERNRGYHIKTPKNFQD---GSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV- 247 S G + L + I T+GS+T ++++ ASR L D F++ EE ++ + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLENNQYKV 246 Query: 248 ---------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 K+ +++ EL R+ NCL+ NI + DL+ +++ D+ Sbjct: 247 TLPLFTFHDRLVKLRKTKKEIALKSIFIDQFELPPRTYNCLKRYNIHTLFDLLNKSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLF 316 ++M F + ++K +L ++ + Sbjct: 307 MKMEYFR---IEDVKQILNSLEIE 327 >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 = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 92/328 (28%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 PPLFTFKKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >gi|260656838|gb|ACX47809.1| RNA polymerase alpha-subunit [Vibrio casei] Length = 275 Score = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 121/277 (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 ILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-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++ + + + F+P LL+ V Sbjct: 182 LVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPV 238 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 239 DDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 275 >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 = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGXVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TXQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNYIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >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 = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 116/321 (36%), Positives = 169/321 (52%), Gaps = 10/321 (3%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 ++ KP IV + A PL RGFA TLGNALRR L+SS GA++ A++I Sbjct: 1 MKQFNKPEF--GIVKESPNKFYGKFEAAPLERGFAVTLGNALRRTLLSSTPGASVFAIKI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSG-----DSHKRVTIFKRGPGVVTAGDIQ 120 G HE +SI G+ E++T I+LN+K + L++ D + + G VTAG + Sbjct: 59 AGAQHEFTSISGIEENVTRIVLNVKKLILRIDSAIYNDDETVELKVGTSTIGPVTAGSLV 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT-ENDPIGLITIDALYSP 179 +EVLN D VI N+ + + L GY K ++ ++ G+ITID+ YSP Sbjct: 119 LPAGVEVLNKDLVIANVAEGGNLDLVLYAKNSRGYKTFKENKELKDVVPGMITIDSNYSP 178 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I KV+Y G+ D++KL + ++TDGSI D+V+LAS+IL +F E + Sbjct: 179 IIKVAYGSTPINLGKAQDFEKLILEVETDGSILASDAVSLASKILISHFDVFTTLAEEVE 238 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 EV L K VEELE + RS NCL+ I + +L+ +TE ++ + N G Sbjct: 239 EVAIM--GVETVEEKELDKPVEELEFTQRSLNCLKRAGISTLRELVSKTEDEIQDIRNLG 296 Query: 300 RKSLVEIKGVLGTMGLFLGMN 320 RKSL EIK + + L N Sbjct: 297 RKSLKEIKDKVAALELTFKQN 317 >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 = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 115/325 (35%), Positives = 185/325 (56%), Gaps = 16/325 (4%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ P+ IE++ G+++ + I P +GF T+GN LRRVL+SS+ G AI+A++I Sbjct: 8 KDFTIPDRIEFVR-GEDDGSYGKFIIYPFEKGFGVTIGNTLRRVLLSSIEGYAISAMRIQ 66 Query: 67 G--------VLHEISSIKGVHEDLTDIILNIKGINLKMSG---DSHKRVTIFKRGPGVVT 115 V E I GV ED ++I NIK ++LK+ ++ +++ + V+ Sbjct: 67 SNQEESLKIVSSEFDLIPGVMEDTLEVIANIKNVHLKLDEGVTNTTINLSVNGKDNNVLK 126 Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDA 175 AG ++ +EV N D VI L DA + E V+ G GYV ++ + + + I +D+ Sbjct: 127 AGHLERE-GVEVFNKDLVIATLSSDANLDFEFQVNYGRGYVSSEQNAKYLEEVNTIALDS 185 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 ++SPI+KV+Y+VE R GQ DYDKL M I T G I+ +D++ A+ ++++ L +NFE Sbjct: 186 IFSPIEKVTYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASVVREFLLPLVNFE 245 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + ++ + L VE+L LSVRS NCL EN+ +G+LI ++ ++ + Sbjct: 246 DKVIH---SVDYAEFRDSDILSMNVEKLNLSVRSLNCLIKENVKTLGELISKSPVELSKA 302 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMN 320 NFG+KSL EI L GLFLGM+ Sbjct: 303 RNFGKKSLEEIVEKLNAYGLFLGMS 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 = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 92/328 (28%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNSIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >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 = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 92/328 (28%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFWSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >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 = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 114/312 (36%), Positives = 170/312 (54%), Gaps = 12/312 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 ++ + E N + EPL RGF TLGN LRR+LMSS+ G A+T+V I+ LHE +++ G Sbjct: 11 VLTSRVEGNYGEFVLEPLERGFGVTLGNPLRRILMSSIPGTAVTSVYIEDALHEFATLPG 70 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 + ED+ I+LN+K + +K K + + GP V A D+ + E++NPD I L Sbjct: 71 IKEDVVQIVLNLKELIVKFHEPGSKTLLLRVEGPREVYARDLVVPSSAELVNPDLYIATL 130 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 A + ME+ V +G GYV A+ H ++ I I +DAL+SPIK+V++ VE R GQ D Sbjct: 131 GEGAKLVMEVRVDEGVGYVAAEKHGIKDR-INSIPVDALFSPIKRVAFHVEDTRLGQRTD 189 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 DKL + I TDGS+T + ++A A IL+ QLG F E + PA Sbjct: 190 LDKLILRIWTDGSVTPDAALAQAVEILRGQLGYFDQLAPQAAPEPEAAEAPAPEAAPAEP 249 Query: 258 KK-----------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 ++ +E+L LS R + LR E I + +L TE ++ ++ G +S+ EI Sbjct: 250 EEAAAEPGREGIALEDLGLSTRVLHNLREEGIDSVANLTALTERELKKVPGIGERSVEEI 309 Query: 307 KGVLGTMGLFLG 318 K L +GL L Sbjct: 310 KERLAALGLALK 321 >gi|313292078|gb|ADR51228.1| DNA-directed RNA polymerase alpha chain [Enterococcus durans] Length = 241 Score = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 106/234 (45%), Positives = 154/234 (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 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 +M I TDGSI ++++L+++I+ + L +F+N + K + + + Sbjct: 186 TMEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 239 >gi|73747868|gb|AAZ82835.1| RNA polymerase subunit a [Elymus dentatus] Length = 339 Score = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 92/328 (28%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICIKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >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 = 264 bits (675), Expect = 2e-68, Method: Composition-based stats. Identities = 106/230 (46%), Positives = 152/230 (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 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 SI ++++LA++I+ + L +F+N + + + + + L Sbjct: 181 SIEPLEAMSLAAKIMTEHLDIFVNLTDEARNAEIMVEKEETQKEKMLEMT 230 >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 = 86/332 (25%), Positives = 161/332 (48%), Gaps = 24/332 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E V + P G A+T+G A+RR L+ + G IT + + V Sbjct: 14 LQWRCVESKVDSERLH-YGRFAISPFRSGQANTVGIAVRRALLGGVEGTCITRAKSEKVT 72 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 HE S+I G+ E + DI++N+K I LK + ++ + GP VTA DI +EV Sbjct: 73 HEYSTILGIQESVRDILINLKEIVLKSKSNSCETQKAFLSIFGPKEVTARDIVFPPSVEV 132 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 ++ I L + +EL + K GY ++ + G ++DA+++PI+ +Y+V Sbjct: 133 IDTTQYIATLTKAIHLDIELKIEKDCGYRTQDSIKSAD---GYFSVDAVFTPIRNANYSV 189 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK-------KE 240 S + L + I T+GS+T ++++ ASR L D F++ E+ + K Sbjct: 190 HSFENKNET-QEILFIEIWTNGSVTPKEALYEASRSLIDLFIPFLHAEKEEVMHGLGNKN 248 Query: 241 VKEDINVKSLPFNPALLKK-------VEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ S P + K+ +++LEL R+ NC + ++ + DL+ ++ D++ Sbjct: 249 ESNTLHFSSSPSENKMEKEMTFKHIFIDQLELPARAYNCPKRVDVHTISDLLSYSQDDLM 308 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 ++ NFG+KS+ ++ L + + LP Sbjct: 309 KIKNFGKKSVEQV---LEALQKRFSIKLPKKK 337 >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 = 90/342 (26%), Positives = 169/342 (49%), Gaps = 27/342 (7%) Query: 1 MIQKNW---QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRG 57 MIQ ++++ +E + E + + P G A+T+G A+RR L+ ++G Sbjct: 1 MIQNEILISAQVLQWRCVESK-IDNERLHYSRFAISPFRCGQANTVGIAMRRALLGEVKG 59 Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 +IT + + V HE S+I G+ E + DI +N K I L+ + ++ I GP +TA Sbjct: 60 TSITCAKFEKVTHEYSTIAGIQESVHDISINSKEIVLESNSSETQKAFISILGPKKITAQ 119 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 DI +++++ I L + +EL + K +GY +++ N IDA++ Sbjct: 120 DIILPPSVKIIDGKQYIATLTKAIQLDIELEIEKDYGYRIQNSNKSTNS---HFFIDAIF 176 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-- 235 PI+ +Y+V S + L + I T+GSIT +D++ ASR L D F++ E Sbjct: 177 MPIRNANYSVHSFENENKT-QEMLFIEIWTNGSITPKDALYEASRSLIDLFIPFLHAERR 235 Query: 236 EPKKEVKEDINVKSLPFNPALLK--------------KVEELELSVRSTNCLRGENIVYM 281 E E++ + + ++ + + +++LEL R+ NCL+ N+ + Sbjct: 236 EIINELENEYKLSNISYFSSFSPLADKITKEVSFKHIFIDQLELPARAYNCLKRVNVNTL 295 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 DL+ ++ D++++ NFG+KS+ ++ L + +NLP Sbjct: 296 ADLLNYSQEDLMKIKNFGKKSVEQV---LEALQKQFSINLPK 334 >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 = 264 bits (674), Expect = 2e-68, 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|153799484|gb|ABS50517.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 240 Score = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 102/240 (42%), Positives = 152/240 (63%), Gaps = 4/240 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDGVLH Sbjct: 3 KPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLH 58 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++VLNP Sbjct: 59 EFSTVPGVREDVTKIILNLKKLELKSLSDEQKVIELDVEGPATVTADDLKVDADVQVLNP 118 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D IC + + MEL V G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES Sbjct: 119 DQYICTIAEGGHLHMELAVKNGRGYVTASDNKSDDMPIGVIPVDSLFSPIKKVNYQVEST 178 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R G+ D+DKL+ I TDGSI D+++ A++IL + +F + + + + + + Sbjct: 179 RVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEHFKVFESADANTQFSEVMVEKEDD 238 >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 = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 123/335 (36%), Positives = 187/335 (55%), Gaps = 19/335 (5%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++K ++ P IE++ Q++ + P RGF T+GN LRRVL+SS+ G AIT Sbjct: 3 VEKFLKDFTIPEKIEFLK-SQDDGSYGKFTIYPFERGFGVTIGNTLRRVLLSSIEGYAIT 61 Query: 62 AVQIDGVLHEISS---------IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG 112 A+++ + SS I GV ED ++I NIK I+LK+ G+ +R TI G Sbjct: 62 AMRVQSNNKDSSSKIVSSEFDLIPGVSEDTLEVIANIKNIHLKL-GEGEQRKTISFSISG 120 Query: 113 ----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 V+ A + +EV N D VI NL DA + E ++ G GYV ++ + + + Sbjct: 121 KDTSVLKASHFERD-GVEVFNKDLVIANLSHDANLDFEFQINYGRGYVSSEQNSKYLEEV 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---NVNISFEKSKSESYNLLDMSIEKLDLSVRSLNCLAKENVRTLGELISKN 296 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ LFLGM+ D Sbjct: 297 AEELSKARNFGKKSLEEIIEKLGSYRLFLGMSKED 331 >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 = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 113/303 (37%), Positives = 170/303 (56%), 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 DIILNIKGINLKM--SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 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 +DALYSP+++V+Y VE R GQ D DKL Sbjct: 136 KLVMEIRVDEGVGYVPAEKHGIKDRIS-SIPVDALYSPVRRVAYQVEDTRLGQRTDLDKL 194 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALL 257 ++ I T+G+++ D++ A IL++QLG F + EPK + A Sbjct: 195 TLRIWTNGAVSPMDALQQAVAILREQLGYFDQSPVMRVEPKSTPAPAPAAPATTAPAAPA 254 Query: 258 KK-----VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 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|300431268|gb|ADK12599.1| RNA polymerase alpha subunit [Poa holciformis] Length = 341 Score = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 93/330 (28%), Positives = 161/330 (48%), Gaps = 26/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI IE+++ Sbjct: 72 HEYSTIGGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSIEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TSQPIANLTEPIDFCIELQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP------------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 P P +++LEL R+ NCL+ NI + DL+ +TE D Sbjct: 248 PPLLTFQKRLTNLNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEED 307 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 ++R+ +F + + K + T+ +L ++L Sbjct: 308 LMRIDSFR---MEDRKQIWDTLENYLPIDL 334 >gi|307683665|dbj|BAJ19811.1| RNA polymerase alpha chain [Picea morrisonicola] Length = 336 Score = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 88/330 (26%), Positives = 154/330 (46%), Gaps = 25/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RRVL+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSERLH-YGRFALSPLRKGRADTIGIAMRRVLLGEVEGTCITHVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIRGASICIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE------------- 236 G + + L + I T+G +T ++++ ASRIL + F++ EE Sbjct: 189 YGNGNEI-REVLFLEIWTNGGLTPREALSEASRILIELFIPFLHGEEQNIDGMNNRKGSN 247 Query: 237 ----PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 P V D +++LEL R NCLR NI + DL+ + D+ Sbjct: 248 MPPFPLSHVLTDTGETKEKKIAFQHIFIDQLELPPRVYNCLRRANIHTLSDLLNYSREDL 307 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 +R+ FG++S+ ++ +L ++ P Sbjct: 308 MRIERFGKESVEQVFEILR---KRFAIDPP 334 >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 = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 97/312 (31%), Positives = 175/312 (56%), Gaps = 5/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + + E++ + EPL RG+ TLGN+LRR+++SSL GAAI+A++I+ Sbjct: 3 DFTKPN-IEILEIS-EDKRFGRFVCEPLERGYGSTLGNSLRRMMLSSLPGAAISAIKIEN 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVNDIE 126 + + + G+ E +++ N+K I + + + V++ G + A D ++++ Sbjct: 61 LSGD--KVSGIQESFPELLTNLKSIAVILPEEVESLEVSVDLSGKSEILAEDFIGESELK 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 KGVLGTMGLFLG 318 L + L L Sbjct: 299 LAKLRDLNLGLS 310 >gi|71056840|emb|CAH58975.1| DNA-directed RNA polymerase alpha chain [Enterococcus hirae] Length = 235 Score = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 105/233 (45%), Positives = 151/233 (64%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T II Sbjct: 3 YGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQII 62 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LNIKG+ LKM G K + I GP VTAGDI +++E+LN D IC++ A Sbjct: 63 LNIKGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHAR 122 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I Sbjct: 123 LTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIW 182 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 TDGSI ++++L+++I+ + L +F+N + K + + + L Sbjct: 183 TDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMT 235 >gi|302584003|gb|ADL57236.1| RNA polymerase A [Paralactobacillus selangorensis] Length = 222 Score = 264 bits (674), Expect = 2e-68, 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|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 = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 121/335 (36%), Positives = 184/335 (54%), Gaps = 19/335 (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---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG 112 A++I V E I GV ED ++I NIK I+LK+ G+ +R TI G Sbjct: 62 AMRIQSNNKDSSSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKL-GEGEQRKTISFSVSG 120 Query: 113 ----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 V+ A + +EV N D VI L D + +E ++ G GYV ++ + + + Sbjct: 121 KDTKVLKASHFERD-GVEVFNRDLVIATLSQDVNLDLEFQINYGRGYVSSEQNSKYLEEV 179 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L Sbjct: 180 NVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIIREFL 239 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 ++FE+ V + L +E+L+LSVRS NCL EN+ +G+LI + Sbjct: 240 FPLVDFED---NVNTSFEKSKSESSNLLDMSIEKLDLSVRSLNCLAKENVRTLGELISKN 296 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI L + LFLGM+ D Sbjct: 297 AEELSKARNFGKKSLEEIIEKLSSYQLFLGMSKED 331 >gi|71056802|emb|CAH58956.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 234 Score = 264 bits (674), Expect = 2e-68, 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|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 = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 95/305 (31%), Positives = 160/305 (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 + ++ + Sbjct: 185 AEGGTGRERLKMEVVTDGSTSPDDAIAEAANQLIELFQPLATVTMVEEI------PEEPE 238 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 239 PSPEAQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIDALE 298 Query: 312 TMGLF 316 +G+ Sbjct: 299 RIGIS 303 >gi|73747870|gb|AAZ82836.1| RNA polymerase subunit a [Elymus mutabilis] Length = 339 Score = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 92/328 (28%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICIKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNGIE-KHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >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 = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 84/331 (25%), Positives = 158/331 (47%), Gaps = 29/331 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV- 247 S + L + I T+GS+T ++++ ASR L D F++ EE +++ + Sbjct: 188 SYGNE---KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEENLHLEDADHTI 244 Query: 248 ---------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 K+ +++LE + NCL+ NI + DL+ ++ D+ Sbjct: 245 PLSPFTVYDKVAKLRKNKKKLSLESIFIDQLEFPPKIYNCLKKSNIFTLLDLLNNSQEDL 304 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F L ++K +LG +G ++LP Sbjct: 305 IKIEHFH---LEDVKQILGILGKHFALDLPK 332 >gi|161511727|emb|CAP16874.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 235 Score = 263 bits (673), Expect = 2e-68, 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|153799478|gb|ABS50514.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 240 Score = 263 bits (673), Expect = 2e-68, Method: Composition-based stats. Identities = 102/242 (42%), Positives = 153/242 (63%), Gaps = 4/242 (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 SL 250 Sbjct: 237 DD 238 >gi|51859695|gb|AAU11127.1| RNA polymerase alpha subunit [Psathyrostachys caduca] Length = 339 Score = 263 bits (673), Expect = 2e-68, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKNLPIDL 332 >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 = 263 bits (673), Expect = 2e-68, Method: Composition-based stats. Identities = 121/335 (36%), Positives = 184/335 (54%), Gaps = 19/335 (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---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG 112 A++I V E I GV ED ++I NIK I+LK+ G+ +R TI G Sbjct: 62 AMRIQSNNKDSSSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKL-GEGEQRKTISFSVSG 120 Query: 113 ----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 V+ A + +EV N D VI L D + +E ++ G GYV ++ + + + Sbjct: 121 KDTKVLKASHFERD-GVEVFNRDLVIATLSQDVNLDLEFQINYGRGYVSSEQNSKYLEEV 179 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L Sbjct: 180 NVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIIREFL 239 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 ++FE+ V + L +E+L+LSVRS NCL EN+ +G+LI + Sbjct: 240 YPLVDFED---NVNTSFEKSKSESSNLLDMSIEKLDLSVRSLNCLAKENVRTLGELISKN 296 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI L + LFLGM+ D Sbjct: 297 AEELSKARNFGKKSLEEIIEKLSSYQLFLGMSKED 331 >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 = 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 + 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 SYENG---NKEILFLEIWTNGSLTPKEALHEASRNLIDLLIPFLHTKEENLNLEDNQHIV 244 Query: 249 SLPF----------------NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 LP +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 245 PLPPFTFYDKLAKLTKNKKKMALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDL 304 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F + ++K +LG + ++LP Sbjct: 305 MKIEHFR---IEDVKQILGILEKNFVIDLPK 332 >gi|71056810|emb|CAH58960.1| DNA-directed RNA polymerase alpha chain [Enterococcus gallinarum] Length = 230 Score = 263 bits (673), Expect = 2e-68, Method: Composition-based stats. Identities = 107/230 (46%), Positives = 152/230 (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 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 SI ++++LA++I+ + L +F+N + K + + + L Sbjct: 181 SIEPLEAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMT 230 >gi|119662297|emb|CAJ33135.1| RNA polymerase alpha subunit [Lactobacillus curvatus] Length = 223 Score = 263 bits (672), Expect = 3e-68, 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|71056826|emb|CAH58968.1| DNA-directed RNA polymerase alpha chain [Tetragenococcus solitarius] Length = 226 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 100/223 (44%), Positives = 148/223 (66%) 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 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 TDGSI D+++L+++IL + L +F+N + K + + + Sbjct: 182 TDGSIEPLDALSLSAKILTEHLEIFVNMTDEAKNTEIMVEKEE 224 >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 = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 91/328 (27%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ ++Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNLNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 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 = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 98/305 (32%), Positives = 157/305 (51%), Gaps = 8/305 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + I++ V + + + PL RG A TLGN+LRRVLM L G+A+TAV+I GV HE Sbjct: 7 DRIDHQVSNDRSQT-GVFLIGPLERGQATTLGNSLRRVLMGGLEGSAVTAVRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K I++ + + GP V A DIQ + +EV++ D Sbjct: 66 ATIPGVREDVLDILLNCKQISVDSRSQELEIGRLVVTGPADVKAKDIQFSSQVEVVDGDR 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P E I L+ IDA++ PI +V++T++ Sbjct: 126 PIATVQEGHNLELEIHVERGVGYRPVDRKNEETSAIDLLQIDAVFMPINRVNFTIDETAV 185 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L M + TDGS + +D++A A+ L + ++ + Sbjct: 186 AEGGSTRERLKMELVTDGSTSPDDALAEAANQLIELFQPLATVSMVEEI------PEEPE 239 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 240 PAAEAQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >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 = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 87/329 (26%), Positives = 158/329 (48%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGVREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L ++L + K GY+ H N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIKLRIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + + L + I T+G +T +++ ASR L D F++ EE + + + Sbjct: 189 YGSGNEI-REVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNRKGSN 247 Query: 250 LPFNPA----------------LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 +P P +++LEL R+ NCLR NI + DL+ + D++ Sbjct: 248 MPPFPLSHVLTDTGETKEKIAFQHIFIDQLELPPRTYNCLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ +FG++S+ ++ VL ++ P Sbjct: 308 RIEHFGKESVEQVLEVLR---KRFAIDPP 333 >gi|22657314|gb|AAM97460.1| RNA polymerase alpha subunit [Heteranthelium piliferum] Length = 339 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 92/328 (28%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFWSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPKYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTEL---IKNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >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 = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 111/315 (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-------------------PKKEV--K 242 I TDGS + +D + A IL+++L +F + EE P+ EV + Sbjct: 192 RIWTDGSASPQDVLDQAIDILREELLVFGSVEELEDSESSALDYTISAETVQPEAEVAPE 251 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + + +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|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 = 80/329 (24%), Positives = 155/329 (47%), Gaps = 23/329 (6%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLR 56 M Q+ +P +++ + ++ + PL RG A T+G A+RR L+ + Sbjct: 1 MGQEKVTVSTRP--LQWKCVESRADSKRLYYGRFLLAPLMRGQADTIGIAMRRALLGEIE 58 Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 G IT + + + HE S+I G+ E + +I++N+K I L+ + + +I +GPG VTA Sbjct: 59 GTCITRAKSEKIPHEYSTIVGIQESVHEILMNLKEIVLRSNLYGTRDASICVKGPGYVTA 118 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 DI +E+++ I NL + +EL + + GY + +N G IDA+ Sbjct: 119 QDIILPPSVEIVDNTQHIANLTEPITLCIELQIERNRGYRIKTPNNFQN---GSYPIDAV 175 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 + P++ ++++ S + + L + I T+GS+T ++++ ASR L D F + EE Sbjct: 176 FMPVRNANHSIHSY-VNGNENQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFFHAEE 234 Query: 237 PKKEVKE-------------DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGD 283 + + K+ +++ EL R NCL+ NI + Sbjct: 235 HLENNQHKGTLPLFNFHGRLAKPRKTKKEIALKYIYIDQSELPPRVYNCLKRSNINTFLE 294 Query: 284 LIQRTEADMLRMANFGRKSLVEIKGVLGT 312 L+ ++ +++++ +F + + I VL Sbjct: 295 LLNNSQEELMKIQDFRIEDVKHILDVLEI 323 >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 = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 102/252 (40%), Positives = 161/252 (63%), Gaps = 2/252 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP ++ + L E+ + EPL RG+ T+GNALRR+L+SSL G A+ A++IDG Sbjct: 3 EIEKP-KVDIVELS-EDYRYGKFVIEPLERGYGITIGNALRRILLSSLPGVAVNAIKIDG 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 KSLPFNPALLKK 259 + L Sbjct: 241 EEDQKEKVLEMT 252 >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 = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 95/305 (31%), Positives = 160/305 (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 + ++ + Sbjct: 186 AEGGTGRERLKMEVVTDGSTSPDDAIAEAANQLIELFQPLATVTMVEEI------PEEPE 239 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 240 PSPEAQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIDALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >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 = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 75/320 (23%), Positives = 153/320 (47%), Gaps = 21/320 (6%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 13 LQWRCVES-RRDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 H+ S+I G+ E + +I++N+ I L+ + + I +GPG +TA DI +E+++ Sbjct: 72 HDYSNIVGIQESVHEILMNLNEIVLRSNLYGTRNALICVQGPGYITARDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I + + + L + + GY + E+ IDA++ P++ ++++ S Sbjct: 132 NTQHIATVTESIDLCIGLKIERNRGYSLKMSNNFEDRS---YPIDAVFMPVQNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + + Sbjct: 189 YGNG-NGKQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFHLENNQHQVT 247 Query: 250 LPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 LP P + +++LEL R NCL+ NI + DL+ ++ D++ Sbjct: 248 LPLFPFHNRLVNLRKKKKELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLI 307 Query: 294 RMANFGRKSLVEIKGVLGTM 313 ++ +F + + +I +L Sbjct: 308 KIEHFHIEDVKKILDILEKK 327 >gi|153799470|gb|ABS50510.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 240 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 102/240 (42%), Positives = 153/240 (63%), Gaps = 4/240 (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 >gi|119663518|emb|CAK22330.1| RNA polymerase alpha subunit [Lactobacillus algidus] Length = 230 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 102/230 (44%), Positives = 153/230 (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 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 SIT ++++L+++IL + L +F++ + K + + + L Sbjct: 181 SITPSEAISLSAKILTEHLTLFVDLTDEAKNAEIMVEKEETHKEKMLEMT 230 >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 = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 90/328 (27%), Positives = 160/328 (48%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + + PL +G A T+G A+RR L+ + G IT + VL Sbjct: 13 LQWKCVES-RVDSKRLYYGRFVLSPLMKGQADTIGIAIRRALLGEIEGTCITRATSENVL 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I RGP +TA DI + +E+++ Sbjct: 72 HEYSTIAGIEESVHEILLNLKDIVLRSNLYGVRNASICVRGPKYITAQDIISPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL + +EL + + GY + + G ID + P++ ++++ S Sbjct: 132 TTQHIANLTEPINLCIELQIKRDRGYRMKSTN---DSHDGSYPIDIVSMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L D L F++ EE KE+ N + Sbjct: 189 YGNG-NEKQEILFIEIWTNGSLTPKEALYEASRNLIDLLIPFLHAEEEDMNFKENENRWN 247 Query: 250 LPFN----------------PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 LP P +++ ELS R+ NCL+ NI + DL+ ++ D++ Sbjct: 248 LPPFSFQDKFTNFKKNKKGIPLTCIFIDQSELSSRTYNCLKRSNIHTLLDLLSHSQEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +M F ++K +L T+ +NL Sbjct: 308 KMEYFRT---EDVKQILSTVQKHFAINL 332 >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 = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 92/328 (28%), Positives = 160/328 (48%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLXEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ F + + K + T+ L ++L Sbjct: 308 RIDXFR---MEDRKHIWDTLEKHLPIDL 332 >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 = 88/329 (26%), Positives = 158/329 (48%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLRIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + + L + I T+G +T +++ ASR L D L F++ EE + + + Sbjct: 189 YGSGNEI-REVLFLEIWTNGGLTPREALYEASRNLIDLLIPFLHGEEQNIDGMNNRKGSN 247 Query: 250 LPFNPA----------------LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 +P P +++LEL R+ NCLR NI + DL+ + D++ Sbjct: 248 MPPFPLSHVLTDTRETKEKIAFKHIFIDQLELPPRTYNCLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ +FG++S+ ++ VL ++ P Sbjct: 308 RIEHFGKESVEQVLEVL---QKRFAIDPP 333 >gi|161513428|emb|CAP16857.1| DNA-directed RNA polymerase subunit alpha [Pediococcus argentinicus] Length = 225 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 102/225 (45%), Positives = 150/225 (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 VSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 KG GY A ++ + 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|71056882|emb|CAH58997.1| DNA-directed RNA polymerase alpha chain [Enterococcus malodoratus] Length = 227 Score = 262 bits (671), Expect = 4e-68, 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|51859681|gb|AAU11120.1| RNA polymerase alpha subunit [Psathyrostachys lanuginosa] Length = 339 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 90/328 (27%), Positives = 159/328 (48%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ ++ V+Y++ S Sbjct: 132 TXQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMXVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P + +LEL+ R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLLTFQKRLTNLKKNKKGIPLNCIFIXQLELTSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >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 = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 92/328 (28%), Positives = 160/328 (48%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAESMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >gi|71056852|emb|CAH58981.1| DNA-directed RNA polymerase alpha chain [Enterococcus gilvus] Length = 232 Score = 262 bits (671), Expect = 4e-68, 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|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 = 262 bits (670), Expect = 5e-68, Method: Composition-based stats. Identities = 118/284 (41%), Positives = 178/284 (62%), Gaps = 11/284 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLV---YIEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 + + F+P LL+ V++LEL+VRS NCL+ E I Y Sbjct: 238 VRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHY 278 >gi|72534397|emb|CAH59002.1| DNA-directed RNA polymerase alpha chain [Enterococcus cecorum] Length = 231 Score = 262 bits (670), Expect = 5e-68, Method: Composition-based stats. Identities = 105/231 (45%), Positives = 151/231 (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 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 GSI D+++LA++IL + L +F+N + + + + + L Sbjct: 181 GSIEPLDAMSLAAKILTEHLDIFVNLTDEARHAEIMVEKEETQKEKMLEMT 231 >gi|307683477|dbj|BAJ19717.1| RNA polymerase alpha chain [Pseudotsuga sinensis var. wilsoniana] Length = 335 Score = 262 bits (670), Expect = 5e-68, Method: Composition-based stats. Identities = 90/329 (27%), Positives = 155/329 (47%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RRVL+ + G IT VQ D + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRVLLGEVEGTCITHVQFDNIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILVNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLRIEKNRGYIM---HSPNNYKDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + + L + I T+G +T +++ ASR L D F++ EE + + + Sbjct: 189 YGSGNEI-REVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNRKGSN 247 Query: 250 LPFNPA----------------LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 +P P +++LEL R NCLR NI + DL+ + D++ Sbjct: 248 MPPFPLSHVLTDTRETIEKIAFQYIFIDQLELPPRIYNCLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ N G++S+ ++ VL ++ P Sbjct: 308 RIENLGKESVEQVLEVLR---KRFAIDPP 333 >gi|71056914|emb|CAH59016.1| DNA-directed RNA polymerase alpha chain [Enterococcus cecorum] Length = 229 Score = 262 bits (670), Expect = 5e-68, Method: Composition-based stats. Identities = 104/227 (45%), Positives = 150/227 (66%) 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 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 GSI D+++LA++IL + L +F+N + + + + + Sbjct: 181 GSIEPLDAMSLAAKILTEHLDIFVNLTDEARHAEIMVEKEETQKEKM 227 >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 = 262 bits (670), Expect = 5e-68, Method: Composition-based stats. Identities = 87/330 (26%), Positives = 153/330 (46%), Gaps = 25/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RRVL+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSERLH-YGRFALSPLRKGRADTIGIAMRRVLLGEVEGTCITHVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIRGASICIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE------------- 236 G + + L + I T+G +T ++++ ASRIL + F++ EE Sbjct: 189 YGSGNEI-REVLFLEIWTNGGLTPREALSEASRILIELFIPFLHGEEQNIDGMNNRKGSN 247 Query: 237 ----PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 P V D +++LE R NCLR NI + DL+ + D+ Sbjct: 248 MPPFPLSHVLTDTGETKEKKIAFQHIFIDQLEFPPRVYNCLRRANIHTLSDLLNYSREDL 307 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 +R+ FG++S+ ++ +L ++ P Sbjct: 308 MRIERFGKESVEQVFEILR---KRFAIDPP 334 >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 = 262 bits (670), Expect = 5e-68, 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|71056878|emb|CAH58995.1| DNA-directed RNA polymerase alpha chain [Enterococcus avium] Length = 231 Score = 262 bits (670), Expect = 5e-68, Method: Composition-based stats. Identities = 105/231 (45%), Positives = 151/231 (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 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 GSI +++++LA++IL + L +F+N + K + + + L Sbjct: 181 GSIIAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMT 231 >gi|71056818|emb|CAH58964.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 232 Score = 262 bits (670), Expect = 5e-68, 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|71833746|emb|CAH59013.1| DNA-directed RNA polymerase alpha chain [Enterococcus canintestini] Length = 233 Score = 262 bits (670), Expect = 5e-68, 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|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 = 262 bits (670), Expect = 5e-68, 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|319827247|gb|ADV74823.1| RNA polymerase subunit A [Vibrio neptunius] Length = 275 Score = 262 bits (670), Expect = 6e-68, Method: Composition-based stats. Identities = 120/277 (43%), Positives = 180/277 (64%), 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++ + + + F+P Sbjct: 182 TDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPI 238 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++ Sbjct: 239 LLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVEL 275 >gi|319827245|gb|ADV74822.1| RNA polymerase subunit A [Vibrio coralliilyticus] Length = 276 Score = 262 bits (669), Expect = 6e-68, Method: Composition-based stats. Identities = 120/277 (43%), Positives = 180/277 (64%), 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++ + + + F+P Sbjct: 183 TDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPI 239 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++ Sbjct: 240 LLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVEL 276 >gi|283945395|dbj|BAI66453.1| RNA polymerase alpha subunit [Lactobacillus odoratitofui] Length = 247 Score = 262 bits (669), Expect = 6e-68, 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|71056870|emb|CAH58990.1| DNA-directed RNA polymerase alpha chain [Enterococcus malodoratus] Length = 231 Score = 262 bits (669), Expect = 6e-68, 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|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 = 262 bits (669), Expect = 6e-68, Method: Composition-based stats. Identities = 120/335 (35%), Positives = 184/335 (54%), Gaps = 19/335 (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---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG 112 A++I V E I GV ED ++I NIK I+LK+ G+ +R I G Sbjct: 62 AMRIQSNNKDSSSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKL-GEGEQRKIISFSVSG 120 Query: 113 ----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 V+ A + +EV N D VI L D + +E ++ G GYV ++ + + + Sbjct: 121 KDTKVLKASHFERD-GVEVFNRDLVIATLSQDVNLDLEFQINYGRGYVSSEQNSKYLEEV 179 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L Sbjct: 180 NVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIIREFL 239 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 I+FE+ + + L +E+L+LSVRS NCL EN+ +G+LI + Sbjct: 240 FPLIDFED---NINTSFEKSKSESSNLLDMSIEKLDLSVRSLNCLAKENVRTLGELISKN 296 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI L + LFLGM+ D Sbjct: 297 AEELSKARNFGKKSLEEIIEKLSSYQLFLGMSKED 331 >gi|71056906|emb|CAH59010.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 228 Score = 262 bits (669), Expect = 6e-68, Method: Composition-based stats. Identities = 104/228 (45%), Positives = 152/228 (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 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 +++++LA++I+ + L +F+N + K + + + L Sbjct: 181 IPQEALSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMT 228 >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 = 262 bits (669), Expect = 6e-68, Method: Composition-based stats. Identities = 119/336 (35%), Positives = 186/336 (55%), Gaps = 19/336 (5%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +++K ++ P IE++ Q + + P RGF T+GN LRRVL+SS+ G AI Sbjct: 2 LVEKFLKDFTIPEKIEFLK-SQGDGSYGKFTIYPFERGFGITIGNTLRRVLLSSIEGYAI 60 Query: 61 TAVQIDGVLHEISS---------IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGP 111 TA+++ + SS I GV ED ++I NIK I+LK+ G+ ++ TI Sbjct: 61 TAMRVQSNNKDASSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKL-GEGEQKKTISFSVS 119 Query: 112 G----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 G V+ A + +EV N D VI L D + +E ++ G GYV ++ + + Sbjct: 120 GKDTNVLKASHFERD-GVEVFNKDLVIATLSRDVNLDLEFQINYGRGYVSSEQNSKYLEE 178 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 + +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ Sbjct: 179 VNVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREF 238 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 L ++FE+ V + L +E+L LSVRS NCL EN+ +G+LI + Sbjct: 239 LFPLVDFED---NVNTSFEKSKSESSNLLDMSIEKLNLSVRSLNCLAKENVRTLGELISK 295 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ L+LGM+ D Sbjct: 296 NAEELSKARNFGKKSLEEIIEKLGSYRLYLGMSKED 331 >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 (669), Expect = 6e-68, Method: Composition-based stats. Identities = 77/321 (23%), Positives = 156/321 (48%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 DNTQHIATLTEPIDLCIELKIERNRGYSLKMSNNFEDRS---YPIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETVYLENNQHQV 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|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 = 262 bits (669), Expect = 7e-68, Method: Composition-based stats. Identities = 82/327 (25%), Positives = 156/327 (47%), Gaps = 24/327 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RRVL+ + G IT V+ + + Sbjct: 13 LQWKCVES-RIDSKRLYYGRFILSPLMKGQADTIGIAMRRVLLGEIEGTCITRVKSEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + + +I +GPG VTA DI +E+++ Sbjct: 72 HEYSTIIGIEESVHEILMNLKEIVLRSNLYGTRDASICFKGPGYVTAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I N+ + +EL + + GY ++ G IDA + P++ V++++ S Sbjct: 132 NTQHIANVTEPVNLCIELKIERNRGYRIKTLKNFQD---GSYPIDATFMPVRNVNHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + L + I T+GS+T ++++ ASR L D F++ EE ++ + + + Sbjct: 189 Y-VNGNEKQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEDNFNLENNQHKVT 247 Query: 250 LP------------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 LP +++LEL R NCL+ NI + +L+ ++ D Sbjct: 248 LPLFTFHDILAKEKLRKKKKEIALKSIFIDQLELPPRIYNCLKRSNIHTLLELLNNSQED 307 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLG 318 +L++ +F + + I L + Sbjct: 308 LLKIEHFRVEDVKYILDFL-EIEKHFA 333 >gi|71056898|emb|CAH59006.1| DNA-directed RNA polymerase alpha chain [Enterococcus hermanniensis] Length = 234 Score = 262 bits (669), Expect = 7e-68, 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|71056896|emb|CAH59005.1| DNA-directed RNA polymerase alpha chain [Enterococcus italicus] Length = 223 Score = 262 bits (669), Expect = 7e-68, 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|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 = 262 bits (669), Expect = 7e-68, 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 TIDTDGSITGEDSVALASRILQDQLGMFINFEE-PKKEVKEDINVKSLPFNPALLK---- 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|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 = 262 bits (669), Expect = 7e-68, Method: Composition-based stats. Identities = 87/330 (26%), Positives = 155/330 (46%), Gaps = 25/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V ++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVTLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITFDIRLRIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED----- 244 G + + L + I T+G +T +++ ASR L D F++ EE + + Sbjct: 189 YGSGNEI-REVLFLEIWTNGGLTPREALYEASRNLIDFFIPFLHGEEQNIDGINNRKGSS 247 Query: 245 ------------INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 ++ +++LEL R+ NCLR NI + DL+ + D+ Sbjct: 248 NMPPFPLLHVLTDTGETKEKIAFQHIFIDQLELPPRTYNCLRRANIHTLLDLLNYSREDL 307 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 +RM +FG++S+ ++ VL ++LP Sbjct: 308 MRMEHFGKESVEQVLEVLR---KRFAIDLP 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 = 262 bits (669), Expect = 7e-68, Method: Composition-based stats. Identities = 95/305 (31%), Positives = 160/305 (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 + ++ + Sbjct: 214 AEGATGRERLKMEVVTDGSTSPDDAIAEAANQLIELFQPLATVTMVEEI------PEEPE 267 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 268 PSPEAQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 327 Query: 312 TMGLF 316 +G+ Sbjct: 328 RIGIS 332 >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 = 262 bits (669), Expect = 7e-68, Method: Composition-based stats. Identities = 95/305 (31%), Positives = 160/305 (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 + ++ + Sbjct: 186 AEGATGRERLKMEVVTDGSTSPDDAIAEAANQLIELFQPLATVTMVEEI------PEEPE 239 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 240 PSPEAQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >gi|71056842|emb|CAH58976.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 215 Score = 262 bits (669), Expect = 7e-68, 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|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 (669), Expect = 8e-68, Method: Composition-based stats. Identities = 77/321 (23%), Positives = 156/321 (48%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 DNTQHIATLTEPIDLCIELKIERNRGYSLKMSNNFEDRS---YPIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQV 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|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 = 262 bits (669), Expect = 8e-68, 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|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 (668), Expect = 8e-68, Method: Composition-based stats. Identities = 81/330 (24%), Positives = 160/330 (48%), Gaps = 29/330 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 ++ +N G IDA+ P++ ++++ Sbjct: 131 DTTQHIASLTEPIDLCIELQIQRDRGYRMKTPNKYQN---GSYPIDAVSMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ N Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEEGIRLEDNPNRF 246 Query: 249 SLPFNPAL------------------LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 ++PF +++ EL R+ N L+ NI + DL+ ++ Sbjct: 247 NIPFFTFHDGLANTNIRKKKKGIALKCIFIDQSELPPRTYNYLKRSNINTLLDLLSNSQE 306 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 D L++ +F + ++K +L + ++ Sbjct: 307 DFLKIEHFR---IEDVKQILDILQKHFTID 333 >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 = 261 bits (668), Expect = 8e-68, Method: Composition-based stats. Identities = 83/331 (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 SYENG---NKEILFLEIWTNGSLTPKEALYEASRNLIDLLIPFLHTKEENLNLEGNQHMV 244 Query: 249 SLPF----------------NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 LP +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 245 PLPPFTFYDKLAKLTKNKKKMALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDL 304 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++M +F + ++K +LG + ++LP Sbjct: 305 MKMEHFR---IEDVKQILGILEKNFVIDLPK 332 >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 = 261 bits (668), Expect = 8e-68, Method: Composition-based stats. Identities = 76/320 (23%), Positives = 156/320 (48%), Gaps = 24/320 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 SYGTG-NENQEILFLEIWTNGNLTPKEALHEASRNLINLFIPFLHVEEETFYLENNEDKV 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|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 = 261 bits (668), Expect = 8e-68, 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 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 + ++ + Sbjct: 186 AEGGTGRERLKMEVVTDGSTSPDDAIAEAANQLIELFQPLATVTMVEEI------PEEPE 239 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 240 PSPEAQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >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 = 261 bits (668), Expect = 9e-68, Method: Composition-based stats. Identities = 91/342 (26%), Positives = 160/342 (46%), Gaps = 28/342 (8%) Query: 1 MIQKNW---QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRG 57 MIQ + I+ IE + + P +G A+T+G A+RR L+ + G Sbjct: 1 MIQDEVPVSAQTIQWRCIESKIESKRLH-YGRFAISPFRKGQANTVGIAIRRSLLGEIEG 59 Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 AIT + V+HE S+I G+ E + DI++N K I L+ ++ I GP +TA Sbjct: 60 TAITYAKSKNVIHEYSTIIGIEESINDILINFKEIVLRSDSYETQKAYISITGPKDITAE 119 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 DI ++ ++ I + D + +E+ + K GY ++ G IDA++ Sbjct: 120 DILLPPSVQAIDDSQHIATITKDITLDIEIEIQKDRGYRIQD---SKESQAGEFFIDAVF 176 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 PI+K +Y+V S + + L + I TDGS+T ++++ ASR L D F++ EE Sbjct: 177 MPIRKANYSVHSFGNNKKF-QEILFIEIWTDGSLTPKEALYEASRNLIDLFLPFLHTEEE 235 Query: 238 KKEVKEDINVKSLPFN-----------------PALLKKVEELELSVRSTNCLRGENIVY 280 + D +S +++LEL R+ NCL+ ++ Sbjct: 236 EIISDRDEKSESNGNILLSNSISTDIDRMAKEVAFKHIFIDQLELPARAYNCLKKVDVHT 295 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 + DL++ ++ D+ ++ NFG+KS+ ++ L +NLP Sbjct: 296 ISDLLKYSQDDLRKIKNFGKKSVDQVLEALQE---RFAINLP 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 = 261 bits (668), Expect = 9e-68, 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: 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 + ++ + Sbjct: 185 AEGGTGRERLKMEVVTDGSTSPDDAIAEAANQLIELFQPLATVTMVEEI------PEEPE 238 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 239 PSPEAQIPLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 298 Query: 312 TMGLF 316 +G+ Sbjct: 299 RIGIS 303 >gi|71056894|emb|CAH59004.1| DNA-directed RNA polymerase alpha chain [Enterococcus italicus] Length = 229 Score = 261 bits (668), Expect = 9e-68, Method: Composition-based stats. Identities = 105/229 (45%), Positives = 151/229 (65%) 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 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 I D+++LA++I+ + L +F+N + K + + + L Sbjct: 181 IEPLDAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMT 229 >gi|71056868|emb|CAH58989.1| DNA-directed RNA polymerase alpha chain [Enterococcus pseudoavium] Length = 229 Score = 261 bits (668), Expect = 9e-68, 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|312148520|gb|ADQ31179.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi JD1] Length = 344 Score = 261 bits (668), Expect = 9e-68, Method: Composition-based stats. Identities = 119/336 (35%), Positives = 185/336 (55%), Gaps = 19/336 (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---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGP 111 TA+++ V E I GV ED ++I NIK I+LK+ G+ ++ TI Sbjct: 61 TAMRVQSNNKDASLKVVSSEFDLIPGVSEDTLEVIANIKNIHLKL-GEGEQKKTISFSVS 119 Query: 112 G----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 G V+ A + +EV N D VI L D + +E ++ G GYV ++ + + Sbjct: 120 GKDTNVLKASHFERD-GVEVFNKDLVIATLSRDVNLDLEFQINYGRGYVSSEQNSKYLEE 178 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 + +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ Sbjct: 179 VNVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREF 238 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 L ++FE+ V + L +E+L LSVRS NCL EN+ +G+LI + Sbjct: 239 LFPLVDFED---NVNTSFEKSKSESSNLLDMSIEKLNLSVRSLNCLAKENVRTLGELISK 295 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ L+LGM+ D Sbjct: 296 NAEELSKARNFGKKSLEEIIEKLGSYRLYLGMSKED 331 >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 = 261 bits (668), Expect = 9e-68, Method: Composition-based stats. Identities = 91/232 (39%), Positives = 145/232 (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 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 S NCL+ I + +L +TE DM+++ N GRKSL E+K L +GL L + Sbjct: 181 SYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKHKLEELGLGLRKD 232 >gi|283945397|dbj|BAI66454.1| RNA polymerase alpha subunit [Lactobacillus similis] Length = 248 Score = 261 bits (668), 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: 2 KPN----IHKIEESDDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLH 57 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 E S+++GV ED+T IILN K I+LK+ G D + + I +GP VTAGDI +D+ VL Sbjct: 58 EFSTVEGVVEDVTQIILNTKKISLKLEGPDDEIESMEIDVKGPAQVTAGDITADSDVTVL 117 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR-TENDPIGLITIDALYSPIKKVSYTV 187 NPD I + A M +T +KG GYV A ++ E+ PIG++ ID++Y+PI++V+Y V Sbjct: 118 NPDLYIATVAEGATFHMRMTANKGRGYVSADRNKAKEDMPIGVLPIDSIYTPIERVNYQV 177 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ DYDKL++ + TD SIT +S++LA++IL + L MF++ + K + + Sbjct: 178 ENTRVGQRDDYDKLTLDVWTDSSITPSESISLAAKILTEHLAMFVDLTDEAKNAEIMVEK 237 Query: 248 KSLPFNPALLK 258 + L Sbjct: 238 EETHKEKMLEM 248 >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 = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 77/321 (23%), Positives = 156/321 (48%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 DNTQHIATLTEPIDLCIGLKIERNRGYSLKISNNLEDRS---YPIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQV 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|72534409|emb|CAH59041.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 229 Score = 261 bits (668), Expect = 1e-67, 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|290489680|gb|ADD31224.1| RNA polymerase alpha subunit protein [Bulnesia arborea] Length = 352 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 82/320 (25%), Positives = 158/320 (49%), Gaps = 24/320 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 DNTQHIANLTEPIDFCIRLQIERNRGYRIKTPNQFQE---GIYPIDAVFMPVRNANHSIH 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|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 = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 81/331 (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 SYENG---NKEILFLEIWTNGSLTPKEALHEASRNLIDLLIPFLHTKEENLSLEDNQHIV 244 Query: 249 SLPF----------------NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 LP +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 245 PLPPFTFYDKLAKLTKNKKKMALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDL 304 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++M +F + ++K +LG + ++LP Sbjct: 305 MKMEHFR---IEDVKQILGILEKNFVIDLPK 332 >gi|300431314|gb|ADK12620.1| RNA polymerase alpha subunit [Pappostipa vaginata] Length = 319 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 89/318 (27%), Positives = 154/318 (48%), Gaps = 23/318 (7%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + + I PL +G A +G ALRR L+ + G IT + V HE S+I G+ Sbjct: 2 VDSKRLYYGRFILSPLRKGQADPVGIALRRALLXEIEGTCITRAKFGSVPHEYSTIAGIE 61 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 E + +I+LN+K I L+ + + +I +GP +TA DI +E+ + I NL Sbjct: 62 ESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIXDTAQPIANLTE 121 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + +EL + + GY + ++ G IDA+ P++ V+Y++ S G + Sbjct: 122 PIDLCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFSCGNG-NEKPE 177 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-------- 251 L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P Sbjct: 178 ILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKKL 237 Query: 252 --------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 P +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + Sbjct: 238 TNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSFR---M 294 Query: 304 VEIKGVLGTMGLFLGMNL 321 + K + + L +NL Sbjct: 295 EDGKQIWDNLEKHLPINL 312 >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 = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 76/320 (23%), Positives = 155/320 (48%), Gaps = 24/320 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 SYGTG-NEKQEILFLEIWTNGNLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHKV 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 IKIEHFHIEDVKKILEILEK 326 >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 = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 86/331 (25%), Positives = 162/331 (48%), Gaps = 25/331 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 13 LQWKCVESRTDSKCLH-YGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + +I RGP VTA DI +E+++ Sbjct: 72 HEYSTILGIQESVHEILMNLKEIVLRSNLYGTCEASICVRGPRGVTAQDIILPPYVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I +L + + L + + GY + ++ G IDAL+ P++ V++++ S Sbjct: 132 NTQHIASLTEPIDLCIGLQLERNRGYHIKAPNNFQD---GSFPIDALFMPVRNVNHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L D L F++ EE ++++ + S Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKEALYEASRNLIDLLIPFLHAEE-NVNLEDNQHKVS 246 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 LP +++LEL R NCL+ NI + DL+ ++ D++ Sbjct: 247 LPLFTFHNRLAEIRKNKKKIALKFIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLI 306 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 +M +F + ++K + GT+ ++L + Sbjct: 307 KMKHFR---IEDVKQIFGTLEKHFVIDLKNK 334 >gi|88657014|gb|ABD47264.1| RNA polymerase alpha subunit [Lactuca sativa] Length = 337 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 83/331 (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 SYENG---NKEILFLEIWTNGSLTPKEALYEASRNLIDLLIPFLHTKEENLNLEGNQHMV 246 Query: 249 SLPF----------------NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 LP +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 247 PLPPFTFYDKLAKLTKNKKKMALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++M +F + ++K +LG + ++LP Sbjct: 307 MKMEHFR---IEDVKQILGILEKNFVIDLPK 334 >gi|71056917|emb|CAH59017.1| DNA-directed RNA polymerase alpha chain [Enterococcus columbae] Length = 234 Score = 261 bits (667), Expect = 1e-67, 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|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 = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 95/296 (32%), Positives = 158/296 (53%), Gaps = 4/296 (1%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + L G T+GN LRRVL+ L G AI+AV+I G+ HE S+I GV ED+ +I+ Sbjct: 20 HGQFLINSLNPGQGITIGNQLRRVLLGDLGGVAISAVRIAGITHEFSTIPGVREDILEIL 79 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+KGI + + +GP VVTA IQ +E++NP+H I + ++ +E Sbjct: 80 LNLKGIICTSQIQDTQFGHLKVQGPSVVTADLIQLPPGVEIINPNHYIATISTSNILEIE 139 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 G GY A + E D + +D ++ P++KV + +E+ + ++L + I Sbjct: 140 FKFEYGSGYHLASQNFVEEDENY-LQLDTIFMPVQKVDFKIENIYDATNNISERLFLDIW 198 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+GSI+ D++ A++++ D + IN + + ++ +++ P +EEL+LS Sbjct: 199 TNGSISPNDALESAAQVIIDLFTLLINNKNINNNNRLELKPETISIEPYTNIAIEELQLS 258 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 VR+ NCL+ I +GDL+Q + + + NFGRKS E+ L LG+ L Sbjct: 259 VRAYNCLKKAQINTVGDLLQYSPEKLQELKNFGRKSADEVFSTLKNK---LGIILK 311 >gi|119663520|emb|CAK22331.1| RNA polymerase alpha subunit [Lactobacillus hammesii] Length = 227 Score = 261 bits (667), Expect = 1e-67, 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|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 (667), Expect = 1e-67, Method: Composition-based stats. Identities = 75/321 (23%), Positives = 154/321 (47%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 DNTQHIATLTEPIDLCIGLKIERNRGYSLKMSNNFEDRS---YPIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQV 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|71056923|emb|CAH59020.1| DNA-directed RNA polymerase alpha chain [Enterococcus durans] Length = 226 Score = 261 bits (667), Expect = 1e-67, 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|300431305|gb|ADK12617.1| RNA polymerase alpha subunit [Achnatherum inebrians] Length = 330 Score = 261 bits (666), Expect = 1e-67, Method: Composition-based stats. Identities = 88/328 (26%), Positives = 158/328 (48%), Gaps = 33/328 (10%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + + Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSLP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I+ +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY + ++ G IDA+ P++ V+Y Sbjct: 132 TAQPIANLTEPIDFCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYR--- 185 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 186 -------KHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFT 238 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ NCL+ NI + DL+ +TE D++ Sbjct: 239 PPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLM 298 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 299 RIDSFR---MEDGKQIWDTLEKHLPIDL 323 >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 = 261 bits (666), Expect = 1e-67, Method: Composition-based stats. Identities = 80/333 (24%), Positives = 158/333 (47%), Gaps = 24/333 (7%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLR 56 M+++ + ++ + ++ I PL +G A T+G A+RR L+ L Sbjct: 1 MVREKVKVSTSTRTRQWKCVESRTDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGELE 60 Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 G IT + + + HE S+I G+ E + +I++N+K I L+ + + I +GPG VTA Sbjct: 61 GTCITRAKSEKIPHEYSTIVGIQESVHEILMNLKEIVLRGNLYGTRNAFICAKGPGYVTA 120 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 DI +E+++ + +L + + L + + GY +N G IDA+ Sbjct: 121 QDIILPPSVEIVDNTQHVASLTEPIDLCIGLQIERNRGYGIKT---PKNFHDGSYPIDAV 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 + P++ ++++ + L + I T+GS+T ++++ ASR L D F++ EE Sbjct: 178 FMPVRNANHSIHCYGND-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHTEE 236 Query: 237 PKKEVKEDINVKSLPFNPALLK----------------KVEELELSVRSTNCLRGENIVY 280 ++ + + +LPF P + +++ EL R NCL+ NI Sbjct: 237 ENLHLENNQHDVTLPFFPFHDRLVKLTKKKKEIALKYIFIDQSELPPRIYNCLKKSNIHT 296 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 + DL+ + D++++ +F + + +I G+L Sbjct: 297 LLDLLNNSREDLMKIEHFRIEDVKQILGILEKK 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 = 261 bits (666), Expect = 1e-67, Method: Composition-based stats. Identities = 75/321 (23%), Positives = 154/321 (47%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 DNTQHIATLTEPIDLCIGLKIERNRGYSLKMSNNFEDRS---YPIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQV 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|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 = 261 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 78/327 (23%), Positives = 151/327 (46%), Gaps = 24/327 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +K +E + I PL +G T+G A+R+ L+ + G IT + + + Sbjct: 13 LKWKCVES-RADSKRLYYGRFILSPLMKGQGDTIGIAMRKALLGEIEGTCITRAKSEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + + +I +GPG VTA DI +E+++ Sbjct: 72 HEYSTIVGIQESVHEILMNLKEIVLRSNLYGTRDASICVKGPGCVTAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL + +EL + + GY + ++ +DA++ P++ V++++ S Sbjct: 132 NTQHIANLMEPINLCIELKIERNRGYHIQTPNNFQDAS---YPMDAIFMPVRNVNHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + L + I T+GS+T ++++ ASR L D F++ EE K+ N K Sbjct: 189 Y-VNGNEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEEKENFHLKNNKKK 247 Query: 250 LPFNPALLKK------------------VEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 + + +++ EL R NCL+ NI + DL+ + + Sbjct: 248 VTLPLFTFHEKLAKLRKKKKEIALKYIFIDQSELPPRIYNCLKRCNIHTLFDLLNNSPDE 307 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLG 318 ++++ +F + + I +L M Sbjct: 308 LMKIKHFRIEDVKHILDIL-EMEKNFA 333 >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 = 154/321 (47%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 DNTQHIATLTEPINLCIGLKIERNRGYSLKMSNNFEDRS---YPIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQV 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|76665073|emb|CAJ17984.1| DNA-directed RNA polymerase alpha subunit [Candidatus Phytoplasma solani] Length = 318 Score = 261 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 102/321 (31%), Positives = 175/321 (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 GVHEDLTDIILNIKGINLKMSGDS---HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 GV+ED+ IILN+K I K+ +S +++ 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 ITTISDNINFHMTVTIKKGIGYVGAKDNKIHSENQIGVIAIDSLFTPVLDVAYQVG---- 177 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 ++ + D+L++ I T+G+ ++++ A++IL + + + + ++ K Sbjct: 178 KKLGNKDELTIQITTNGAAVAKEALVTAAKILVEHFNVIVELSQKVANIEFIPETKEEAH 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|332178481|gb|AEE14170.1| DNA-directed RNA polymerase subunit alpha [Thermodesulfobium narugense DSM 14796] Length = 341 Score = 261 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 101/318 (31%), Positives = 174/318 (54%), Gaps = 14/318 (4%) Query: 15 IEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISS 74 I+ + + + + EPLP G+ T+GNALRRVL++S+ G+A+ AV++D HE + Sbjct: 12 IKEQLEIENGGKYSKFVLEPLPPGYGATIGNALRRVLLTSIPGSAVIAVRVDDAPHEYMT 71 Query: 75 IKGVHEDLTDIILNIKGIN----LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 + G+ ED+ + LN+K + +S + +++ + +GP +V A DIQ +++++N Sbjct: 72 LPGMVEDILEFHLNLKKLVVVVSPDISEEETRKLILDVKGPKIVKASDIQPNAEVQIINK 131 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP--IGLITIDALYSPIKKVSYTVE 188 D + L+ + +R E+TV KG GY+ + + G I +DA + PI +V+Y+VE Sbjct: 132 DLYLATLEENGELRAEITVKKGKGYISIEKMKENTRWLSPGSIPLDANFLPITRVNYSVE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN---FEEPKKEVKEDI 245 S R GQ D+DKL I T+G+I +++ +A+ L +F F + +K V + Sbjct: 192 STRVGQETDWDKLIFEIWTNGAIEPVNALRIAAEDLISHFRIFAEYGTFLDSEKPVSDYK 251 Query: 246 NVKSLPF-----NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 K + L + +EE+ L R N L+ I +GDLI +T D+L + +FG+ Sbjct: 252 ETKKDSYLRSQAKMDLEQSIEEIGLQTRIANVLKRSGISTLGDLISKTREDILNVPSFGK 311 Query: 301 KSLVEIKGVLGTMGLFLG 318 KSL E++ +L G L Sbjct: 312 KSLDELEEILHAKGYRLK 329 >gi|88656926|gb|ABD47177.1| RNA polymerase alpha subunit [Helianthus annuus] Length = 337 Score = 261 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 81/331 (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 SYENG---NKEILFLEIWTNGSLTPKEALHEASRNLIDLLIPFLHTKEENLSLEDNQHIV 246 Query: 249 SLPF----------------NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 LP +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 247 PLPPFTFYDKLAKLTKNKKKMALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++M +F + ++K +LG + ++LP Sbjct: 307 MKMEHFR---IEDVKQILGILEKNFVIDLPK 334 >gi|620029|gb|AAA74989.1| RNA polymerase alpha-subunit [Chlamydia trachomatis] Length = 380 Score = 261 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 122/357 (34%), Positives = 189/357 (52%), Gaps = 27/357 (7%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +K + +E V + +A+PL +G HTLG+ALRR L+ L AI + + G Sbjct: 17 ESVKMSPVEGAVGSI--DKVARFVADPLEKGMGHTLGSALRRALLIGLEAPAIVSFSMTG 74 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK---------RVTIFKRG-------- 110 VLHE +++G+ ED+T+++LN+KG LK R TI Sbjct: 75 VLHEYMAVEGIIEDVTNMLLNLKGSLLKKYPLQDCEGGRCSQKLRATISVDASDLAAAGG 134 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL 170 VT GD+ E +NP+HVI + + + L V+ G GY P++ E + Sbjct: 135 QKEVTLGDLLQEGTFEAVNPEHVIFTVTRPMQLEVMLRVAFGRGYSPSERIVLEERGMNE 194 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG + +++VA A++IL + Sbjct: 195 IVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLVLQVETDGRVAPKEAVAFATQILSKHFSV 254 Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLK---KVEELELSV---RSTNCLRGENIVYMGDL 284 F +E + +E I+V+ + L K + E+ELSV RSTNCL NI +G+L Sbjct: 255 FEKMDEKRIVFEEAISVEKENKDDILHKLVLGINEIELSVRLIRSTNCLSNANIETIGEL 314 Query: 285 IQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 + E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 315 VIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 371 >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 = 261 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 121/336 (36%), Positives = 185/336 (55%), Gaps = 19/336 (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---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGP 111 TA+++ V E I GV ED +II NIK I+LK+ G+ +R TI Sbjct: 61 TAMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEIIANIKNIHLKL-GEGEQRKTISFSVS 119 Query: 112 G----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 G V+ A + +EV N D VI L D + +E ++ G GYV ++ + + Sbjct: 120 GKDTNVLKASHFERD-GVEVFNKDLVIATLSRDVNLDLEFQINYGRGYVSSEQNSKYLEE 178 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 + +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ Sbjct: 179 VNVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREF 238 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 L ++FE+ V + L +E+L LSVRS NCL EN+ +G+LI + Sbjct: 239 LFPLVDFED---NVNTSFEKSKSESSNLLDMSIEKLNLSVRSLNCLAKENVRTLGELISK 295 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ L+LGM+ D Sbjct: 296 NAEELSKARNFGKKSLEEIIEKLGSYRLYLGMSKED 331 >gi|328814001|gb|AEB52116.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 232 Score = 261 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 106/232 (45%), Positives = 156/232 (67%), 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 VPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 V A+ ++ ++ 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|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 = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 118/334 (35%), 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---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK---R 109 +++ V E I GV ED ++I NIK I+LK+ +++ F + Sbjct: 62 TMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKLREGEQRKIISFSVSGK 121 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 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|119662289|emb|CAJ33131.1| RNA polymerase alpha subunit [Lactobacillus casei] Length = 211 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 96/211 (45%), Positives = 147/211 (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 ALASRILQDQLGMFINFEEPKKEVKEDINVK 248 +LA++IL + L +F+N + K + + + Sbjct: 181 SLAAKILTEHLDIFVNLTDEAKNAEIMVEKE 211 >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 = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 90/328 (27%), Positives = 159/328 (48%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLIKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + + +I +GP +TA DI +EV++ Sbjct: 72 HEYSTIAGIEESVQEILVNLKEIVLRSNLYGVRDASICVKGPRCITAQDIILPPSVEVVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIQLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTGFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL R+ N L+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKRLTNRKKNKKGIPLNFIFIDQLELPSRTYNYLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDGKQIWDTLEKHLPVDL 332 >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 = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 121/336 (36%), Positives = 185/336 (55%), Gaps = 19/336 (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---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGP 111 TA+++ V E I GV ED +II NIK I+LK+ G+ +R TI Sbjct: 61 TAMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEIIANIKNIHLKL-GEGEQRKTISFSVS 119 Query: 112 G----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 G V+ A + +EV N D VI L D + +E ++ G GYV ++ + + Sbjct: 120 GKDTNVLKASHFERD-GVEVFNKDLVIATLSHDVNLDLEFQINYGRGYVSSEQNSKYLEE 178 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 + +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ Sbjct: 179 VNVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREF 238 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 L ++FE+ V + L +E+L LSVRS NCL EN+ +G+LI + Sbjct: 239 LFPLVDFED---NVNTSFEKSKSESSNLLDMSIEKLNLSVRSLNCLAKENVRTLGELISK 295 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ L+LGM+ D Sbjct: 296 NAEELSKARNFGKKSLEEIIEKLGSYRLYLGMSKED 331 >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 = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 105/230 (45%), Positives = 151/230 (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 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 SI ++++L+++I+ + L +F+N + K + + + L Sbjct: 181 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMT 230 >gi|161513424|emb|CAP16855.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus dextrinicus] Length = 222 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 100/220 (45%), Positives = 151/220 (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 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 ++++LA++IL D L +FI+ + K + + + Sbjct: 181 REAISLAAKILSDHLNIFIDLSDEAKNTEIMVEKEETQKR 220 >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 = 156/321 (48%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 DNTQHIATLTEPIDLCIELKIERNRGYSLKMSNNFEDRS---YPIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQV 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|71056804|emb|CAH58957.1| DNA-directed RNA polymerase alpha chain [Enterococcus italicus] Length = 224 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 102/222 (45%), Positives = 147/222 (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 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 D+++LA++I+ + L +F+N + K + + + Sbjct: 181 LDAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 222 >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 = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 121/336 (36%), Positives = 185/336 (55%), Gaps = 19/336 (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---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGP 111 TA+++ V E I GV ED +II NIK I+LK+ G+ +R TI Sbjct: 62 TAMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEIIANIKNIHLKL-GEGEQRKTISFSVS 120 Query: 112 G----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 G V+ A + +EV N D VI L D + +E ++ G GYV ++ + + Sbjct: 121 GKDTNVLKASHFERD-GVEVFNKDLVIATLSHDVNLDLEFQINYGRGYVSSEQNSKYLEE 179 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 + +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ Sbjct: 180 VNVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREF 239 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 L ++FE+ V + L +E+L LSVRS NCL EN+ +G+LI + Sbjct: 240 LFPLVDFED---NVNTSFEKSKSESSNLLDMSIEKLNLSVRSLNCLAKENVRTLGELISK 296 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ L+LGM+ D Sbjct: 297 NAEELSKARNFGKKSLEEIIEKLGSYRLYLGMSKED 332 >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 = 260 bits (664), Expect = 2e-67, Method: Composition-based stats. Identities = 93/296 (31%), Positives = 156/296 (52%), Gaps = 4/296 (1%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + + L G T+GN LRRVL++ L G AI+AV+I GV HE S+I GV ED+ +I+ Sbjct: 20 HGQFLIQTLRPGQGITIGNQLRRVLLNDLGGVAISAVRIAGVSHEFSTIPGVREDILEIL 79 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+K I L+ + + + +GP VVTA IQ + +E++NP+ I + ++ +E Sbjct: 80 LNLKEIVLRSKTQTPQFGRLKIQGPAVVTADLIQLPSTVEIVNPNQYIMTISTSNILEIE 139 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 G GY A E + + +DA++ PI+KV + +E+ + ++L + I Sbjct: 140 FKFDYGTGYRLASQTFLEENENY-LQLDAIFMPIQKVDFKIENVYDKANNITERLFLDIW 198 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+GSI+ +++ A++I D + ++ + ++ P +EEL+LS Sbjct: 199 TNGSISPTEAMKSAAQITIDVFTSLLENKDTNSSNEVPSKTSAISLEPYTNIAIEELQLS 258 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 VR+ NCL+ I +GDL+ + + + NFGRKS E+ L LG+ L Sbjct: 259 VRAYNCLKKAQINTVGDLLHYSPEKLQELKNFGRKSADEVFSTLKNK---LGIILK 311 >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 = 260 bits (664), Expect = 2e-67, Method: Composition-based stats. Identities = 118/271 (43%), Positives = 179/271 (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++ + + + F+P LL+ Sbjct: 182 DKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLR 238 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 239 PVDDLELTVRSANCLKAEAIHYIGDLVQRTE 269 >gi|12265|emb|CAA27214.1| unnamed protein product [Spinacia oleracea] Length = 335 Score = 260 bits (664), Expect = 2e-67, Method: Composition-based stats. Identities = 86/331 (25%), Positives = 162/331 (48%), Gaps = 25/331 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 13 LQWKCVESRTDSKCLH-YGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + +I RGP VTA DI +E+++ Sbjct: 72 HEYSTILGIQESVHEILMNLKEIVLRSNLYGACEASICVRGPRGVTAQDIILPPYVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I +L + + L + + GY + ++ G IDAL+ P++ V++++ S Sbjct: 132 NTQHIASLTEPIDLCIGLQLERNRGYHIKAPNNFQD---GSFPIDALFMPVRNVNHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L D L F++ EE ++++ + S Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKEALYEASRNLIDLLIPFLHAEE-NVNLEDNQHKVS 246 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 LP +++LEL R NCL+ NI + DL+ ++ D++ Sbjct: 247 LPLFTFHNRLAEIRKNKKKIALKFIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLI 306 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 +M +F + ++K + GT+ ++L + Sbjct: 307 KMKHFR---IEDVKQIFGTLEKHFVIDLKNK 334 >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 = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 120/336 (35%), Positives = 185/336 (55%), Gaps = 19/336 (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---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGP 111 TA+++ V E I GV ED +II NIK I+LK+ G+ ++ TI Sbjct: 61 TAMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEIIANIKNIHLKL-GEGEQKKTISFSVS 119 Query: 112 G----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 G V+ A + +EV N D VI L D + +E ++ G GYV ++ + + Sbjct: 120 GKDTNVLKASHFERD-GVEVFNKDLVIATLSRDVNLDLEFQINYGRGYVSSEQNSKYLEE 178 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 + +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ Sbjct: 179 VNVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREF 238 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 L ++FE+ V + L +E+L LSVRS NCL EN+ +G+LI + Sbjct: 239 LFPLVDFED---NVNTSFEKSKSESSNLLDMSIEKLNLSVRSLNCLAKENVRTLGELISK 295 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ L+LGM+ D Sbjct: 296 NAEELSKARNFGKKSLEEIIEKLGSYRLYLGMSKED 331 >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 = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 88/328 (26%), Positives = 158/328 (48%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSXP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G I + P++ V+Y++ S Sbjct: 132 TXQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIXXVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D++ Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >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 = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 94/302 (31%), Positives = 162/302 (53%), Gaps = 9/302 (2%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +PL G T+GNALRRVL+S L G AIT+ ++ G +HE S I G ED+ Sbjct: 17 TSYYGRFTFQPLKLGQGLTIGNALRRVLLSDLEGIAITSARVSGSVHEFSEIPGTREDVL 76 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 +I+LN+K I LK S + +GP +VTA D + + ++ ++P I + V+ Sbjct: 77 EILLNLKKIVLKGSSKDAGIARLKVQGPCIVTASDFELPSFVKAVDPSQYIATICDSNVL 136 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +E+++S G GY ++ + + +DA++ P+ KV+YT+E + +KL++ Sbjct: 137 EIEVSISAGRGYKLVN-RQSLDSGKDSLELDAVFMPVNKVNYTIEEINTDFPIAEEKLTL 195 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 I T+GS+T E+S+ A+ +L D L + + ++ + + +E+L Sbjct: 196 EIWTNGSLTPEESLMQAATVLTDILAPI-----QRIHLTDEEDFPADKEPEVKNLPIEDL 250 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +LSVR+ NCL+ NI Y DL+ R++ ++L + NFG+K E+ L + +G+ LP Sbjct: 251 KLSVRAYNCLKQINIDYTEDLLTRSQEELLEIKNFGKKCCEEVTQALKNI---VGLTLPK 307 Query: 324 WP 325 Sbjct: 308 KK 309 >gi|156598719|gb|ABU85614.1| RNA polymerase alpha subunit [Scaevola aemula] Length = 332 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 84/333 (25%), Positives = 160/333 (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 SIHSSGNG---KQEILFLEIWTNGSLTPKEALHEACRNLIDLFIPFLHKEEGNLENNQDR 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 MKKAHLH---IEDVKRILGLLEKNCVIDLPKNP 331 >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 = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 75/321 (23%), Positives = 154/321 (47%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 DNTQHIATLMEPIDLCIGLKIERNRGYSLKMSNNFEDRS---YPIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQV 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|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 = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 84/341 (24%), Positives = 162/341 (47%), Gaps = 26/341 (7%) Query: 1 MIQKN---WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRG 57 MIQ E ++ IE + + PL G A+T+G A+RR L+ + G Sbjct: 1 MIQNEIPIPAEALQWKCIESKIDSERLH-YGRFAISPLRPGQANTVGIAIRRALLGEIEG 59 Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 IT V+ + V HE S+I G+ E + DI++N+K I LK + + +I GP VTA Sbjct: 60 TCITYVKFEKVTHEYSTIMGIQESVHDILINLKEIVLKSNSYKTQEASISILGPKRVTAE 119 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 DI + +EV++ I + ++L + K GY + E+ G ++A + Sbjct: 120 DIVLPSSVEVIDATQHIATITKAVYFNIKLGIRKDRGYRIENPVKYED---GNFAVNAAF 176 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 +PI+ +Y+V S + + L + + T+GS+T ++++ AS+ L + ++ ++ Sbjct: 177 TPIRNANYSVHSFENEKE-KQEILFIEVWTNGSLTPKEALREASQSLINLFIPLLHEKKE 235 Query: 238 KKEVKEDINVKSLPFNPALLKK---------------VEELELSVRSTNCLRGENIVYMG 282 ++ K + + +++LEL R+ N L+ ++ + Sbjct: 236 RENRKLENKDEYNVLRSCFSLTNIGEVRKEISFKHIFIDQLELPARAYNGLKKVDVHTIS 295 Query: 283 DLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 DL+ ++ D++++ NFG+KS I+ V+ + ++LP Sbjct: 296 DLLNYSQEDLMKIKNFGKKS---IQQVVEALQKHFAIHLPK 333 >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 = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 77/321 (23%), Positives = 154/321 (47%), Gaps = 23/321 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 SYGNG-NEKQEILFLEIWTNGSLTPKEALHEASRSLIDLFIPFLQAEDENLPLENNQYKV 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|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 = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 78/319 (24%), Positives = 152/319 (47%), Gaps = 21/319 (6%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + +I +GPG VTA DI +E+++ Sbjct: 72 HEYSTIVGIQESVHEILMNLKEIVLRSNLYGTCNASICVKGPGCVTAQDILLPPSVEIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I +L + + L + + GY + ++ G IDA++ P++ ++++ S Sbjct: 132 NTQHIASLMEPIHLCIGLQIERNRGYHIKSPNNFQD---GSYPIDAVFMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 Q + L + I T+GS+T ++++ ASR L D F++ EE + + + Sbjct: 189 YGN-QNEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFLPFLHAEEENLHLGNNKYNVT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P +++LEL R N L+G I + DL+ +++ D++ Sbjct: 248 FPLFTFHKKLAKLRKPKNEIALKSIFIDQLELPPRIYNSLKGSKIHTLSDLLNKSQEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGT 312 +M +F + + +I +L Sbjct: 308 KMKHFRIEDVKQILDILEI 326 >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 = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 78/319 (24%), Positives = 153/319 (47%), Gaps = 21/319 (6%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + +I +GPG VTA DI +E+++ Sbjct: 72 HEYSTIVGIQESVHEILMNLKEIVLRSNLYGTCNASICVKGPGCVTAQDILLPPSVEIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I +L + + L + + GY + ++ G IDA++ P++ ++++ S Sbjct: 132 NTQHIASLMEPIHLCIGLQIERNRGYHIKSPNNFQD---GSYPIDAVFMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 Q + L + I T+GS+T ++++ ASR L D F++ EE + ++ + Sbjct: 189 YGN-QNEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFLPFLHAEEENLHLGKNKYNVT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P +++LEL R N L+G I + DL+ +++ D++ Sbjct: 248 FPLFTFHKKLAKLRKPKNEIALKSIFIDQLELPPRIYNSLKGSKIHTLSDLLNKSQEDLM 307 Query: 294 RMANFGRKSLVEIKGVLGT 312 +M +F + + +I +L Sbjct: 308 KMKHFRIEDVKQILDILEI 326 >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 = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 92/328 (28%), Positives = 161/328 (49%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFWSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPKYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTEL---IKNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTXNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >gi|151416840|emb|CAO78491.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gelidum] Length = 233 Score = 260 bits (664), Expect = 3e-67, 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|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 = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 107/302 (35%), Positives = 169/302 (55%), Gaps = 3/302 (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 LDDAESHLYVEMEVEVGRGFVEATS--ADNVAIGTIPQDAIFNPVEKVNYEIEPVHMGQE 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 FL 317 Sbjct: 306 SF 307 >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 = 259 bits (663), Expect = 3e-67, Method: Composition-based stats. Identities = 118/271 (43%), Positives = 179/271 (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++ + + + F+P LL+ Sbjct: 182 DKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLR 238 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 239 PVDDLELTVRSANCLKAEAIHYIGDLVQRTE 269 >gi|161511719|emb|CAP16870.1| DNA-directed RNA polymerase subunit alpha [Pediococcus acidilactici] Length = 235 Score = 259 bits (663), Expect = 3e-67, Method: Composition-based stats. Identities = 108/235 (45%), Positives = 151/235 (64%), 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 GYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A ++ + 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|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 = 259 bits (663), Expect = 3e-67, Method: Composition-based stats. Identities = 97/295 (32%), Positives = 161/295 (54%), Gaps = 4/295 (1%) Query: 28 TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIIL 87 + L G T+GN LRRVL+ L G AI+AV+I G+ HE S+I GV ED+ +I+L Sbjct: 21 GRFVINALRAGQGITIGNQLRRVLLGDLGGMAISAVRIAGITHEFSTIPGVREDILEILL 80 Query: 88 NIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 N+KGI LK + + + +GP VVTA IQ +++E++NP+H I + ++ +E Sbjct: 81 NLKGIVLKSEINDIQFGRLKVQGPAVVTADLIQLPSNLEIINPNHYIATISTSNILEIEF 140 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 G GY A T++ + +D ++ PI+KV + +E+ + ++L + I T Sbjct: 141 KFEYGTGYKLATQTFTDDSENY-LQLDTVFMPIQKVDFKIENVYDSANNITERLLLDIWT 199 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +GSI+ +++ A++++ D + IN + + + +S P +EEL+LSV Sbjct: 200 NGSISPNEALESAAQVIVDLFTLLINNKNMVNTNQLESKPESSSIEPYTNIAIEELQLSV 259 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ NCL+ I +GDL+Q + + + NFGRKS E+ L LG+ L Sbjct: 260 RAYNCLKKAQINTVGDLLQYSPEKLQELKNFGRKSADEVFSTLKNK---LGIILK 311 >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 = 259 bits (663), Expect = 3e-67, Method: Composition-based stats. Identities = 78/320 (24%), Positives = 155/320 (48%), Gaps = 21/320 (6%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 13 LQWKCVESKR-DSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 H+ S+I G+ E + +I++N+ I L+ + + I +GPG +TA DI +E+++ Sbjct: 72 HDYSNIVGIQESVHEILMNLNEIVLRSNLYGTRNALICVQGPGYITARDIILPPSVEIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + +EL + + GY + E+ IDA++ P++ ++++ S Sbjct: 132 NTQHIATLTETIDLCIELKIERNRGYSLKMSNNFEDRS---YPIDAVFMPVENANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + + Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQVT 247 Query: 250 LPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 LPF P + +++LEL R NCL+ NI + DL+ ++ D++ Sbjct: 248 LPFFPFHNRLVNLRKKTKELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLI 307 Query: 294 RMANFGRKSLVEIKGVLGTM 313 ++ +F + + +I +L Sbjct: 308 KIEHFHVEDVKKILDILEKK 327 >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 = 259 bits (663), Expect = 3e-67, Method: Composition-based stats. Identities = 80/321 (24%), Positives = 161/321 (50%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 + + IDA++ P++ ++++ Sbjct: 131 DITQHIASLTEPIDLCIELQIERNRGYRMKTPNNAQERS---YPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I TDGS+T ++++ ASR L D F++ EE +++++ + Sbjct: 188 SYGNG-NEKQEILFLEIWTDGSLTPKEALYEASRNLIDLFIPFLHAEEQDTKLEDNQSRV 246 Query: 249 SLPFN----------------PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 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|71056798|emb|CAH58954.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] Length = 224 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 102/222 (45%), Positives = 148/222 (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 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 ++++L+++I+ + L +F+N + K + + + Sbjct: 181 LEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 222 >gi|267798457|gb|ACY78909.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 269 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 118/271 (43%), Positives = 179/271 (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++ + + + F+P LL+ Sbjct: 182 DKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLR 238 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 239 PVDDLELTVRSANCLKAEAIHYIGDLVQRTE 269 >gi|71056921|emb|CAH59019.1| DNA-directed RNA polymerase alpha chain [Enterococcus durans] Length = 226 Score = 259 bits (663), Expect = 4e-67, 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|228017032|gb|ACP51855.1| RNA polymerase alpha subunit [Pinus canariensis] Length = 335 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 84/329 (25%), Positives = 156/329 (47%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I + + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVFRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H N G+ IDA++ P++ V+Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDVNYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + + L + I T+G +T +++ ASR L D F++ EE + + Sbjct: 189 YGSGNEI-REVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSN 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ L +++LEL ++ N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHVLTDTGETKEKIAFQLIFIDQLELPPKTYNSLRRANIHTLSDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ +FG++S+ ++ VL + ++ P Sbjct: 308 RIEHFGKESVEQVLEVLQKL---FAIDPP 333 >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 = 259 bits (662), Expect = 4e-67, Method: Composition-based stats. Identities = 105/230 (45%), Positives = 151/230 (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 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 SI ++++L+++I+ + L +F+N + K + + + L Sbjct: 181 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMT 230 >gi|150036806|emb|CAM98276.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 242 Score = 259 bits (662), Expect = 4e-67, 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|19702212|emb|CAD28795.1| RNA polymerase alpha subunit [Cuscuta reflexa] Length = 335 Score = 259 bits (662), Expect = 4e-67, Method: Composition-based stats. Identities = 84/330 (25%), Positives = 155/330 (46%), Gaps = 26/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + I PL +G A T+G A+RR L++ + G IT V+ Sbjct: 13 LQWKCVESRT-DSKRPYYGRFILSPLTKGQADTIGIAMRRALLAEIEGTRITRVKFANTS 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + +I +GPG VTA DI +E+++ Sbjct: 72 HEYSTIAGIQESVHEILMNLKEIVLRSNLYGTCDASISIKGPGYVTAEDIILPPHVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + + HGY H E+ G IDAL P++ ++++ S Sbjct: 132 STQHIAWLTEPINFFIGLKIERNHGYFIKTHANFED---GSYPIDALLMPVRNANHSINS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV-- 247 + L + I T+GS+T ++++ ASR L D F++ EE +++ + Sbjct: 189 YGNE---KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEENLHLEDADHTIP 245 Query: 248 --------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 K+ +++LE + NCL+ NI + DL+ ++ D++ Sbjct: 246 LSPFTVYDKVAKLRKNKKKLSLESIFIDQLEFPPKIYNCLKKSNIFTLLDLLNNSQEDLI 305 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ +F L ++K +LG +G ++ P Sbjct: 306 KIEHFH---LEDVKQILGILGKHFALDSPK 332 >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 = 87/329 (26%), Positives = 156/329 (47%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H N G+ IDA++ P+ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLRIEKNRGYII---HSPNNYQDGIFPIDAVFMPVPDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + + L + I T+G +T +++ ASR L D L F++ EE + + + Sbjct: 189 YG-SRNEIREVLFLEIWTNGGLTPREALYEASRNLIDLLIPFLHGEEQNIDGMNNRKGSN 247 Query: 250 LPFNPA----------------LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 +P P +++LEL R+ NCLR NI + DL+ + D++ Sbjct: 248 MPPFPLSHVLTDTRETKEKIAFQHIFIDQLELPPRTYNCLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ +FG++S+ ++ VL ++ P Sbjct: 308 RIEHFGKESVEQVLEVL---QKRFAIDPP 333 >gi|328813977|gb|AEB52104.1| DNA-directed RNA polymerase alpha chain [Lactobacillus helveticus] Length = 237 Score = 259 bits (662), Expect = 4e-67, 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|290489698|gb|ADD31233.1| RNA polymerase alpha subunit protein [Quercus nigra] Length = 331 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 81/319 (25%), Positives = 154/319 (48%), Gaps = 21/319 (6%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 13 LQWKCVES-RGDSNSLYYGRFILSPLMKGQADTIGIAVRRALLGEIEGTCITRAKSEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + +I +GP VTA DI +++++ Sbjct: 72 HEYSTIIGIQESVHEILMNLKEIVLRSNLYGISGASICVKGPRYVTAQDIILPPSVQIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL + +EL + + GY + +++ G IDA++ P++ ++++ S Sbjct: 132 NTQHIANLTEPINLYIELQIERDRGYRIKTTNNSQD---GSYPIDAVFMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + L + I T+GS+T ++++ ASR L + F++ EE K ++ + + Sbjct: 189 Y-VNGNEKQEILFLEIWTNGSLTPKEALHEASRNLIELFIPFLHAEEEKLHLENNQQKVT 247 Query: 250 LPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 LPF + +++ EL R NCL+G NI + DL+ ++ D + Sbjct: 248 LPFFTCHDRLAKLNKNSTEIALKSIFIDQSELPPRIYNCLKGSNIHTLLDLLNNSQTDFM 307 Query: 294 RMANFGRKSLVEIKGVLGT 312 +M +F R+ + I +L Sbjct: 308 KMKHFRREDIKHILDILEI 326 >gi|72534405|emb|CAH59039.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 221 Score = 259 bits (662), Expect = 5e-67, 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|290489684|gb|ADD31226.1| RNA polymerase alpha subunit protein [Euonymus americanus] Length = 338 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 82/331 (24%), Positives = 159/331 (48%), Gaps = 26/331 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 DNTQHIAILTEPIYFCIELQIERHRGYHIKTPN---NFQEGSFPIDAVFMPVRNTNYSIQ 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 SLP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 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|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 = 259 bits (661), Expect = 5e-67, Method: Composition-based stats. Identities = 78/322 (24%), Positives = 155/322 (48%), Gaps = 23/322 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 13 LQWKCVESKR-DSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 H+ S+I G+ E + +I++N+ I L+ + + I +GPG +TA DI +E+++ Sbjct: 72 HDYSNIAGIQESVHEILMNLNEIVLRSNLYGTRNALICVQGPGYITARDIILPPAVEIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + +EL + + GY + E+ IDA++ P++ ++++ S Sbjct: 132 NTQHIATLTEPIDLCIELKIERNRGYSLKMSNNFEDRS---YPIDAVFMPVENANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + + Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKEALHQASRNLINLFIPFLHVEEETFYLENNQHQVT 247 Query: 250 LPFNPALLK------------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 LPF P + +++LEL R NCL+ NI + DL+ ++ D Sbjct: 248 LPFFPFHNRLVNLRKKKKTKELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQED 307 Query: 292 MLRMANFGRKSLVEIKGVLGTM 313 ++++ +F + + +I +L Sbjct: 308 LIKIEHFHVEDVKKILDILEKK 329 >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 = 259 bits (661), Expect = 6e-67, Method: Composition-based stats. Identities = 81/319 (25%), Positives = 154/319 (48%), Gaps = 21/319 (6%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 13 LQWKCVES-RGDSNSLYYGRFILSPLMKGQADTIGIAVRRALLGEIEGTCITRAKSEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + +I +GP VTA DI +++++ Sbjct: 72 HEYSTIIGIQESVHEILMNLKEIVLRSNLYGISGASICVKGPRYVTAQDIILPPSVQIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL + +EL + + GY + +++ G IDA++ P++ ++++ S Sbjct: 132 NTQHIANLTEPINLYIELQIERDRGYRIKTTNNSQD---GSYPIDAVFMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + L + I T+GS+T ++++ ASR L + F++ EE K ++ + + Sbjct: 189 Y-VNGNEKQEILFLEIWTNGSLTPKEALHEASRNLIELFIPFLHAEEEKLHLENNQQKVT 247 Query: 250 LPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 LPF + +++ EL R NCL+G NI + DL+ ++ D + Sbjct: 248 LPFFTCHDRLAKLNKNSTEITLKSIFIDQSELPPRIYNCLKGSNIHTLLDLLNNSQTDFM 307 Query: 294 RMANFGRKSLVEIKGVLGT 312 +M +F R+ + I +L Sbjct: 308 KMKHFRREDIKHILDILEI 326 >gi|72534411|emb|CAH59042.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 224 Score = 259 bits (661), Expect = 6e-67, 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|228016968|gb|ACP51792.1| RNA polymerase alpha subunit [Pinus banksiana] Length = 335 Score = 258 bits (660), Expect = 7e-67, Method: Composition-based stats. Identities = 85/329 (25%), Positives = 155/329 (47%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + + L + I T+G +T +++ ASR L D F++ EE + + Sbjct: 189 YGSGNEI-REVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSN 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ L +++LEL + N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHLLTDTGETKEKIAFQLIFIDQLELPPKIYNSLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ NFG++S+ ++ VL + ++ P Sbjct: 308 RIKNFGKESVEQVLEVLQKL---FAIDPP 333 >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 = 258 bits (660), Expect = 7e-67, Method: Composition-based stats. Identities = 114/317 (35%), Positives = 174/317 (54%), 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 D +I ID ++SP+ KV++ Sbjct: 132 EVVNPSQYIATLNEDAAVYMELFAEIGKGFVPVSEMELEQDVE-MIYIDGIFSPVLKVNF 190 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI-NFEEPKKEVKED 244 E+ R G+ DYDKL + + T SI +++ A+ IL + + + Sbjct: 191 ISENVRVGKKTDYDKLILEVWTKKSIKPTEALLKATDILIKHFEVTTSSLNQVLDNSGIL 250 Query: 245 INVKS------------------LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQ 286 +N S + L +++EELELSVRS NCL+ + I +GDLI Sbjct: 251 VNSASIFEPEEPQPEEEPVEEPISEEDSVLSRRIEELELSVRSLNCLKRDKINTIGDLIS 310 Query: 287 RTEADMLRMANFGRKSL 303 RTEAD+L++ NFG KS+ Sbjct: 311 RTEADLLKIRNFGDKSM 327 >gi|72534416|emb|CAH59044.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 217 Score = 258 bits (660), Expect = 7e-67, Method: Composition-based stats. Identities = 104/217 (47%), Positives = 149/217 (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 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 ++++L+++I+ + L +F+N + K + + + Sbjct: 181 PLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEE 217 >gi|197131698|gb|ACH47367.1| RNA polymerase alpha subunit [Sarcocaulon vanderietiae] Length = 333 Score = 258 bits (660), Expect = 7e-67, Method: Composition-based stats. Identities = 79/310 (25%), Positives = 155/310 (50%), Gaps = 13/310 (4%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 + +E + I PL +G A +G A+RR L+ + G IT + + H Sbjct: 14 RWKCVES-RADDKRLYYGRFILSPLKKGQADIIGIAMRRALLVEIEGTCITHAKFAKIPH 72 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ G+ E + +I++N+K I L+ + + +I RGP VTA DI +++ Sbjct: 73 EYTTMAGIKESIYEILMNLKEIVLRSNLYGTRDASICVRGPRDVTAQDIILPPSTAIVDN 132 Query: 131 DHVICNLDVDAVVRMELTVSKGHGY---VPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 I L +EL + +G GY +P + +D I IDA++ P++ V++++ Sbjct: 133 TQHIVTLTEPIDFCVELKIERGRGYSIKIPMPTNPFHHDSGYPIPIDAVFMPVRNVNHSI 192 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK---KEVKED 244 S + G + L + I T+GS+T ++++ ASR L + F++ EE E ++ Sbjct: 193 YSYKRGSR---EILFLEIWTNGSLTPKEALREASRKLINLFIPFLHAEEENFYLLENNQN 249 Query: 245 INVKSLPFNPALLKKV---EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + LP + LK++ + +EL R NCL+ I + DL+ ++ D++++ +F ++ Sbjct: 250 QHTEELPIDSCGLKEIYIDQLVELPPRFYNCLKRSGIHTVMDLLDKSRDDLMKITHFRQE 309 Query: 302 SLVEIKGVLG 311 + + +L Sbjct: 310 DVERVMNILN 319 >gi|108792409|emb|CAJ33153.1| RNA polymerase alpha subunit [Lactobacillus murinus] Length = 222 Score = 258 bits (660), Expect = 7e-67, Method: Composition-based stats. Identities = 102/221 (46%), Positives = 151/221 (68%), 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 HGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 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|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 = 258 bits (660), Expect = 8e-67, Method: Composition-based stats. Identities = 111/296 (37%), Positives = 162/296 (54%), Gaps = 5/296 (1%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ +II Sbjct: 20 YGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDVVEII 79 Query: 87 LNIKGINLKMSGDSHKRVT--IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 LN+K + ++ S + VT + GP V A D V D+E++NPD I L+ + Sbjct: 80 LNLKELVVRFLNPSLQTVTLLLKAEGPKEVKARDFLPVADVEIMNPDLHIATLEEGGRLN 139 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 ME+ V +G GYVPA+ H ++ I I +DA++SP+++V++ VE R GQ D DKL++ Sbjct: 140 MEVRVDRGVGYVPAEKHGIKDR-INAIPVDAVFSPVRRVAFQVEDTRLGQRTDLDKLTLR 198 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFIN--FEEPKKEVKEDINVKSLPFNPALLKKVEE 262 I TDGS+T +++ A IL++ L F N + L +EE Sbjct: 199 IWTDGSVTPLEALNQAVEILREHLTYFSNPQAAAVAAPEEAKEPEAPPEQEEELDLPLEE 258 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 L LS R + L+ E I + L+ D+ + G +SL EIK L G L Sbjct: 259 LGLSTRVLHSLKEEGIESVRALLALNLKDLKNIPGIGERSLEEIKEALEKKGFTLK 314 >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 = 258 bits (659), Expect = 9e-67, Method: Composition-based stats. Identities = 118/335 (35%), Positives = 183/335 (54%), Gaps = 19/335 (5%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++ ++ P IE++ Q + + P RGF T+GN LRRVL+SS+ G AIT Sbjct: 3 VENFLKDFTIPEKIEFLK-SQGDGSYGKFTIYPFERGFGITIGNTLRRVLLSSIEGYAIT 61 Query: 62 AVQIDG---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG 112 A+++ V E I GV ED ++I NIK I+LK+ G+ ++ TI G Sbjct: 62 AMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKL-GEGEQKKTISFSVSG 120 Query: 113 ----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 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|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 = 258 bits (659), Expect = 1e-66, 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|47679557|gb|AAT36722.1| RNA polymerase alpha subunit [Navicula salinicola] Length = 298 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 92/280 (32%), Positives = 152/280 (54%), Gaps = 1/280 (0%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + L G T+GN LRRVL+ L G AI+AV+I GV HE S+I GV ED+ +I+ Sbjct: 20 HGQFLINSLRPGQGITIGNQLRRVLLGDLGGVAISAVRIAGVSHEFSTIPGVREDILEIL 79 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+KGI L + + +GP VVTA IQ ++E++NP+ I + ++ +E Sbjct: 80 LNLKGIVLTSKTQETQFGRLKIQGPCVVTADLIQLPPNLEIVNPNQYIATITTSNIIEIE 139 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 G GY A + ++ + +D ++ P+ KV + +E+ + ++L + I Sbjct: 140 FKFEYGIGYKFASQTFS-DEADNFLQLDTVFMPVPKVDFKIENVYDTANNITERLFIDIW 198 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+GSI D++ A++I+ D + IN ++ + + +S+ P +EEL+LS Sbjct: 199 TNGSIPPNDALESAAQIIIDLFTLLINNKDTNESSQLKTKARSISMEPYTNIAIEELQLS 258 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 VR+ NCL+ I +GDL+Q + + + NFGRKS E+ Sbjct: 259 VRAYNCLKKAQINTVGDLLQYSPEKLQELKNFGRKSADEV 298 >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 = 257 bits (658), Expect = 1e-66, Method: Composition-based stats. Identities = 105/228 (46%), Positives = 150/228 (65%) 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 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 ++++L+++I+ + L +F+N + K + + + L Sbjct: 181 EPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMT 228 >gi|119668343|emb|CAK95510.1| RNA polymerase alpha subunit [Lactobacillus paracasei subsp. paracasei] Length = 214 Score = 257 bits (658), Expect = 1e-66, 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|228017468|gb|ACP52284.1| RNA polymerase alpha subunit [Pinus merkusii] Length = 335 Score = 257 bits (658), Expect = 1e-66, Method: Composition-based stats. Identities = 83/329 (25%), Positives = 154/329 (46%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I + + +I+ GP VTA DI ++ ++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVFRSDSYGIREASIYIVGPRNVTAQDIILPPSVKTID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + + L + I T+G +T +++ ASR L D F++ EE + + Sbjct: 189 YGSGNEI-REVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSN 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ L +++LEL ++ N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHVLTDTGETKEKIAFQLIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ +FG++S+ ++ VL + ++ P Sbjct: 308 RIEHFGKESVEQVLEVLQKL---FAIDPP 333 >gi|12372|emb|CAA33618.1| unnamed protein product [Triticum aestivum] Length = 339 Score = 257 bits (658), Expect = 1e-66, Method: Composition-based stats. Identities = 90/328 (27%), Positives = 159/328 (48%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + ++GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKLEILFLEYGSNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NCL+ NI + DL+ +TE D+L Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >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 = 257 bits (658), Expect = 1e-66, Method: Composition-based stats. Identities = 95/299 (31%), Positives = 163/299 (54%), Gaps = 2/299 (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 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E+L+LSVRS NCL+ I + +L Q+TE +M+ + N G+KSL E+K + +GLF Sbjct: 260 IEDLDLSVRSYNCLKRAGIQTVDELTQKTEDEMMHVKNLGKKSLKEVKDKMYQLGLFFK 318 >gi|71056808|emb|CAH58959.1| DNA-directed RNA polymerase alpha chain [Enterococcus raffinosus] Length = 228 Score = 257 bits (658), Expect = 1e-66, Method: Composition-based stats. Identities = 105/228 (46%), Positives = 150/228 (65%) 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 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 +++++LA++IL + L +F+N + K + + + L Sbjct: 181 IAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMT 228 >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 = 257 bits (658), Expect = 1e-66, Method: Composition-based stats. Identities = 96/344 (27%), Positives = 161/344 (46%), Gaps = 29/344 (8%) Query: 1 MIQK----NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLR 56 MIQ+ + + L++ IE + P +G A+T+G A+RR L++ + Sbjct: 1 MIQEEIEISTRTLLRWRCIESRTESKRLL-YGRFAISPFRKGQANTVGIAMRRALLNEIE 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 RDIQGSSLIHVIDNTQYVATITGKISLDIELDIEKDRGYRMENSRKYRE---GFFPIDAV 176 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF-- 234 + PI+ +Y+V S + + L + I T+GS+T E ++ ASR L D +N Sbjct: 177 FMPIRNANYSVHSFG-SREKTKEILLLEIWTNGSLTPEKALYEASRNLIDLFIPSMNPGG 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|323925214|gb|ADY11800.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 240 Score = 257 bits (658), Expect = 1e-66, 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|150036812|emb|CAM98039.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 240 Score = 257 bits (658), Expect = 1e-66, 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|228016017|gb|ACP50856.1| RNA polymerase alpha subunit [Pinus resinosa] Length = 335 Score = 257 bits (658), Expect = 1e-66, Method: Composition-based stats. Identities = 83/329 (25%), Positives = 155/329 (47%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I + + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVFRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + + L + I T+G +T +++ ASR L D F++ EE + + Sbjct: 189 YGSGNEI-REVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSN 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ L +++LEL ++ N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHVLTDTGETKEKIAFQLIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ +FG++S+ ++ VL + ++ P Sbjct: 308 RIEHFGKESVEQVLEVLQKL---FAIDPP 333 >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 = 257 bits (657), Expect = 1e-66, Method: Composition-based stats. Identities = 84/329 (25%), Positives = 155/329 (47%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + + L + I T+G +T +++ ASR L D F++ EE + + Sbjct: 189 YGSGNEI-REVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSN 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ L +++LEL + N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHLLTDTGETKEKIAFQLIFIDQLELPPKIYNSLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ +FG++S+ ++ VL + ++ P Sbjct: 308 RIKHFGKESVEQVLEVLQKL---FAIDPP 333 >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 = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 84/330 (25%), Positives = 156/330 (47%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + + L + I T+G +T +++ ASR L D F++ EE + + Sbjct: 189 YGSGNEI-REVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSN 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ L +++LEL ++ N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHLLTDTGETKEKIAFQLIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 R+ +FG++S+ ++ VL + ++ P Sbjct: 308 RIEHFGKESVEQVLEVLQKL---FAIDPPK 334 >gi|161513440|emb|CAP16863.1| DNA-directed RNA polymerase subunit alpha [Pediococcus inopinatus] Length = 229 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 102/229 (44%), Positives = 153/229 (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 YVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 YV A ++ ++ 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|71056846|emb|CAH58978.1| DNA-directed RNA polymerase alpha chain [Enterococcus moraviensis] Length = 225 Score = 257 bits (657), Expect = 2e-66, 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|71056902|emb|CAH59008.1| DNA-directed RNA polymerase alpha chain [Enterococcus hirae] Length = 224 Score = 257 bits (657), Expect = 2e-66, 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|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 = 257 bits (657), Expect = 2e-66, 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|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 = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 120/265 (45%), 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 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++ + + + F+P LL+ V++LEL+VR Sbjct: 181 GTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVR 237 Query: 269 STNCLRGENIVYMGDLIQRTEADML 293 S NCL+ E I Y+GDL+QRTE ++L Sbjct: 238 SANCLKAEAIHYIGDLVQRTEVELL 262 >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 (657), Expect = 2e-66, Method: Composition-based stats. Identities = 76/320 (23%), Positives = 153/320 (47%), Gaps = 21/320 (6%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 13 LQWRCVES-RRDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 H+ S+I G+ E + +I++N+ I L+ + + I +GPG +TA DI +E+++ Sbjct: 72 HDYSNIVGIQESVHEILMNLNEIVLRSNLYGARNAIICVQGPGYITARDIILPPSVEIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + + L + + GY + E+ IDA++ P++ ++++ S Sbjct: 132 NTQHIATLTESIDLCIGLKIERNRGYSLKILNTFEDRS---YPIDAVFMPVQNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + + Sbjct: 189 YGNG-NGKQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHHVT 247 Query: 250 LPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 LP P + +++LEL R NCL+ NI + DL+ ++ D++ Sbjct: 248 LPLFPFHNRLVNLRKKKKELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLI 307 Query: 294 RMANFGRKSLVEIKGVLGTM 313 ++ +F + + +I +L Sbjct: 308 KIEHFHIEDVKKILDILEKK 327 >gi|161511767|emb|CAP16894.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 219 Score = 257 bits (656), Expect = 2e-66, 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|71056834|emb|CAH58972.1| DNA-directed RNA polymerase alpha chain [Enterococcus gilvus] Length = 227 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 105/227 (46%), Positives = 150/227 (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 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 +++++LA++IL + L +F+N + K + + + L Sbjct: 181 AQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMT 227 >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 = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 83/329 (25%), Positives = 155/329 (47%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLHKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I + + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVFRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + + L + I T+G +T +++ ASR L D F++ EE + + Sbjct: 189 YGSGNEI-REVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSN 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ L +++LEL ++ N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHVLTDTGETKEKIAFQLIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ +FG++S+ ++ VL + ++ P Sbjct: 308 RIEHFGKESVEQVLEVLQKL---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 (656), Expect = 2e-66, Method: Composition-based stats. Identities = 77/334 (23%), Positives = 153/334 (45%), Gaps = 25/334 (7%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLR 56 M+++ + ++ + ++ I PL +G A T+G A+RR L+ L Sbjct: 1 MVREKVKVSTSTRTRQWKCVESRTDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGELE 60 Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 G IT + + + HE S+I G+ E + +I++N+K I L+ + + I +GPG VTA Sbjct: 61 GTCITRAKSEKIPHEYSTIVGIQESVHEILMNLKEIVLRGNLYGTRNAFICAKGPGYVTA 120 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 DI +E+++ + +L + + L + + GY +N G IDA+ Sbjct: 121 QDIILPPSVEIVDNTQHVASLTEPIDLCIGLQIERNRGYGIKT---PKNFHDGSYPIDAV 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 + P++ ++++ + L + I T+GS+T ++++ ASR L D F++ +E Sbjct: 178 FMPVRNANHSIHCYGND-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIHFLHAKE 236 Query: 237 PKKEVKEDIN-----------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIV 279 ++ + + K +++ EL R NCL+ NI Sbjct: 237 ENLHLENNQHDVTLHFFFPFHYRLVKLTKKKKEIALKYIFIDQSELPPRIYNCLKKSNIH 296 Query: 280 YMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 + DL+ + D+++M +F + + +I G+L Sbjct: 297 TLLDLLNNSREDLMKMEHFRIEDVKQILGILEKK 330 >gi|150036758|emb|CAM98029.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis KCTC 3528] Length = 228 Score = 257 bits (656), Expect = 2e-66, 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|228015949|gb|ACP50789.1| RNA polymerase alpha subunit [Pinus ponderosa] gi|228016842|gb|ACP51668.1| RNA polymerase alpha subunit [Pinus attenuata] Length = 335 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 84/329 (25%), Positives = 156/329 (47%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + + L + I T+G +T +++ ASR L D F++ EE + + Sbjct: 189 YGSGNEI-REVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSN 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ L +++LEL ++ N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHLLTDTGETKEKIAFQLIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ +FG++S+ ++ VL + ++ P Sbjct: 308 RIEHFGKESVEQVLEVLQKL---FAIDPP 333 >gi|150036764|emb|CAM98032.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis] Length = 227 Score = 257 bits (656), Expect = 2e-66, 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 NGSIKPSDALSLGAKILAEHLNLFMDISPVAAEANVMVAAEP 222 >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 = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 113/324 (34%), Positives = 184/324 (56%), Gaps = 14/324 (4%) Query: 8 ELIKPNNIEYIVLGQ-EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI- 65 + I P N++ + +E + PL +G+A T+GN LRRVL+SS+ AIT V+ Sbjct: 2 DFIMPKNLKMEDHSETDEHYYARFVLSPLEKGYATTIGNTLRRVLLSSIPSLAITDVKFV 61 Query: 66 -DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTV 122 HE +I+GV ED+ +I+LN+K + LKM + +TI +G G + AGDI Sbjct: 62 RPEKYHEFDTIEGVKEDIIEILLNLKKVQLKMESYVNTPVELTIQHKGEGEIKAGDIVVP 121 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + V NP+ I L+ DA + +++ + G G+VPA D IG I +D +Y+PI K Sbjct: 122 AGVTVTNPNLHIATLNEDADIEIKMYATVGKGFVPAAERNERPD-IGWIVLDGVYNPILK 180 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL----GMFINFEEPK 238 V++ +E+ R G+ DYDKL + + T +I +++ A +I+ D F + E+ Sbjct: 181 VNWKIENVRVGKKTDYDKLILEVWTKKNIKPVEALKQAVKIINDHFKLIEESFGDMEDAG 240 Query: 239 ---KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + K +I + + N L KK++EL+LS+R+ NCL+ + I +GDL++R E ++L++ Sbjct: 241 IVIETTKAEIVEEKIDENEILNKKIDELDLSMRALNCLKRDKIETIGDLLERGEEELLKI 300 Query: 296 ANFGRKSLVEIKGVL-GTMGLFLG 318 NFG+KSL E+K L G+ G Sbjct: 301 KNFGQKSLDEVKEKLMEKFGISFG 324 >gi|119662395|emb|CAJ33187.1| RNA polymerase alpha subunit [Lactobacillus aviarius subsp. aviarius] Length = 231 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 100/231 (43%), Positives = 150/231 (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 SKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 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|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 = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 78/337 (23%), Positives = 156/337 (46%), Gaps = 31/337 (9%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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+ H +++ G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDLCIGLQIERNRGYLMKMPHNSQD---GSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G ++ L + I T+GS+T ++++ A R L D F++ EE ++++ + Sbjct: 188 SYGSG-NEKHEILFLEIWTNGSLTPKEALHEACRNLIDLFIPFLHKEEETSPLEDNHHTV 246 Query: 249 S--------------------LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 +++ EL + NCL+G N+ + DL+ ++ Sbjct: 247 PLSPLTFHDKADKLRKRKKEIKKKIALKSIFIDQSELP-KVYNCLKGSNLYTLLDLLNKS 305 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 + D+++M + + + I +L + LP+ Sbjct: 306 QEDLMKMEHLRLEDVNHILVILAR--KHFAIYLPNKK 340 >gi|323925205|gb|ADY11797.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 240 Score = 256 bits (655), Expect = 3e-66, 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|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 = 256 bits (655), Expect = 3e-66, 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|119662309|emb|CAJ33142.1| RNA polymerase alpha subunit [Lactobacillus gasseri] Length = 232 Score = 256 bits (655), 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|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 = 256 bits (654), Expect = 4e-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|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 = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 87/346 (25%), Positives = 157/346 (45%), Gaps = 30/346 (8%) Query: 2 IQKNW----QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRG 57 ++KN ++ I+ +E + + + P RG A T+G A+RR L+ + G Sbjct: 1 MRKNEMSTSKQAIQWKCLESKIESKRLH-YGRFLVSPFKRGQASTVGIAMRRALLQEIEG 59 Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTA 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 GDLSLPPGVEAIDNSQYIATITQPISLTIELEIEKDCGYRIENLAKS---GKGQFPIDAV 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 YMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 + DL+ + D+ ++ NFGRKS+ ++ L LPD Sbjct: 296 TIADLLNYSREDLSKLKNFGRKSVDQVSEALWD---RFAKELPDKK 338 >gi|323925187|gb|ADY11791.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] Length = 240 Score = 256 bits (654), Expect = 4e-66, 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|71056953|emb|CAH59037.1| DNA-directed RNA polymerase alpha chain [Enterococcus sp. LMG 14595] Length = 224 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 103/222 (46%), Positives = 148/222 (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 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 +++++LA++IL + L +F+N + K + + + Sbjct: 181 QEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 222 >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 = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 81/325 (24%), Positives = 162/325 (49%), Gaps = 26/325 (8%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RR+L+ + G IT + + + Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLMKGQADTIGIAMRRILLGEIEGTCITRAKSEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + + +I +GPG VTA DI +E+++ Sbjct: 72 HEYSTIVGIQESIHEILMNLKEIVLRSNLYGTRDASICFKGPGSVTAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL + MEL + + GY + +++ TIDA++ P++ ++++ S Sbjct: 132 NTQHIANLTEPINLCMELKLERNRGYRIKTLNNIQDES---YTIDAVFMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L D F++ EE K ++ + + Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKEALFEASRNLIDLFIPFLHAEEDKLNLENNQQKVT 247 Query: 250 LP------------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 LP +++LEL R NCL+ NI + +L+ +++ + Sbjct: 248 LPLFTFHDRFVKDKLRKNKKEIALKSIFIDQLELPPRIYNCLKKSNIHTLLELLNKSQEE 307 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLF 316 ++++ +F + ++K +L + + Sbjct: 308 LMKIEHFR---VEDVKNILNLLQIE 329 >gi|332144666|dbj|BAK19493.1| RNA polymerase alpha subunit [Lactobacillus sp. YIT 12364] Length = 239 Score = 256 bits (654), Expect = 4e-66, 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|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 = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 91/335 (27%), Positives = 167/335 (49%), Gaps = 25/335 (7%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++++ IE + + P +G A+T+G A+RR L++ + GA+IT V+I Sbjct: 10 TQILQWRCIES-RMESKRLLYGRFAISPFRKGQANTIGIAMRRALLNEIEGASITYVEIK 68 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 V HE S+I G+ E + DI++N+K I K ++ I GP +TA DI+ + I Sbjct: 69 KVKHEYSTITGIQESIHDILINLKEIVSKSDSYEPQKAYISIYGPKKITARDIKGTSSIR 128 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +++ I L + +EL + K HGY + + G+ TIDA++ PI+ V+Y+ Sbjct: 129 IIDNTQYIATLTEAISLDIELNIEKDHGYRIENLQKYRD---GIFTIDAVFMPIRNVNYS 185 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK---- 242 V S G+ + L + I TDGS+T ++++ ASR L D +N E + Sbjct: 186 VHSFESGEKT-KEILFLEIWTDGSLTPKEALYEASRSLIDLFIPLMNSERKEINSGMKKK 244 Query: 243 ------------EDINVKSLPFNPALLKK-VEELELSVRSTNCLRGENIVYMGDLIQRTE 289 ++++ + + A +++LEL R+ NCL+ N+ + D + +E Sbjct: 245 NELDIPCFPFRFISLDMEEMTKDIAFKHIFIDQLELPARAYNCLKRVNVHTIADSLNYSE 304 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 D++++ NFG+KS+ ++ L + ++L Sbjct: 305 DDLVKIKNFGKKSIEQV---LEALKKRFSIDLQKK 336 >gi|71056874|emb|CAH58992.1| DNA-directed RNA polymerase alpha chain [Enterococcus ratti] Length = 227 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 104/227 (45%), Positives = 150/227 (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 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 ++++L+++I+ + L +F+N + K + + + L Sbjct: 181 PLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMT 227 >gi|71056943|emb|CAH59030.1| DNA-directed RNA polymerase alpha chain [Enterococcus hirae] Length = 225 Score = 256 bits (653), Expect = 4e-66, Method: Composition-based stats. Identities = 103/223 (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 +++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 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 ++++L+++I+ + L +F+N + K + + + Sbjct: 181 PLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 223 >gi|119668287|emb|CAK95499.1| RNA polymerase alpha subunit [Lactobacillus brevis] Length = 228 Score = 256 bits (653), Expect = 5e-66, Method: Composition-based stats. Identities = 101/227 (44%), Positives = 153/227 (67%), 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 KGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 KG GYV A ++T + 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|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 = 256 bits (653), Expect = 5e-66, Method: Composition-based stats. Identities = 76/321 (23%), Positives = 153/321 (47%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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 DNTQHIATLTEPINLCIGLKIERNRGYSLKMSNNFEDRS---YPIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNG-NEKQEILFIEIWTNGSLTPKEALYEASRNLINLFIPFLHVEEETFYLENNQHQV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP P K +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPVFPFHNKLVNLRQKKKELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTM 313 ++M +F + + ++ +L Sbjct: 307 IKMEHFHIEDVKKLLDILEKK 327 >gi|71056904|emb|CAH59009.1| DNA-directed RNA polymerase alpha chain [Enterococcus durans] Length = 226 Score = 256 bits (653), Expect = 5e-66, 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|47679553|gb|AAT36720.1| RNA polymerase alpha subunit [Thalassionema frauenfeldii] Length = 298 Score = 256 bits (653), Expect = 5e-66, Method: Composition-based stats. Identities = 94/296 (31%), Positives = 159/296 (53%), Gaps = 4/296 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KP E + G + + L G T+GN LRRVL+ + G AI+AV+I G+ H Sbjct: 7 KPLKSEKLQSG---GYYGQFLIDKLKLGQGITIGNQLRRVLLGEIGGTAISAVRIVGIRH 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 NHYIATISTSINLELEFKIEHGIGYKLASQL-FNDENKNFLQIDSIFMPVQKVNFKIENL 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|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 = 256 bits (653), Expect = 5e-66, Method: Composition-based stats. Identities = 120/265 (45%), Positives = 178/265 (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++ + + + F+P LL+ V++LEL+VR Sbjct: 181 GTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVR 237 Query: 269 STNCLRGENIVYMGDLIQRTEADML 293 S NCL+ E I Y+GDL+QRTE ++L Sbjct: 238 SANCLKAEAIHYIGDLVQRTEVELL 262 >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 = 255 bits (652), Expect = 6e-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|150036790|emb|CAM98272.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 223 Score = 255 bits (652), Expect = 6e-66, 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|269784296|emb|CBH50793.1| alpha subunit of RNA polymerase [Vibrio sp. Cmj 13.4] Length = 270 Score = 255 bits (652), Expect = 7e-66, Method: Composition-based stats. Identities = 119/273 (43%), Positives = 178/273 (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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 FVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEV 237 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++L+ N G+KSL EIK VL + GL LGM L + Sbjct: 238 ELLKTPNLGKKSLTEIKDVLASRGLSLGMRLEN 270 >gi|119668299|emb|CAK95504.1| RNA polymerase alpha subunit [Lactobacillus curvatus] Length = 212 Score = 255 bits (652), Expect = 7e-66, Method: Composition-based stats. Identities = 91/212 (42%), Positives = 145/212 (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 ALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 +LA++I+ + L +F++ + K + + + Sbjct: 181 SLAAKIMTEHLAIFVDLTDEAKNAEIMVEKEE 212 >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 = 255 bits (652), Expect = 7e-66, Method: Composition-based stats. Identities = 89/328 (27%), Positives = 158/328 (48%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +++LEL+ R+ NC + + DL+ +TE D+L Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCXKRXXXXTLLDLLSKTEEDLL 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + + K + T+ L ++L Sbjct: 308 RIDSFR---MEDRKHIWDTLEKHLPIDL 332 >gi|71056832|emb|CAH58971.1| DNA-directed RNA polymerase alpha chain [Enterococcus dispar] Length = 226 Score = 255 bits (651), Expect = 7e-66, 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|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 = 255 bits (651), Expect = 8e-66, Method: Composition-based stats. Identities = 84/329 (25%), Positives = 156/329 (47%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIKESVHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H + N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK---EVKEDIN 246 G + + L + I T+G +T +++ ASR L D F++ EE K+ N Sbjct: 189 YGNGNEI-QEVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNKKKGSN 247 Query: 247 V-------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 + ++ +++LEL ++ N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHVLTDTGETKEKIAFQHIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ + G++S+ ++ VL ++ P Sbjct: 308 RIEHLGKESVEQVLEVLR---KRFAIDPP 333 >gi|228017724|gb|ACP52536.1| RNA polymerase alpha subunit [Pinus pinaster] Length = 335 Score = 255 bits (651), Expect = 8e-66, Method: Composition-based stats. Identities = 83/329 (25%), Positives = 154/329 (46%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I + + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVFRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + + L + I T+G +T +++ ASR L D F++ EE + + Sbjct: 189 YGSGNEI-REVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSN 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ L +++LEL ++ N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHVLTDTGETKEKIAFQLIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ FG++S+ ++ VL + ++ P Sbjct: 308 RIERFGKESVEQVLEVLQKL---FAIDPP 333 >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 = 255 bits (651), Expect = 9e-66, Method: Composition-based stats. Identities = 92/331 (27%), Positives = 164/331 (49%), Gaps = 25/331 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + + + P +G A+T+G A+RR L++ + GA+IT +I V Sbjct: 13 LQWKCIESKIESKRLL-YSRFAISPFRKGQANTVGIAMRRALLNEIEGASITYAKIKKVK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I LK ++ I GP +TA DI+ + I+++ Sbjct: 72 HEYSTIIGLQESIHDILINLKEIVLKSESFEPQKAYISVLGPKKITAQDIKGPSCIKIMI 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L+ D ++ +EL + K GY + GL +DA++ PI+ +Y+V S Sbjct: 132 IAQYIATLNKDILLEIELNIEKDRGYRIENLQK---YQEGLFPVDAVFMPIRNANYSVHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + + + L + I TDGS+T ++++ ASR L D IN E+ +K + +S Sbjct: 189 FESEKKI-KEILFLEIWTDGSLTPKEALYEASRNLIDLFIPLINSEKKEKNFGIEKTNES 247 Query: 250 LPFN-----------------PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +++LEL R+ NCL+ N+ + DL+ +E D+ Sbjct: 248 NMSYFPFQSVSLDIEKMTKDVAFKHIFIDQLELPARAYNCLKKVNVHTIADLLHYSEDDL 307 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ NFG+KS+ ++ L + + LP Sbjct: 308 IKIKNFGKKSVEQV---LEALKKRFSIQLPK 335 >gi|165910441|gb|ABY73975.1| RNA polymerase alpha subunit [Cuscuta nitida] Length = 339 Score = 255 bits (651), Expect = 9e-66, Method: Composition-based stats. Identities = 79/335 (23%), Positives = 154/335 (45%), Gaps = 25/335 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +K +E + + I PL +G A T+ A+RR L+S + G IT V Sbjct: 13 LKWKCVESRT-DSKRLSYGRFILSPLMKGQADTIAIAMRRALLSEIEGTCITRVTFQNAS 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S I G+ E + DI++N+K I LK + +++ +GP VTA DI +E+++ Sbjct: 72 HEYSIIAGIQESVHDILMNLKEIVLKSNLYGTCDASLYIKGPRYVTAQDIILPPHVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I +L + + L + + GY+ H +N+ ++DA++ P+ V++++ S Sbjct: 132 STQHIASLTEPINLCIGLKIERNRGYLIKAHPPFQNET---YSLDAVFMPVLNVNHSIYS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV-- 247 + L + I T+GS+T ++++ A++ L D F+ EE +++ + Sbjct: 189 YGNE---KKEILFLEIWTNGSLTPKEALHEAAQNLMDLFIPFLQMEEENLNLEDAEHQIP 245 Query: 248 -------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 +++L + NCL NI + DL+ +++ D+L+ Sbjct: 246 FSPFTFYDKVSKLIKKKKRSLKSIFIDQLAFPPKIYNCLTKSNIFTLLDLLNKSQEDLLK 305 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 + +F + ++K +LG + ++LP E Sbjct: 306 IEHFH---IEDVKQILGILEKNFALDLPKKKGEPF 337 >gi|119662313|emb|CAJ33144.1| RNA polymerase alpha subunit [Lactobacillus hilgardii] Length = 227 Score = 255 bits (651), Expect = 9e-66, Method: Composition-based stats. Identities = 105/226 (46%), Positives = 152/226 (67%), 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 TVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 T ++G GYV A ++ 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|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 = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 82/331 (24%), Positives = 158/331 (47%), Gaps = 25/331 (7%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + ++ +E + + I PL +G A T+G A+RR+L+ + G IT + + Sbjct: 10 TKTLQWKCVES-RVDSKRLYYGRFILSPLLKGQADTIGIAMRRILLGEIDGTCITRAKSE 68 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 + HE S++ G+ E + +I++N+K I L+ + + +I +GPG VTA DI +E Sbjct: 69 KIPHEYSTVVGIQESIHEILMNLKEIVLRSNLYGTREASISFKGPGYVTAQDIILPPSVE 128 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 V++ I NL + +EL + + GY + ++ G TIDA++ P++ +Y+ Sbjct: 129 VIDKTQHIANLTEPINLCIELQIERKRGYRIKTLNNIQD---GSYTIDAVFMPVRNANYS 185 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 + S D L + I T+GS T ++++ ASR L D F++ EE ++ + + Sbjct: 186 IHSY-VNGNEKQDILFLEIWTNGSFTPKEALYEASRNLIDLFIPFLHAEEENFNLENNQH 244 Query: 247 VKSLPFNPALLKK--------------------VEELELSVRSTNCLRGENIVYMGDLIQ 286 + P +++LEL R NCL+ NI + + + Sbjct: 245 KMTWPLFTFHDHDRFVKDKLTNTQKEITLKSIFIDQLELPPRIYNCLKKSNIHTVFEFLN 304 Query: 287 RTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +++ D++++ +F + L I +L F+ Sbjct: 305 KSQEDLMKIEHFRVEDLKNILNILKIENHFV 335 >gi|153012181|ref|YP_001381697.1| RNA polymerase alpha subunit [Medicago truncatula] Length = 333 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 82/325 (25%), Positives = 161/325 (49%), Gaps = 26/325 (8%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RR+L+ + G IT + + + Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTIGIAMRRILLGEIEGTCITRAKSEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I LK + + +I +GPG VTA DI +E+++ Sbjct: 72 HEYSTIVGIQESIHEILMNLKEIVLKSNLYGTRDASICFKGPGYVTAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL + +EL + + GY + ++ G TIDA++ P++ ++++ S Sbjct: 132 NTQHIANLTEPINLCIELQIERKRGYRIKTLNNIQD---GSYTIDAVFMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + L + I T+GS+T ++++ ASR L D F++ EE + + + + Sbjct: 189 Y-VNGNEKQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEENLNFENNQHKVT 247 Query: 250 LP------------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 LP +++LELS R NCL+ NI + +L+ +++ D Sbjct: 248 LPLFTFHDRLLKDKLRKNKKEIALKSIFIDQLELSPRIYNCLKKSNIHTLLELLNKSQED 307 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLF 316 ++++ +F + ++K +L + + Sbjct: 308 LMKIEHFR---VEDVKNILNILQIE 329 >gi|228016331|gb|ACP51165.1| RNA polymerase alpha subunit [Pinus taeda] Length = 335 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 84/329 (25%), Positives = 154/329 (46%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKXIVLRSDSYGIXEASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + + L + I T+G +T +++ ASR L D F++ EE + + Sbjct: 189 YGSGNEI-REVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSN 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ L +++LEL + N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHLLTDTGETKEKIAFQLIFIDQLELPPKIYNSLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ +FG++S+ ++ VL + ++ P Sbjct: 308 RIEHFGKESVEQVLEVLQKL---FAIDPP 333 >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 = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 76/322 (23%), Positives = 154/322 (47%), Gaps = 24/322 (7%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 +E + + I PL +G A T+G +RR+L+ + G IT + + + HE Sbjct: 15 WKCVES-RVDSKRLYYGRFILSPLMKGQADTIGITMRRILLGEIEGTCITRAKSEKIPHE 73 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 S+I G+ E + +I++N+K I L+ + + +I +GPG VTA DI +E+++ Sbjct: 74 YSTIVGIQESIHEILMNLKQIVLRSNLYGTRDASICFKGPGYVTARDIILPPSVEIVDNT 133 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 I NL + +EL + + GY ++ I +D ++ P+ +Y++ S Sbjct: 134 QHIANLTEPINLCIELQIERARGYRKKTIDNIQD-GSYTIDVDPVFMPVIHANYSIHSYL 192 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 + L + I T+GS+T ++++ A+R L D F++ EE + + + +LP Sbjct: 193 N-ANEKQEILFLEIWTNGSLTPKEALYEAARNLIDLFIPFLHAEEENFHFENNQHKVTLP 251 Query: 252 FNPALLK------------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 + +++LEL R NCL+ +I + L+ +++ D++ Sbjct: 252 LFAFHDRLVKDKLRKNKKQIELKSVFIDQLELPPRIYNCLKKSDIHTLYQLLNKSQEDLM 311 Query: 294 RMANFGRKSLVEIKGVLGTMGL 315 ++ +F S+ ++K +L + + Sbjct: 312 KIEDF---SVEDVKNILNILQI 330 >gi|190411117|gb|ACE78313.1| RpoA [Vibrio parahaemolyticus] gi|190411119|gb|ACE78314.1| RpoA [Vibrio parahaemolyticus] Length = 263 Score = 254 bits (649), Expect = 1e-65, Method: Composition-based stats. Identities = 117/266 (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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y Sbjct: 181 ATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHY 237 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEI 306 +GDL+QRTE ++L+ N G+KSL EI Sbjct: 238 IGDLVQRTEVELLKTPNLGKKSLTEI 263 >gi|71056951|emb|CAH59036.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] Length = 219 Score = 254 bits (649), Expect = 1e-65, 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|119668365|emb|CAK95514.1| RNA polymerase alpha subunit [Lactobacillus rhamnosus] Length = 205 Score = 254 bits (649), Expect = 1e-65, 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|161513432|emb|CAP16859.1| DNA-directed RNA polymerase subunit alpha [Pediococcus parvulus] Length = 224 Score = 254 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 98/222 (44%), Positives = 149/222 (67%), Gaps = 2/222 (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 VPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 V A ++ ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ Sbjct: 121 VSADENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSISP 180 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 ++ +L+++IL + L +F+N + ++ + + + Sbjct: 181 SEATSLSAKILTEHLALFVNLTDEAQDAEIMVEKEETNKEKM 222 >gi|57115498|gb|AAW33058.1| RNA polymerase alpha subunit [Plantago rugelii] Length = 308 Score = 254 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 81/315 (25%), Positives = 150/315 (47%), Gaps = 23/315 (7%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 +E + + PL +G A T+G A+RR L+ ++G IT V+ + V HE Sbjct: 1 KCVESRTDSKRLH-YGRFVLSPLMKGQADTIGIAMRRALLGEIQGTCITRVKSENVPHEY 59 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 S+I G+ E + +I++N+K I L+ + +I RGPG VTA DI +E+ + Sbjct: 60 STIAGIQESVPEILMNLKEIVLRSNLYGTCGASICARGPGYVTAQDIILPPCVEIGDNTQ 119 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L + L + + GY+ H ++ IDA++ P++ V++++ S Sbjct: 120 HIARLTEPISFCIGLEIERSRGYLIKSPHIFQDRS---YPIDAVFMPVRNVNHSIHSYGN 176 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV----- 247 + L + I T+GS+T ++++ ASR L D F++ EE ++ + + Sbjct: 177 E---KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHKEEENLPLENNQDTVSFSP 233 Query: 248 -----------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 K+ +++ ELS R NCL+ NI + D + +++ D+++M Sbjct: 234 FSFHEKLDQFRKNKKKKALQSIFIDQFELSPRVYNCLKKSNIYTLFDFLTKSQEDLMKME 293 Query: 297 NFGRKSLVEIKGVLG 311 +F + L + G+L Sbjct: 294 HFRLEDLKQTLGILE 308 >gi|108792407|emb|CAJ33136.1| RNA polymerase alpha subunit [Lactobacillus acidipiscis] Length = 224 Score = 254 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 102/224 (45%), Positives = 151/224 (67%), 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 GYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 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|328813985|gb|AEB52108.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 228 Score = 254 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 104/228 (45%), Positives = 153/228 (67%), 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 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 K + I +GP VTAGDI D+EVLNPD IC + A M +T + G GYV A+ Sbjct: 61 ETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLPICTVADGAHFHMRMTANTGRGYVSAE 120 Query: 160 HHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 ++ ++ 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|150187102|emb|CAK30171.1| RNA polymerase alpha subunit [Streptococcus agalactiae] Length = 219 Score = 254 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 94/219 (42%), Positives = 148/219 (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 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 +I ED++ L++R+L + L +F + E K + + Sbjct: 181 TIIPEDALGLSARVLIEHLNLFTDLTEVAKATEVMKETE 219 >gi|150036766|emb|CAM98264.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides KCTC 3652] Length = 229 Score = 254 bits (648), Expect = 2e-65, 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|190411121|gb|ACE78315.1| RpoA [Vibrio parahaemolyticus] Length = 263 Score = 254 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 117/266 (43%), Positives = 177/266 (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++ + + + F+P LL+ V +LEL+VRS NCL+ E I Y Sbjct: 181 ATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVNDLELTVRSANCLKAEAIHY 237 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEI 306 +GDL+QRTE ++L+ N G+KSL EI Sbjct: 238 IGDLVQRTEVELLKTPNLGKKSLTEI 263 >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|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 = 253 bits (647), Expect = 2e-65, Method: Composition-based stats. Identities = 80/327 (24%), Positives = 156/327 (47%), Gaps = 24/327 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RR+L+ + G IT V+ + + Sbjct: 13 LQWKCVES-RIDSKRLYYGRFILSPLMKGQADTIGIAIRRILLGEIEGTCITCVKSEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I +N+K I LK + + +I +GPG +TA DI +E+++ Sbjct: 72 HEYSTIIGIEESVHEIFMNLKEIVLKSNMYGIQDASISFKGPGYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I N+ + +EL + + GY ++ G IDA + P++ V+Y++ S Sbjct: 132 NRQHIANVTEPVHLCIELKIERNRGYRIKTLKNFQD---GSYDIDARFMPVRNVNYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + L + I T+GS+T ++++ AS+ L + F++ EE ++++ + + Sbjct: 189 Y-VNGNEKQEILFLEIWTNGSLTPKEALYEASQNLIELFIPFLHAEEDNFHLEKNQHKVT 247 Query: 250 LP------------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 LP +++LEL R NCL+ NI + +L+ ++ D Sbjct: 248 LPLFTFHDILVKDKLRKNQKEIALKSIFIDQLELPPRIYNCLKRSNIHTLLELLSNSQED 307 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLG 318 +L+ +F + I +L + + Sbjct: 308 LLKFEHFHVEDGKSILDILK-IQKYFA 333 >gi|289524818|emb|CBJ94465.1| alpha subunit of RNA polymerase [Vibrio sp. Rd 16.2] Length = 267 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 118/270 (43%), Positives = 177/270 (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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 ++L+ N G+KSL EIK VL + GL LGM Sbjct: 238 VELLKTPNLGKKSLTEIKDVLASRGLSLGM 267 >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 = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 110/303 (36%), Positives = 171/303 (56%), Gaps = 5/303 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + ++ EPL RG+ +T+GNALRRVL+SS+ G+AI V+IDGVL+E S I+GV Sbjct: 14 TEEKIDQYSAKYTLEPLYRGYGNTIGNALRRVLLSSIPGSAIKGVRIDGVLNEFSMIEGV 73 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E +TDI+LNIK I +++ KR+ + GP V+TA DI I ++NP+ VI + Sbjct: 74 KEAVTDIVLNIKEIVVELDEPVEKRMKLSVVGPKVITAADIVPEAGITIVNPEQVIATIT 133 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + ME V G G+V + T + +DA+Y+PI+KVSY VE G+V +Y Sbjct: 134 TKKAIDMEFIVDSGEGFVVSDEINTSGWEADFLAVDAIYTPIRKVSYQVEDTMVGRVTNY 193 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP---- 254 DKL++T+ TDGSI D+++ A ++ F N + + + ++ N Sbjct: 194 DKLTLTVTTDGSIDIHDALSYAVELINIHTKPFANIGTAMAKFRSEEELELEVSNDSYPS 253 Query: 255 -ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 ++EEL L++RS NCL+ +I +G+LI+ T+ D+ ++ N G KS EI + Sbjct: 254 LVEDTRIEELGLTIRSYNCLKKVDINTVGELIRLTKEDLKKIKNLGNKSAKEIIEKMKEY 313 Query: 314 GLF 316 G Sbjct: 314 GYE 316 >gi|228016715|gb|ACP51543.1| RNA polymerase alpha subunit [Pinus aristata] Length = 335 Score = 253 bits (646), Expect = 3e-65, Method: Composition-based stats. Identities = 84/329 (25%), Positives = 157/329 (47%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H + N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK---EVKEDIN 246 G + + L + I T+G +T +++ ASR L D F++ EE K+ N Sbjct: 189 YGSGNEI-QEVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNKKKGSN 247 Query: 247 V-------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 + ++ +++LEL ++ N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHVLTDTGETKEKIAFQHIFIDQLELPPQTYNSLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ + G++S+ ++ VL + ++ P Sbjct: 308 RIEHLGKESVEQVLEVLRKL---FAIDPP 333 >gi|58761465|gb|AAW82426.1| RNA polymerase alpha subunit [Takakia lepidozioides] Length = 382 Score = 253 bits (646), Expect = 3e-65, Method: Composition-based stats. Identities = 79/331 (23%), Positives = 151/331 (45%), Gaps = 25/331 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + + P G A T+G A+RR + + G IT + V Sbjct: 13 LQWRCVES-RVDSARLHYSRFAIPPFRSGQASTVGIAMRRASLGEVEGTCITCAESKRVT 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + D+ +N I L+ ++ I GP VTA DI + +++++ Sbjct: 72 HEYSTILGIQESVHDVSINSGEIVLRSDSYETQKAFISILGPKKVTAQDIISPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 + +EL + K GY ++ + G DA++ PI+ +Y+V S Sbjct: 132 TTQYTATVTKAIHSDIELKIEKDFGYRIEDPIKSAD---GNSPADAVFMPIRNANYSVHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP------KKEVKE 243 G + L + I T+GS+T ++++ ASR L + F++ E+ K + Sbjct: 189 FENGNET-QEILFLEIWTNGSVTPKEALYEASRSLINLFIPFLHAEKKEFIYGLKNTYES 247 Query: 244 DINVKSLPFNPALLKK-----------VEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +++ S P A + + +++LEL R+ NC + N + D + ++ D+ Sbjct: 248 NMSYFSSPSLSADIDEMTKGVTFKHIFIDQLELPARAYNCPKRVNAHTISDPLNYSQDDL 307 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ NFG+KS+ ++ L +NLP Sbjct: 308 MKIKNFGKKSVEQV---LEASQKRFSINLPK 335 >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 = 253 bits (646), Expect = 3e-65, Method: Composition-based stats. Identities = 84/329 (25%), Positives = 156/329 (47%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H + N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK---EVKEDIN 246 G + + L + I T+G +T +++ ASR L D F++ EE K+ N Sbjct: 189 YGSGNEI-QEVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNKKKGSN 247 Query: 247 V-------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 + ++ +++LEL ++ N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHVLTDTGETKEKIAFQHIFIDQLELPPQTYNSLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ + G++S+ ++ VL ++ P Sbjct: 308 RIEHLGKESVEQVLEVLR---KRFAIDPP 333 >gi|154424845|emb|CAL18525.1| RNA polymerase alpha subunit [Streptococcus pyogenes] Length = 219 Score = 253 bits (646), Expect = 3e-65, Method: Composition-based stats. Identities = 96/219 (43%), Positives = 148/219 (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 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 +I ED++ L++R+L + L +F + E K + + Sbjct: 181 TIIPEDALGLSARVLIEHLNLFTDLTEVAKATEVMKETE 219 >gi|332144696|dbj|BAK19508.1| RNA polymerase alpha subunit [Lactobacillus rapi] Length = 230 Score = 253 bits (646), Expect = 3e-65, Method: Composition-based stats. Identities = 106/230 (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 TVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 T +KG GYV A ++ 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|317016853|gb|ADU85967.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 228 Score = 253 bits (646), Expect = 3e-65, Method: Composition-based stats. Identities = 92/228 (40%), Positives = 141/228 (61%), Gaps = 2/228 (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 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 D+++L ++IL + L +F++ E + + + + + Sbjct: 181 KPSDALSLGAKILAEHLNLFMDISPVAAEASVMVEAEPVAVSASDSAP 228 >gi|47679551|gb|AAT36719.1| RNA polymerase alpha subunit [Thalassiosira sp. Cleve BA153110] Length = 300 Score = 252 bits (645), Expect = 4e-65, Method: Composition-based stats. Identities = 92/280 (32%), Positives = 149/280 (53%), Gaps = 1/280 (0%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + + L G T+GN LRRVL+ L+G AIT V+I GV E S I GV ED+ +I+ Sbjct: 22 YGQFLIDSLSSGQGITIGNLLRRVLLGDLKGTAITGVRIAGVKDEFSLIPGVREDILEIL 81 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+KGI LK + + + GP V+TA IQ D+E++NP+H I L ++ +E Sbjct: 82 LNLKGIVLKSKNSTRQFARLRLHGPAVITASSIQLPPDVEIINPNHYIATLSSSHILEIE 141 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 + GH Y A + + I DA++ P +K + VE+ + +++ + + Sbjct: 142 FKIESGHDYRLANETFS-DKLSNFIETDAIFMPDQKDDFKVENVYDNSNNVKERVFLDVW 200 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+GSI+ E ++ AS ++ D + +++ ++ P +P +EEL+LS Sbjct: 201 TNGSISPEQAIFSASNLIIDLFKSITEHKINQEKESIKEKTQTKPVDPYTHIAIEELQLS 260 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 VR NCL+ I +GDL+ + +L + NFGRKS E+ Sbjct: 261 VRPYNCLKRAQINTIGDLLDYSPEKLLELKNFGRKSADEV 300 >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 = 252 bits (645), Expect = 4e-65, Method: Composition-based stats. Identities = 77/308 (25%), Positives = 146/308 (47%), Gaps = 11/308 (3%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 + +E + I PL +G A +G A+RR L+ + G IT + + H Sbjct: 14 RWKCVES-RADDKRLFYGRFILSPLKKGQADIIGIAMRRALLGEIEGTCITHAKFAKIPH 72 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E ++I G+ E + +I++N+K I L+ + + +I RGP VTA DI +++ Sbjct: 73 EYTTIAGIKESIYEILMNLKEIVLRSNLYGTRDASICVRGPRDVTAQDIILPPSTAIVDN 132 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL-ITIDALYSPIKKVSYTVES 189 I L + L + +G GY T+ IDA++ P++ V++++ S Sbjct: 133 TQHIFTLTEPIDFCVGLKIERGRGYSIKIPMPTDLFHHDSAYPIDAVFMPVRNVNHSIHS 192 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L + L F++ EE + E+ + Sbjct: 193 YERGS---HEMLFLEIWTNGSLTPKEALREASRKLINLLMPFLHAEEENFYLVENNQNQD 249 Query: 250 LPFNPALLKKVEEL------ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 P L ++++ EL R NCL+ I + DL+ + D+++M +F ++ + Sbjct: 250 TEELPIDLCGLKDIYIDQLVELPPRFYNCLKRSGIHTVMDLLDKNRDDLMKMTHFRQEDI 309 Query: 304 VEIKGVLG 311 + +L Sbjct: 310 EGVMNILN 317 >gi|332144694|dbj|BAK19507.1| RNA polymerase alpha subunit [Lactobacillus parafarraginis] Length = 236 Score = 252 bits (645), Expect = 4e-65, Method: Composition-based stats. Identities = 110/236 (46%), 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 VSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +KG GYV A ++ 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|300431316|gb|ADK12621.1| RNA polymerase alpha subunit [Lorenzochloa erectifolia] Length = 339 Score = 252 bits (645), Expect = 4e-65, Method: Composition-based stats. Identities = 85/328 (25%), Positives = 149/328 (45%), Gaps = 24/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDITLPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + GY + ++ G IDA+ P++ V+Y++ S Sbjct: 132 TAQPIANLTEPIDFCIELQIKRDRGYQTELRNNYQD---GSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F+ + N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLXXXXXXXXXXXNKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 P P +LEL R+ NCL+ I + DL+ +TE ++ Sbjct: 248 PPLFTFQKKLTNLXKNKKGIPXXCIFXXQLELPSRTYNCLKRAXIHTLLDLLSKTEEXLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 + +F K + T+ L ++L Sbjct: 308 XIDSFRX---EXGKQIWDTLEKHLPIDL 332 >gi|72534407|emb|CAH59040.1| DNA-directed RNA polymerase alpha chain [Enterococcus gallinarum] Length = 219 Score = 252 bits (645), Expect = 4e-65, 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|150187156|emb|CAK30183.1| RNA polymerase alpha subunit [Streptococcus halichoeri] Length = 223 Score = 252 bits (645), Expect = 4e-65, Method: Composition-based stats. Identities = 95/220 (43%), Positives = 148/220 (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 + + ++ +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 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 +I ED++ L++R+L + L +F + E K ++ Sbjct: 181 TIIPEDALGLSARVLIEHLNLFTDLTEVAKATDVMKETET 220 >gi|228017530|gb|ACP52345.1| RNA polymerase alpha subunit [Pinus monticola] Length = 335 Score = 252 bits (645), Expect = 4e-65, Method: Composition-based stats. Identities = 80/329 (24%), Positives = 153/329 (46%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H + N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITFDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + + L + I T+G +T +++ ASR L D F++ EE + + Sbjct: 189 YGSGNEI-QEVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSN 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ +++LEL ++ N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHVLTDTGETKEKIAFKHIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 ++ + ++S+ ++ VL ++ P Sbjct: 308 KIEHLEKESVEQVLEVLR---KRFAIDPP 333 >gi|119662325|emb|CAJ33150.1| RNA polymerase alpha subunit [Lactobacillus intestinalis] Length = 211 Score = 252 bits (645), Expect = 4e-65, Method: Composition-based stats. Identities = 97/210 (46%), Positives = 141/210 (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 SITGEDSVALASRILQDQLGMFINFEEPKK 239 SI D+++ A++IL + +F + + K Sbjct: 181 SIKPNDALSFAAKILVEHFKVFESADANTK 210 >gi|47679559|gb|AAT36723.1| RNA polymerase alpha subunit [Phaeodactylum sp. Bohlin BA153065] Length = 298 Score = 252 bits (645), Expect = 4e-65, Method: Composition-based stats. Identities = 90/280 (32%), Positives = 150/280 (53%), Gaps = 1/280 (0%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + L G T+GN LRRVL+ L G AI+AV+I G+ HE S+I GV ED+ +I+ Sbjct: 20 HGQFLINSLNPGQGITIGNQLRRVLLGDLGGVAISAVRIAGITHEFSTIPGVREDILEIL 79 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+KGI + + +GP VVTA IQ ++E++NP+H I + ++ +E Sbjct: 80 LNLKGIICTSQIQDTQFGHLKVQGPSVVTADLIQLPPEVEIINPNHYIATITTSNILEIE 139 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 G GY A D + +D ++ P++KV + +E+ + ++L + I Sbjct: 140 FKFVYGGGYHLASQKFCREDENY-LQLDTIFMPVQKVDFKIENIYDATNNISERLFLDIW 198 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+GSI+ D++ A++++ D + IN + ++++ P +EEL+LS Sbjct: 199 TNGSISPNDALESAAQVIIDLFTLLINNTNINNNNRLVKAIRAISIEPYTNIAIEELQLS 258 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 VR+ NCL+ I +GDL+Q + + + NFGRKS E+ Sbjct: 259 VRAYNCLKKAQINTVGDLLQYSPEKLQELKNFGRKSADEV 298 >gi|283945407|dbj|BAI66457.1| RNA polymerase alpha-subunit [Vibrio tapetis] Length = 260 Score = 252 bits (644), Expect = 5e-65, Method: Composition-based stats. Identities = 119/262 (45%), Positives = 175/262 (66%), 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 KGHGYVPAKHH---RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 121 RGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ ++ IL +QL F++ + + + F+P LL+ V++LEL+V Sbjct: 181 NGTLDPEEAIRRSATILAEQLDAFVDLRDIRVPE---EKEEKPEFDPILLRPVDDLELTV 237 Query: 268 RSTNCLRGENIVYMGDLIQRTE 289 RS NCL+ E I Y+GDL+QRTE Sbjct: 238 RSANCLKAEAIHYIGDLVQRTE 259 >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 = 252 bits (644), Expect = 5e-65, Method: Composition-based stats. Identities = 80/306 (26%), Positives = 150/306 (49%), Gaps = 9/306 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 + +E G+ I PL +G A +G A+RR L+ L G IT + + H Sbjct: 14 QWKCVESRADGKR-LYYGRFILSPLKKGQADIIGIAMRRALLGELEGTCITHAKFGKIPH 72 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E ++I G+ E + +I++N+K I L+ + + +I RGP VTA DI + +++ Sbjct: 73 EYTTIVGIQESVYEILMNLKEIVLRSNLYGTRGASICVRGPRDVTAQDIVLPPSVAIVDN 132 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 I L + L + + GY T + G IDA++ P+K V++++ S Sbjct: 133 TQHIVTLTEPIDFCVGLQIERNRGYSIKIPTATNSHNDGGYPIDAVFMPVKNVNHSIHSY 192 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV--K 248 G ++ L + I T+GS+T ++++ ASR L + F+N EE ++ + N + Sbjct: 193 ENGS---HEMLFLEIWTNGSLTPKEALREASRKLINLFIPFLNAEEENSHLENNQNEHTE 249 Query: 249 SLPFNPALLKKV---EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L + LK + + +EL R N L+G I + DL+ + D++++ +F ++ + + Sbjct: 250 ELSRDFCGLKDIYIDQLVELPPRLYNSLKGSGIHTVMDLLDKNPDDLMKITHFRQEDVEK 309 Query: 306 IKGVLG 311 + +L Sbjct: 310 VMNILN 315 >gi|119662353|emb|CAJ33165.1| RNA polymerase alpha subunit [Lactobacillus saerimneri] Length = 213 Score = 252 bits (644), Expect = 5e-65, 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|332144698|dbj|BAK19509.1| RNA polymerase alpha subunit [Lactobacillus sunkii] Length = 235 Score = 252 bits (644), Expect = 6e-65, Method: Composition-based stats. Identities = 108/235 (45%), 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 ELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 LT +KG GYV A ++ 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|150036820|emb|CAM98279.1| DNA-directed RNA polymerase alpha chain [Fructobacillus ficulneus] Length = 238 Score = 252 bits (644), Expect = 6e-65, 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|119668301|emb|CAK95453.1| RNA polymerase alpha subunit [Lactobacillus curvatus] Length = 212 Score = 252 bits (644), Expect = 6e-65, 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|197941213|gb|ACH78326.1| RNA polymerase [Streptococcus equi subsp. zooepidemicus] Length = 226 Score = 252 bits (643), Expect = 6e-65, 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|150036744|emb|CAM98026.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. mesenteroides] Length = 226 Score = 252 bits (643), Expect = 7e-65, 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|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 = 252 bits (643), Expect = 7e-65, Method: Composition-based stats. Identities = 77/326 (23%), Positives = 156/326 (47%), Gaps = 24/326 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RR+L+ + G IT + + + Sbjct: 13 LQWKCVES-RIDSKRLYYGRFILSPLMKGQADTIGIAMRRILLGEMEGTCITRAKSEKIS 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I LK + + +I +GPG VTA +I + +++ Sbjct: 72 HEYSTIVGIQEPVHEILMNLKEIVLKSNLYGIRDASICFKGPGYVTAQNIILPPSVVIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I N+ + + L + + GY + +N G IDA++ P++ ++++ S Sbjct: 132 NTQHIANVTEPIQLCIGLQIERDRGYRI---NTLKNFQDGSYNIDAIFMPVRNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + L + I T+GS+T ++++ ASR L D F++ EE K + + + + Sbjct: 189 Y-VNGNEKQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEEKLNFENNEHKVT 247 Query: 250 LPFNPALLKK------------------VEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 LP +++LEL + NCL+ NI + +L+ +++ D Sbjct: 248 LPLFTCHDLLAKTKLKKKKKEIAFKSIFIDQLELPPKIYNCLKKSNIHTLLELLTKSKED 307 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFL 317 ++++ +F + + I +L + Sbjct: 308 LMKIEHFRVEDVKHILDIL-EIEKHF 332 >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 = 252 bits (643), Expect = 8e-65, Method: Composition-based stats. Identities = 80/321 (24%), Positives = 154/321 (47%), Gaps = 23/321 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RR+L+ + G IT V+ + + Sbjct: 13 LQWKCVES-RIESKRLYYGRFILSPLMKGQADTIGIAIRRILLGEIEGTCITRVKSEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I +N+K I LK + + +I +GPG +TA DI +E+++ Sbjct: 72 HEYSTIIGIEESVHEIFMNLKEIVLKSNMYGTQDASISFKGPGYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I N+ +EL + + GY +++ IDA + P++ V+Y++ S Sbjct: 132 NRQHIANVTEPVNFCIELKIERNRGYRIKTLKNFQDESYD---IDARFMPVRNVNYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + L + I T+GS+T ++++ AS+ L D F++ EE ++++ + + Sbjct: 189 Y-VNGNEKQEILFLEIWTNGSLTPKEALYEASQNLIDLFIPFLHAEEENFNLEKNKDKVT 247 Query: 250 LP------------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 LP +++LEL R NCL+ NI + +L+ ++ D Sbjct: 248 LPLFTFHDILVKDKLRKNKKEIALKSIFIDQLELPPRIYNCLKRSNIHTLLELLNNSQED 307 Query: 292 MLRMANFGRKSLVEIKGVLGT 312 +L++ +F + I +L Sbjct: 308 LLKIEHFRVEDGKSILDILKI 328 >gi|161511771|emb|CAP16896.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 229 Score = 252 bits (643), Expect = 8e-65, 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|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 = 251 bits (642), Expect = 8e-65, Method: Composition-based stats. Identities = 106/331 (32%), Positives = 181/331 (54%), Gaps = 11/331 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + IKP +E + E+ I PL +G A ++GN+LRR L+SSL G AI V I+G Sbjct: 5 KFIKPFFVEEL---DEKLTSGKFIFYPLVKGHATSIGNSLRRTLLSSLPGTAIVNVSIEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDS---HKRVTIFKRGPGVVTAGDIQTVND 124 V HE ++I GV+ED+ IILN+K I K+ +S +++ I GP +TA Sbjct: 62 VEHEFTTISGVYEDVMTIILNLKKIIFKVDDESNDFEEKLKISLSGPQKITAASFGLPEG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR-TENDPIGLITIDALYSPIKKV 183 ++++NP+ I + D M T+ KG GYV AK ++ + +G+I ID+L++P+ V Sbjct: 122 VKIINPEAPIATISSDINFNMTATIKKGIGYVSAKDNKVHSENQLGVIPIDSLFTPVVNV 181 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE ++ + ++L+M I T+G++ ++++A A++IL + + + V+ Sbjct: 182 AYQVE----KKIGNKEELTMEITTNGALLAKEALATAAKILVEHFNVVSELSQQTPNVEF 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 K N L ++E+L+LSVR N L+ I + DL++ +E +++++ + GRKS Sbjct: 238 VSERKPEAHNYFLDLEIEQLDLSVRLFNSLKRAGINTVADLVKLSEREVVKLKSLGRKSF 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 E+K GL L + S EE + Sbjct: 298 QELKDKFVEYGLEFNDCLKEALHNSDEEEKE 328 >gi|119662383|emb|CAJ33180.1| RNA polymerase alpha subunit [Lactobacillus sakei subsp. carnosus] Length = 212 Score = 251 bits (642), Expect = 9e-65, Method: Composition-based stats. Identities = 90/211 (42%), Positives = 144/211 (68%) 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 LASRILQDQLGMFINFEEPKKEVKEDINVKS 249 LA++I+ + L +F++ + K + + + Sbjct: 181 LAAKIMTEHLAIFVDLTDEAKNAEIMVEKEE 211 >gi|332144692|dbj|BAK19506.1| RNA polymerase alpha subunit [Lactobacillus otakiensis] Length = 233 Score = 251 bits (642), Expect = 9e-65, Method: Composition-based stats. Identities = 108/233 (46%), Positives = 151/233 (64%), Gaps = 4/233 (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 VSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +KG GYV A ++ PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ I Sbjct: 121 ANKGRGYVSAVENKKRSSEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDIW 180 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 TDGSIT ++V+LA++IL + L MF++ + K + + + L Sbjct: 181 TDGSITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEIMVEKEETHKEKMLEMT 233 >gi|119668297|emb|CAK95503.1| RNA polymerase alpha subunit [Lactobacillus curvatus] Length = 207 Score = 251 bits (642), Expect = 1e-64, 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|72534403|emb|CAH59034.1| DNA-directed RNA polymerase alpha chain [Enterococcus sp. LMG 13603] Length = 226 Score = 251 bits (642), Expect = 1e-64, 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|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 = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 97/296 (32%), Positives = 155/296 (52%), Gaps = 4/296 (1%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + L G T+GN LRRVL++ L G AI+AV+I G+ HE S+I GV ED+ +I+ Sbjct: 20 HGQFLINSLRPGQGITIGNQLRRVLLNDLGGVAISAVRIAGISHEFSTIPGVREDILEIL 79 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+K I LK + + + +GP VVTA IQ + IE++N I + +V +E Sbjct: 80 LNLKEIVLKSKTQTPQFGRLKIQGPAVVTADLIQLPSTIEIVNSHQYIMTISTSNIVEIE 139 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 G GY A E + + +DA++ PI+KV + +E+ + + ++L + I Sbjct: 140 FKFEYGTGYKLASQSFLEENENY-LQLDAIFMPIQKVDFKIENVYDNRNSLTERLLLDIW 198 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+GSI+ +++ +A+ I D + + + + SL P +EEL+LS Sbjct: 199 TNGSISPNEAIKMAAEITIDLFTALLENKATNSQEEVKSKTSSLSIEPYTNIAIEELQLS 258 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 VR+ NCL+ I +GDL+Q + + + NFGRKS E+ L LG+ L Sbjct: 259 VRAYNCLKKAQINTVGDLLQYSPEKLQELKNFGRKSADEVFFTLKNK---LGIILK 311 >gi|108792411|emb|CAJ33183.1| RNA polymerase alpha subunit [Lactobacillus agilis] Length = 227 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 101/227 (44%), Positives = 150/227 (66%), 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 SKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GYV A ++ +ND 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|161511765|emb|CAP16893.1| DNA-directed RNA polymerase subunit alpha [Pediococcus acidilactici] Length = 215 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 102/215 (47%), Positives = 142/215 (66%), 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 GYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A ++ + 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|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 = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 111/324 (34%), Positives = 180/324 (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 MALKEILESIKHPHRVTFEKKD-LTPTYGKFIAQPFERGYAVTVGNALRRVLLSSIPGYA 59 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGD 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 KKEVK-EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + + + K + 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|332144688|dbj|BAK19504.1| RNA polymerase alpha subunit [Lactobacillus farraginis] Length = 218 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 104/218 (47%), Positives = 149/218 (68%), 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 KGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 +G GYV A ++ 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|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 = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 101/315 (32%), Positives = 159/315 (50%), Gaps = 10/315 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E IK IE + + + L G T+GN LRRVL+ L+G AIT V+I G Sbjct: 9 ECIKSEKIESGPM------YGQFLIDSLSSGQGITIGNLLRRVLLGDLQGTAITGVRIAG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V E S I GV ED+ +I+LN+KGI LK + + + +GP V+TA IQ +IE+ Sbjct: 63 VKDEFSLIPGVREDILEILLNLKGIVLKSKTPNRQFGRLRLQGPAVITASSIQLPPEIEI 122 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NP+H I + ++ +E + G Y A + + I DA++ P++KV + V Sbjct: 123 INPNHYIATISSSHILEIEFKIESGSKYRLANELFS-DKFEDFIETDAIFMPVQKVDFKV 181 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ + ++L + I T+GSI+ E ++ S ++ + + K++ Sbjct: 182 ENVYDNSNNIKERLLIDIWTNGSISPEQAIFSGSNLIINLFKSIGEQKINKEKENIKEKN 241 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 P +P +EEL+LSVR NCL+ I +GDL+ + +L + NFGRKS E+ Sbjct: 242 HIKPIDPYTHIAIEELQLSVRPYNCLKRAQINTIGDLLDYSPEKLLELKNFGRKSADEVF 301 Query: 308 GVLGTMGLFLGMNLP 322 L LG+ L Sbjct: 302 ATLKNK---LGIVLK 313 >gi|228017657|gb|ACP52470.1| RNA polymerase alpha subunit [Pinus peuce] Length = 335 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 80/329 (24%), Positives = 153/329 (46%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H + N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + + L + I T+G +T +++ ASR L D F++ EE + + Sbjct: 189 YGSGNEI-QEVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSN 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ +++LEL ++ N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHVLTDTGETKEKIAFQHIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 ++ + ++S+ ++ VL ++ P Sbjct: 308 KIEHLEKESVEQVLEVLR---KRFAIDPP 333 >gi|218680479|ref|ZP_03528376.1| DNA-directed RNA polymerase subunit alpha [Rhizobium etli CIAT 894] Length = 208 Score = 251 bits (641), Expect = 1e-64, 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|151416838|emb|CAO78490.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gelidum] Length = 220 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 94/220 (42%), Positives = 140/220 (63%), Gaps = 2/220 (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 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 +GSI D+++L S+IL + L +F++ E + V Sbjct: 181 NGSIKPSDALSLGSKILAEHLNLFMDISPVAAEANVMVEV 220 >gi|119668315|emb|CAK95458.1| RNA polymerase alpha subunit [Lactobacillus gallinarum] Length = 214 Score = 251 bits (640), Expect = 1e-64, 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|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 = 251 bits (640), Expect = 1e-64, Method: Composition-based stats. Identities = 80/329 (24%), Positives = 153/329 (46%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H + N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + + L + I T+G +T +++ ASR L D F++ EE + + Sbjct: 189 YGSGNEI-QEVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSN 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ +++LEL ++ N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHVLTDTGETKEKIAFQHIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 ++ + ++S+ ++ VL ++ P Sbjct: 308 KIEHLEKESVEQVLEVLR---KRFAIDPP 333 >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 = 251 bits (640), Expect = 1e-64, Method: Composition-based stats. Identities = 117/269 (43%), 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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 ++L+ N G+KSL EIK VL + GL LG Sbjct: 238 VELLKTPNLGKKSLTEIKDVLASRGLSLG 266 >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 = 251 bits (640), Expect = 1e-64, Method: Composition-based stats. Identities = 82/329 (24%), Positives = 154/329 (46%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H + N G+ IDA++ P++ V+Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDVNYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + + L + I T+G +T +++ ASR L D F++ EE + + Sbjct: 189 YGSGNEI-QEVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSN 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ +++LEL ++ N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHVLTDTGETKEKIAFQHIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ + ++S+ ++ VL ++ P Sbjct: 308 RIEHLEKESVEQVLEVLR---KRFAIDPP 333 >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 (640), Expect = 2e-64, Method: Composition-based stats. Identities = 80/329 (24%), Positives = 153/329 (46%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H + N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + + L + I T+G +T +++ ASR L D F++ EE + + Sbjct: 189 YGSGNEI-QEVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSN 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ +++LEL ++ N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHVLTDTGETKEKIAFKHIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 ++ + ++S+ ++ VL ++ P Sbjct: 308 KIEHLEKESVEQVLEVLR---KRFAIDPP 333 >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 = 251 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 115/259 (44%), Positives = 170/259 (65%), 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-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVR 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++ + + + F+P LL+ V+ Sbjct: 181 VIDMETNGTIEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVD 237 Query: 262 ELELSVRSTNCLRGENIVY 280 +LEL+VRS NCL+ E I Y Sbjct: 238 DLELTVRSANCLKAEAIHY 256 >gi|165910445|gb|ABY73977.1| RNA polymerase alpha subunit [Cuscuta europaea] Length = 329 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 81/326 (24%), Positives = 151/326 (46%), Gaps = 26/326 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RR L+ + G IT V+ + Sbjct: 13 LQWKCVES-RIDSKRLFYGRFILSPLIKGQADTIGIAMRRALLGEIEGTCITRVKSEKAS 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + +I +GP VTA DI +++++ Sbjct: 72 HEYSTIGGIQESVHEILMNLKEIVLRSNLYESCDASICIKGPRHVTAQDIILPPHVQIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + + GY ++ G IDAL+ P++ ++++ S Sbjct: 132 NTQHIAWLTEPIDFFIGLKIERNRGYFNKVDLHFDD---GSYPIDALFMPVQNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + L + I T+GS+T ++++ ++RIL D F EE + + + Sbjct: 189 YGNE---KQEILFLEIWTNGSLTPKEALHESARILIDFFIPFFQMEEENLYLADAKHTIP 245 Query: 250 LPF----------------NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 LP L +++LE + NCL+ NI + DL + + D+L Sbjct: 246 LPPLIFYNKVTTLIKKKKKLSLKLIFIDQLEFPPKIYNCLKKSNIFTLFDLFNQKQEDLL 305 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGM 319 ++ +F L +IK +LG +G + + Sbjct: 306 KIEHF---QLEDIKHILGILGKYFAL 328 >gi|332144690|dbj|BAK19505.1| RNA polymerase alpha subunit [Lactobacillus kisonensis] Length = 232 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 107/232 (46%), Positives = 151/232 (65%), Gaps = 4/232 (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 SKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +KG GYV A ++ PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ + T Sbjct: 121 NKGRGYVSAVENKKRSSEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDVWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 DGSIT ++V+LA++IL + L MF++ + K + + + L Sbjct: 181 DGSITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEIMVEKEETHKEKMLEMT 232 >gi|119668289|emb|CAK95500.1| RNA polymerase alpha subunit [Lactobacillus buchneri] Length = 227 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 107/227 (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 KGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 KG GYV A ++ 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|161513426|emb|CAP16856.1| DNA-directed RNA polymerase subunit alpha [Pediococcus parvulus] Length = 223 Score = 250 bits (638), Expect = 2e-64, Method: Composition-based stats. Identities = 97/223 (43%), Positives = 148/223 (66%), 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 KHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ ++ 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|328814011|gb|AEB52121.1| DNA-directed RNA polymerase alpha chain [Lactobacillus rhamnosus] Length = 218 Score = 250 bits (638), Expect = 2e-64, 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|228016207|gb|ACP51043.1| RNA polymerase alpha subunit [Pinus squamata] Length = 335 Score = 250 bits (638), Expect = 2e-64, Method: Composition-based stats. Identities = 81/329 (24%), Positives = 153/329 (46%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H + N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + + L + I T+G +T +++ ASR L D F++ EE + + Sbjct: 189 YGSGNEI-QEVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSN 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ +++LEL ++ N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHVLTDTRETKEKIAFQHIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ + ++S+ ++ VL ++ P Sbjct: 308 RIEHLEKESVEQVLEVLR---KRFAIDPP 333 >gi|71056933|emb|CAH59025.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 221 Score = 250 bits (638), Expect = 2e-64, Method: Composition-based stats. Identities = 99/221 (44%), Positives = 147/221 (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 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 LA++I+ + L +F+N + K + + + L Sbjct: 181 LAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMT 221 >gi|47679549|gb|AAT36718.1| RNA polymerase alpha subunit [Chaetoceros gracilis] Length = 300 Score = 250 bits (638), Expect = 2e-64, Method: Composition-based stats. Identities = 92/280 (32%), Positives = 151/280 (53%), Gaps = 1/280 (0%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + L G T+GN LRRVL+S L G ITAV+I GV E S I G+ ED+ +I+ Sbjct: 22 YGQFLINSLRPGQGITIGNLLRRVLLSDLEGTTITAVRIAGVQDEFSIIPGIREDILEIL 81 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+KG+ +K + + +GP VVTA IQ +IE++NP+H I + V+ +E Sbjct: 82 LNLKGVVVKSATPDISFGRLKIKGPAVVTADSIQLPPNIEIINPNHYIATISTSNVLEIE 141 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +G GY A + + IDA++ PI+KV + +E+ + ++L + I Sbjct: 142 FKFERGTGYKLAGQTFC-DKSEDFLQIDAIFMPIQKVDFKIENVYDNSNSITERLFLDIW 200 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+GSI+ +D+++ AS+ + + + + + + NP + +EEL+LS Sbjct: 201 TNGSISPDDAISYASKFIIEFFNSLLENKITQNLEIIEDTNSLTQLNPHINIAIEELQLS 260 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 VR+ NCL+ I +GDL++ + + + NFGRKS E+ Sbjct: 261 VRAYNCLKRAQINTIGDLLEYSPEKLQELKNFGRKSADEV 300 >gi|119668341|emb|CAK95468.1| RNA polymerase alpha subunit [Lactobacillus paracasei subsp. paracasei] Length = 209 Score = 250 bits (638), Expect = 3e-64, 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|71056900|emb|CAH59007.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 219 Score = 250 bits (638), Expect = 3e-64, Method: Composition-based stats. Identities = 98/217 (45%), Positives = 146/217 (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 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 LA++I+ + L +F+N + K + + + Sbjct: 181 LAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 217 >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 = 250 bits (638), Expect = 3e-64, Method: Composition-based stats. Identities = 116/269 (43%), Positives = 175/269 (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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 ++L+ N G+KSL EIK VL + GL L Sbjct: 238 VELLKTPNLGKKSLTEIKDVLASRGLSLA 266 >gi|150036746|emb|CAM98260.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. mesenteroides] Length = 226 Score = 250 bits (638), Expect = 3e-64, Method: Composition-based stats. Identities = 94/219 (42%), Positives = 139/219 (63%), Gaps = 2/219 (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 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 I D+++L ++IL + LG+F++ E + Sbjct: 181 IKPSDALSLGAKILAEHLGLFMDISPVAAEASVMVEAGP 219 >gi|119668353|emb|CAK95471.1| RNA polymerase alpha subunit [Lactobacillus plantarum] Length = 219 Score = 250 bits (638), Expect = 3e-64, Method: Composition-based stats. Identities = 99/219 (45%), Positives = 147/219 (67%), 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 KHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 + ++ ++ 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|161513436|emb|CAP16861.1| DNA-directed RNA polymerase subunit alpha [Pediococcus inopinatus] Length = 214 Score = 249 bits (637), Expect = 3e-64, Method: Composition-based stats. Identities = 97/214 (45%), Positives = 146/214 (68%), 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 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 K + I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A Sbjct: 61 DEKSLEIDVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAILTADTGRGYVSAD 120 Query: 160 HHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 ++ ++ 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|66876504|gb|AAY58043.1| RpoA [Cuscuta europaea] Length = 329 Score = 249 bits (637), Expect = 3e-64, Method: Composition-based stats. Identities = 81/326 (24%), Positives = 151/326 (46%), Gaps = 26/326 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RR L+ + G IT V+ + Sbjct: 13 LQWKCVES-RIDSKRLFYGRFILSPLIKGQADTIGIAMRRALLGEIEGTCITRVKSEKAS 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + +I +GP VTA DI +++++ Sbjct: 72 HEYSTIGGIQESVHEILMNLKEIVLRSNLYESCDASICIKGPRHVTAQDIILPPHVQIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + + GY ++ G IDAL+ P++ ++++ S Sbjct: 132 NTQHIAWLTEPIDFFIGLKIERNRGYFNKVDLHFDD---GSYPIDALFMPVQNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + L + I T+GS+T ++++ ++RIL D F EE + + + Sbjct: 189 YGNE---KQEILFLEIWTNGSLTPKEALHESARILIDFFIPFFQMEEENLYLADAKHTIX 245 Query: 250 LPF----------------NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 LP L +++LE + NCL+ NI + DL + + D+L Sbjct: 246 LPPLIFYNKVTTLIKKKKKLSLKLIFIDQLEFPPKIYNCLKKSNIFTLFDLFNQKQEDLL 305 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGM 319 ++ +F L +IK +LG +G + + Sbjct: 306 KIEHF---QLEDIKHILGILGKYFAL 328 >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 = 249 bits (637), Expect = 3e-64, 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|228016646|gb|ACP51475.1| RNA polymerase alpha subunit [Pinus albicaulis] Length = 335 Score = 249 bits (637), Expect = 3e-64, Method: Composition-based stats. Identities = 84/329 (25%), Positives = 156/329 (47%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H + N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK---EVKEDIN 246 G + + L + I T+G +T +++ ASR L D F++ EE K+ N Sbjct: 189 YGSGNEI-QEVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNKKKGSN 247 Query: 247 VKSLPFNPALLKK-------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 + P + L +++LEL ++ N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHVLTDTGETKEKIAFKHIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 ++ + ++S+ ++ VL ++ P Sbjct: 308 KIEHLEKESVEQVLEVLR---KRFAIDPP 333 >gi|119672801|emb|CAK95516.1| RNA polymerase alpha subunit [Lactobacillus agilis] Length = 217 Score = 249 bits (637), Expect = 3e-64, Method: Composition-based stats. Identities = 101/217 (46%), Positives = 148/217 (68%), 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 SKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GYV A ++ +ND 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|161513442|emb|CAP16864.1| DNA-directed RNA polymerase subunit alpha [Pediococcus inopinatus] Length = 223 Score = 249 bits (637), Expect = 3e-64, Method: Composition-based stats. Identities = 98/223 (43%), Positives = 148/223 (66%), 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 KHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ ++ 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|255027946|ref|ZP_05299932.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes FSL J2-003] Length = 219 Score = 249 bits (637), Expect = 4e-64, 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|150036736|emb|CAM98023.1| DNA-directed RNA polymerase alpha chain [Leuconostoc citreum] Length = 223 Score = 249 bits (637), Expect = 4e-64, 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|332144682|dbj|BAK19501.1| RNA polymerase alpha subunit [Lactobacillus buchneri] Length = 226 Score = 249 bits (637), Expect = 4e-64, Method: Composition-based stats. Identities = 106/226 (46%), 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 GHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ 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|12467|emb|CAA30670.1| RNA polymerase alpha-subunit (AA 1-341) [Zea mays] Length = 341 Score = 249 bits (637), Expect = 4e-64, Method: Composition-based stats. Identities = 90/332 (27%), Positives = 160/332 (48%), Gaps = 26/332 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LEWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGNVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+ + Sbjct: 72 HEYSTIVGIEESIQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIDD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL +EL + + Y +++ G IDA++ P++ V+Y++ S Sbjct: 132 TTQPIANLREPVDFCIELQIKRDRAYHTELRKNSQD---GSYPIDAVFMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGED-SVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 G ++ L + I T+G +T ++ + ASR L D F++ EE +E+ N Sbjct: 189 CGNG-NEKHEILFLEIWTNGKLTPKEGGIYEASRNLIDLFLPFLHTEEEGTSFEENKNRL 247 Query: 249 SLP----------------FNPALLKKVEELELSVRSTNCLRGENI-VYMGDLIQRTEAD 291 + P P +++LEL R+ NCL+ NI + DL+ +TE D Sbjct: 248 TPPLLTFQKRFTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIPSALLDLLVKTEED 307 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++++ +FG + + K + T+ L ++LP Sbjct: 308 LIKINSFG---MEDGKLIWDTLEKHLPIDLPK 336 >gi|119668291|emb|CAK95501.1| RNA polymerase alpha subunit [Lactobacillus collinoides] Length = 209 Score = 249 bits (637), Expect = 4e-64, 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|150187107|emb|CAK30172.1| RNA polymerase alpha subunit [Streptococcus downei MFe28] Length = 219 Score = 249 bits (637), Expect = 4e-64, Method: Composition-based stats. Identities = 97/217 (44%), Positives = 148/217 (68%) 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 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 ED++ L++R+L + L +F + E K + +S Sbjct: 181 PEDALGLSARVLIEHLNLFTDLTEIAKTTEVMKETES 217 >gi|332144684|dbj|BAK19502.1| RNA polymerase alpha subunit [Lactobacillus diolivorans] Length = 216 Score = 249 bits (636), Expect = 4e-64, Method: Composition-based stats. Identities = 106/216 (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 GHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ 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|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 = 249 bits (636), Expect = 5e-64, Method: Composition-based stats. Identities = 80/321 (24%), Positives = 153/321 (47%), Gaps = 23/321 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RR+L+ + G IT V+ + + Sbjct: 13 LQWKCVES-RIESKRLYYGRFILSPLMKGQADTIGIAIRRILLGEIEGTCITRVKSEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I +N+K I LK + + +I +GPG +TA DI +E+++ Sbjct: 72 HEYSTIIGIEESVHEIFMNLKEIVLKSNMYGTQDASISFKGPGYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I N+ + +EL + + GY ++ G IDA + P++ V+Y++ S Sbjct: 132 NRQHIANVTEPVNLCIELKIERNRGYRIKTLKNFQD---GSYDIDARFMPVRNVNYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + L + I T+GS+T ++++ AS+ L D F++ EE +++ + + Sbjct: 189 Y-VNGNEKQEILFLEIWTNGSLTPKEALYEASQNLIDLFIPFLHAEEENFNLEKKKHKVT 247 Query: 250 LP------------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 LP +++LEL R NCL+ NI + +L+ ++ Sbjct: 248 LPLFTFHDILVKDKLRKNKKEIALKSIFIDQLELPPRIYNCLKRSNIHTLLELLNNSQEX 307 Query: 292 MLRMANFGRKSLVEIKGVLGT 312 +L++ +F + I +L Sbjct: 308 LLKIEHFRVEDGKSILDILKI 328 >gi|117575075|emb|CAJ84777.1| RNA polymerase alpha subunit [Lactobacillus amylotrophicus] Length = 225 Score = 249 bits (636), Expect = 5e-64, 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|161511749|emb|CAP16885.1| DNA-directed RNA polymerase subunit alpha [Pediococcus parvulus] Length = 214 Score = 249 bits (636), Expect = 5e-64, Method: Composition-based stats. Identities = 96/212 (45%), Positives = 146/212 (68%), Gaps = 2/212 (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 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 K + I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A Sbjct: 61 DEKSLEINVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAVLTADTGRGYVSAD 120 Query: 160 HHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 ++ ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ ++ Sbjct: 121 ENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSISPSEAT 180 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 +L+++IL + L +F+N + ++ + + + Sbjct: 181 SLSAKILTEHLALFVNLTDEAQDAEIMVEKEE 212 >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 = 249 bits (636), Expect = 5e-64, Method: Composition-based stats. Identities = 81/329 (24%), Positives = 153/329 (46%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + PL +G A T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIREASIYIVGPKNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H + N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + + L + I T+G +T +++ ASR L D F++ EE + + Sbjct: 189 YGSGNEI-QEVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSN 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ +++LEL ++ N LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHVLTDTGETKEKIAFQHIFIDQLELPSKTYNSLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ + ++S+ ++ VL ++ P Sbjct: 308 RIEHLEKESVEQVLEVLR---KRFAIDPP 333 >gi|119668359|emb|CAK95474.1| RNA polymerase alpha subunit [Lactobacillus reuteri] Length = 221 Score = 249 bits (635), Expect = 6e-64, Method: Composition-based stats. Identities = 98/220 (44%), Positives = 153/220 (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 GYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY+ A ++ ++ 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|71056864|emb|CAH58987.1| DNA-directed RNA polymerase alpha chain [Enterococcus canis] Length = 217 Score = 249 bits (635), Expect = 6e-64, 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|150187161|emb|CAK30184.1| RNA polymerase alpha subunit [Streptococcus equi subsp. ruminatorum] Length = 225 Score = 249 bits (635), Expect = 6e-64, 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|150036762|emb|CAM98031.1| DNA-directed RNA polymerase alpha chain [Leuconostoc carnosum] Length = 221 Score = 249 bits (635), Expect = 6e-64, 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|213584847|ref|ZP_03366673.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] Length = 253 Score = 249 bits (635), Expect = 7e-64, 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|161513422|emb|CAP16854.1| DNA-directed RNA polymerase subunit alpha [Pediococcus damnosus] Length = 222 Score = 249 bits (635), Expect = 7e-64, Method: Composition-based stats. Identities = 100/222 (45%), Positives = 148/222 (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 KHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ ++ 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|119662849|emb|CAJ33217.1| RNA polymerase alpha subunit [Lactobacillus suebicus] Length = 219 Score = 248 bits (634), Expect = 7e-64, Method: Composition-based stats. Identities = 100/219 (45%), Positives = 153/219 (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 PAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A ++ ++ 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|71056939|emb|CAH59028.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 220 Score = 248 bits (634), Expect = 7e-64, Method: Composition-based stats. Identities = 99/220 (45%), Positives = 146/220 (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 ASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 A++I+ + L +F+N + K + + + L Sbjct: 181 AAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMT 220 >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 = 248 bits (634), Expect = 9e-64, Method: Composition-based stats. Identities = 97/328 (29%), Positives = 172/328 (52%), Gaps = 14/328 (4%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 ++ +K ++ + E++NRT++ PL GF TLGNALRR+ +SS+ GA++ AV+ Sbjct: 1 MRKFLK-YQLDVPSINSEDKNRTVVKIAPLEIGFGDTLGNALRRICLSSIPGASMFAVKF 59 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSG-------------DSHKRVTIFKRGPG 112 G HE +GV ED+T IILN+K + +K+ D ++ I +GPG Sbjct: 60 GGYSHEFQPYEGVKEDITHIILNLKNLAIKIDELIYSEDYFNNLLIDKWPKMKINFKGPG 119 Query: 113 VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT 172 V+TA DI E++N D I + V +E+ G G V ++ + +I Sbjct: 120 VITAKDIVCPVGFEIVNQDLYIAEVTKPIDVEIEIFAKTGRGRVDFNTNKDFVSTLHIIA 179 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 D+ YSP+ +Y VE ++ + + L++ I T+G+I+G +++A+A++I+Q L + Sbjct: 180 TDSNYSPVLHYAYNVEMIKDSKSSMSEILTIDIATNGTISGSEAIAIAAKIMQAHLEPIV 239 Query: 233 NFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 N ++ E+ + +++L+L+VR+ N L+ I +LI+ T++ + Sbjct: 240 NIDKTINEMIIMREREEEEKRQNASISIDDLDLTVRAYNALKQSGINTTAELIELTKSQL 299 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMN 320 ++ N GRKS+ EI L L L + Sbjct: 300 EKIKNLGRKSVTEIIQKLTERSLELKKD 327 >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 = 248 bits (634), Expect = 9e-64, Method: Composition-based stats. Identities = 85/330 (25%), Positives = 158/330 (47%), Gaps = 24/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE G+ P +G A T+G A+RR L+ + G +IT + V+ Sbjct: 13 LQWKCIESKKEGKRLH-YGRFAVSPFRKGQASTVGVAMRRALLGEVEGTSITYAKFKNVV 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ G+ E + DI++N+K I L+ ++ +I GP VTAGDI +++++ Sbjct: 72 HEYSTLVGIKESIHDILINLKEIVLQSDSYETQKASISILGPRDVTAGDILLPTSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I + + +EL + + GY + G IDAL++PI+ +Y++ S Sbjct: 132 ASQHIATITTAIPLDVELRIERDCGYRTLNL---KESQSGEFFIDALFTPIRNANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 E + L + + T+GS+T +++ ASR L D +F+N E+ + + + N + Sbjct: 189 F-ESNNKVREILFLEVWTNGSLTPGAALSEASRDLIDLFIIFLNMEKEESIKEIENNELN 247 Query: 250 LPFNPALLKK----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 + P+ +++LEL R+ NCL+ + + DL++ T+ D+ Sbjct: 248 IKNFPSTSISVDIDRMAKEVAFKQIFIDQLELPARAYNCLKKMQVHTVSDLLKYTQYDLK 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ NFG KS+ ++ L + LP Sbjct: 308 KVKNFGNKSVEQVVEALQE---RFAIQLPK 334 >gi|119662351|emb|CAJ33164.1| RNA polymerase alpha subunit [Lactobacillus ruminis] Length = 203 Score = 248 bits (633), Expect = 1e-63, Method: Composition-based stats. Identities = 99/203 (48%), Positives = 146/203 (71%), Gaps = 2/203 (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 GYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GYV A + + ++ PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T+GSI Sbjct: 121 GYVSANENKAKADDMPIGVLAIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINF 234 T ++++L+++IL + L +F+N Sbjct: 181 TPSEAISLSAKILTEHLALFVNL 203 >gi|154424745|emb|CAL18475.1| RNA polymerase alpha subunit [Streptococcus salivarius] Length = 214 Score = 248 bits (633), Expect = 1e-63, 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|289524822|emb|CBJ94467.1| alpha subunit of RNA polymerase [Vibrio sp. Cmf 5.9] Length = 265 Score = 248 bits (633), Expect = 1e-63, Method: Composition-based stats. Identities = 116/268 (43%), Positives = 175/268 (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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFL 317 ++L+ N G+KSL EIK VL + GL L Sbjct: 238 VELLKTPNLGKKSLTEIKDVLASRGLSL 265 >gi|197131690|gb|ACH47363.1| RNA polymerase alpha subunit [Geranium carolinianum] Length = 329 Score = 248 bits (633), Expect = 1e-63, Method: Composition-based stats. Identities = 77/307 (25%), Positives = 148/307 (48%), Gaps = 11/307 (3%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 + +E G+ I PL +G A +G A+RR L+ + G IT + + + H Sbjct: 14 RWKCVESRADGKR-LYYGRFILSPLKKGQADIIGIAMRRALLGEIEGTCITHAKFEKIPH 72 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E ++I G+ E + +I++N+K I L+ + D + +I RGP VTA DI N +++ Sbjct: 73 EYTTIVGIQESIYEILMNLKEIVLRSNLDGTRDASICVRGPRDVTAQDIILPNSAAIVDN 132 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 I L + L + + GY T IDA++ P+K V++++ S Sbjct: 133 TQHIVTLTEPIDFCIGLQIDRNRGYSRKIPMPTNFHDDRGYPIDAVFLPVKNVNHSIHSY 192 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 G ++ L + I T+GS+T ++++ ASR L + F++ EE + + N + Sbjct: 193 ENGS---HEMLFLEIWTNGSLTPKEALREASRKLINLFIPFLHAEEENFHFENNQNEHTD 249 Query: 251 PFNPALLKKVEEL------ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 P L +++++ EL R NCL+ I + DL+ + ++++ +F ++ + Sbjct: 250 EL-PIDLCELKDIYIDQLVELPARFYNCLKRSGIHTVMDLLNKNTDGLMKITHFRQEDVE 308 Query: 305 EIKGVLG 311 ++ +L Sbjct: 309 KVMNILN 315 >gi|119672799|emb|CAK95483.1| RNA polymerase alpha subunit [Lactobacillus agilis] Length = 214 Score = 248 bits (633), Expect = 1e-63, Method: Composition-based stats. Identities = 100/214 (46%), Positives = 147/214 (68%), 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 SKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GYV A ++ +ND 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|161511723|emb|CAP16872.1| DNA-directed RNA polymerase subunit alpha [Pediococcus acidilactici] Length = 229 Score = 247 bits (632), Expect = 1e-63, Method: Composition-based stats. Identities = 104/229 (45%), Positives = 146/229 (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 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 K + I GP VTAGDI D+ VLNPD IC + LT G GY A Sbjct: 61 DEKTLDINVVGPANVTAGDIMGDGDVTVLNPDSPICTVAEGTTFHAVLTADTGRGYTSAD 120 Query: 160 HHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 ++ + 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|150036814|emb|CAM98040.1| DNA-directed RNA polymerase alpha chain [Leuconostoc kimchii] Length = 226 Score = 247 bits (632), Expect = 1e-63, Method: Composition-based stats. Identities = 92/226 (40%), Positives = 141/226 (62%), Gaps = 2/226 (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 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 D+++L S+IL + L +F++ E + + + N + Sbjct: 181 KPSDALSLGSKILAEHLNLFMDISPVAAEASVMVEAEPVATNASDS 226 >gi|119668369|emb|CAK95477.1| RNA polymerase alpha subunit [Lactobacillus ruminis] Length = 201 Score = 247 bits (632), Expect = 1e-63, Method: Composition-based stats. Identities = 98/201 (48%), Positives = 144/201 (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 SKGHGYVPAKHH--RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 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|161511729|emb|CAP16875.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 229 Score = 247 bits (632), Expect = 1e-63, 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|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 = 247 bits (631), Expect = 2e-63, Method: Composition-based stats. Identities = 82/328 (25%), Positives = 159/328 (48%), Gaps = 26/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G +RR+L+ + G IT + + + Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLMKGQADTIGITMRRILLGEIEGTCITRAKSEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + + +I +GPG VTA DI + +EV++ Sbjct: 72 HEYSTIVGIQESIHEILMNLKEIVLRSNLYGTREASICFKGPGYVTAQDIILPS-VEVID 130 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL + +EL + + GY + ++ G TIDA++ P++ ++++ S Sbjct: 131 NTQHIANLTEPINLCIELQIERKRGYRIKTLNNIQD---GSYTIDAVFMPVRNANHSIHS 187 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + L + I T+GS+T ++++ ASR L D F++ EE + + + + Sbjct: 188 Y-VNGNQKQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEENLNFENNQHKMT 246 Query: 250 LPFNPALLKK--------------------VEELELSVRSTNCLRGENIVYMGDLIQRTE 289 LP +++LEL R NCL+ NI + +L+ +++ Sbjct: 247 LPLFTFHDHDRFVKDKLRKNQKEITLKSIFIDQLELPPRIYNCLKKSNIHTVLELLNKSQ 306 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFL 317 D++++ +F + L I +L F+ Sbjct: 307 EDLMKIEHFRVEDLKFILNILQIENHFV 334 >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 = 247 bits (631), Expect = 2e-63, Method: Composition-based stats. Identities = 97/328 (29%), Positives = 172/328 (52%), Gaps = 14/328 (4%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 ++ +K ++ + E++NRT++ PL GF TLGNALRR+ +SS+ GA++ AV+ Sbjct: 1 MRKFLK-YQLDVPSINSEDKNRTVVKIAPLEIGFGDTLGNALRRICLSSIPGASMFAVKF 59 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSG-------------DSHKRVTIFKRGPG 112 G HE +GV ED+T IILN+K + +K+ D ++ I +GPG Sbjct: 60 GGYSHEFQPYEGVKEDITHIILNLKNLAIKIDELIYSEDYFNNLLIDKWPKMKINFKGPG 119 Query: 113 VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT 172 V+TA DI E++N D I + V +E+ G G V ++ + +I Sbjct: 120 VITAKDIVCPVGFEIVNQDLYIAEVTKPIDVEIEIFAKTGRGRVDFNTNKDFVSTLHIIA 179 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 D+ YSP+ +Y VE ++ + + L++ I T+G+I+G +++A+A++I+Q L + Sbjct: 180 TDSNYSPVLHYAYNVEMIKDSKSSMSEILTIDIATNGTISGSEAIAIAAKIMQAHLEPIM 239 Query: 233 NFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 N ++ E+ + +++L+L+VR+ N L+ I +LI+ T++ + Sbjct: 240 NIDKTINEMIIMREREEEEKRQNASISIDDLDLTVRAYNALKQSGINTTAELIELTKSQL 299 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMN 320 ++ N GRKS+ EI L L L + Sbjct: 300 EKIKNLGRKSVTEIIQKLTERSLELKKD 327 >gi|76563869|gb|ABA46366.1| RNA polymerase alpha subunit [Photobacterium halotolerans] Length = 252 Score = 247 bits (631), Expect = 2e-63, Method: Composition-based stats. Identities = 111/253 (43%), Positives = 167/253 (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++ + + + F+P LL+ V++LEL+ Sbjct: 183 TNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELT 239 Query: 267 VRSTNCLRGENIV 279 VRS NCL+ E I Sbjct: 240 VRSANCLKAEAIH 252 >gi|47679555|gb|AAT36721.1| RNA polymerase alpha subunit [Cylindrotheca fusiformis] Length = 291 Score = 247 bits (631), Expect = 2e-63, Method: Composition-based stats. Identities = 93/281 (33%), Positives = 158/281 (56%), Gaps = 2/281 (0%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + L G T+GN LRRVL++ L G AI+A +I GV HE S+I GV ED+ +I+ Sbjct: 12 HGQFLINSLKPGQGITIGNQLRRVLLNDLGGVAISAARIAGVSHEFSTIPGVREDILEIL 71 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+KGI LK + + + +GP VVTA IQ +D+E++NP+H + + V+ +E Sbjct: 72 LNLKGIVLKSKTQTAQFGRLKIQGPTVVTADLIQLPSDLEIVNPNHYLMTISTSNVLEIE 131 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 G GY ++ + +D ++ P++KV++ +E+ + +++ + I Sbjct: 132 FKFEYGTGYKLTSQ-AFLDESDNYLQLDTIFMPVQKVNFKIENVYDNNNNITEQVFLDIW 190 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK-EDINVKSLPFNPALLKKVEELEL 265 T+GSI+ +++ A++I D + + +E K++ K E V S+ P +EEL+L Sbjct: 191 TNGSISPNEALKSAAQITIDLFELLLKNKETKEKNKLEATKVPSISIEPYTNIAIEELQL 250 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 SVR+ NCL+ I +GDL++ + + + NFGRKS E+ Sbjct: 251 SVRAYNCLKKAQINTVGDLLKYSPEKLQELKNFGRKSADEV 291 >gi|150036838|emb|CAM98284.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis] Length = 228 Score = 247 bits (631), Expect = 2e-63, 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|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 = 247 bits (631), Expect = 2e-63, Method: Composition-based stats. Identities = 99/298 (33%), Positives = 155/298 (52%), Gaps = 6/298 (2%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + + L G T GN LRRVL+ L G AIT V+I GV E S I GV ED+ +I+ Sbjct: 39 YGQFLIDSLNSGQGITNGNLLRRVLLGDLEGIAITGVRIAGVKDEFSLIPGVREDILEIL 98 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+KG+ LK + + + + +GP V+TA IQ +IE +NP+H I + +V +E Sbjct: 99 LNLKGVILKSNIVTRQFGRLRIQGPAVITASSIQLPPEIETINPNHYIATISTSDIVEIE 158 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 + G Y A + + I DA++ P++KV + VE+ + ++L + + Sbjct: 159 FKIESGRQYRLANELFS-DKFEDFIETDAIFMPVQKVDFKVENVYDNSNNIKERLFLDVW 217 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL--PFNPALLKKVEELE 264 T+GSI +D++ AS + + KE+I K+ P +P + +EEL+ Sbjct: 218 TNGSIAPQDAIISASNSIIAFFQSISEQKVKNALEKENIIEKNQVKPIDPYIHIAIEELQ 277 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 LSVR NCL+ I +GDL++ + +L + NFGRKS E+ L LG+ L Sbjct: 278 LSVRPYNCLKRARINTIGDLLEYSPEKLLELKNFGRKSADEVFATLKNK---LGIVLK 332 >gi|157493287|gb|ABV58009.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 259 Score = 247 bits (631), Expect = 2e-63, Method: Composition-based stats. Identities = 115/267 (43%), Positives = 177/267 (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++ + + + F+P LL+ V++LEL+VRS Sbjct: 176 TLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRS 232 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMA 296 NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 233 ANCLKAEAIHYIGDLVQRTEVELLKTP 259 >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 = 247 bits (630), Expect = 2e-63, Method: Composition-based stats. Identities = 105/313 (33%), Positives = 174/313 (55%), Gaps = 4/313 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 P+ + + IA+P RG+A T+GNALRRVL+SS+ G AIT ++IDGV + Sbjct: 12 HPHRVTFEKKD-LTPTYGKFIAQPFERGYAVTVGNALRRVLLSSIPGYAITTIKIDGVSN 70 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVN-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 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK-EDINV 247 R GQ +DY KL++ I+T G+I + +++ A++IL+D L F++ EE + + + Sbjct: 191 PIRVGQRIDYGKLTLEIETKGNIAPDKALSQAAKILRDNLKHFMDPEEANGDDEKIEETP 250 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 K + 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|150036810|emb|CAM98038.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 235 Score = 247 bits (630), Expect = 2e-63, 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|300089411|gb|ADJ67857.1| RNA polymerase alpha-subunit [Photobacterium jeanii] Length = 248 Score = 247 bits (630), Expect = 2e-63, Method: Composition-based stats. Identities = 111/251 (44%), Positives = 165/251 (65%), 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++ + + + F+P LL+ V++LEL Sbjct: 181 QTNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLEL 237 Query: 266 SVRSTNCLRGE 276 +VRS NCL+ E Sbjct: 238 TVRSANCLKAE 248 >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 = 247 bits (630), Expect = 2e-63, Method: Composition-based stats. Identities = 81/330 (24%), Positives = 142/330 (43%), Gaps = 25/330 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 I+ +E + + P RG A T+G A+RR L + G +IT + GV+ Sbjct: 13 IQWKCLESKTESKRLH-YGRFVVSPFKRGQASTVGIAMRRALSQEVGGTSITRAKFHGVV 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + D+++N+K I LK + GP VTAGD ++ ++ Sbjct: 72 HEYSTITGIQETIHDVLVNLKEIVLKSDSNDIWEAFPSVMGPKEVTAGDTSLPPRVKAID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I + +EL + + GY + + G +IDA++ P++ V+Y++ Sbjct: 132 NSQYIATITQPISSNIELKIERDCGYRIENSNECRD---GQFSIDAVFMPVRNVNYSIHL 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G+ + + I T+GS T ++++ AS+ L D F + ED S Sbjct: 189 FGNGRAT-QEISFIEIWTNGSPTPHEALSEASKKLIDLSTPFSGVKCRDVSFLEDHEDSS 247 Query: 250 LPFNPALL-----------------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 L +++LEL R+ NCL+ I + D + + D+ Sbjct: 248 DSTRSPFLQLQFGNACKLEGKLFENMFIDQLELPARAFNCLKRAEIHTIADSLNYSREDL 307 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 ++ NFG+KS+ ++ L LP Sbjct: 308 SKIRNFGQKSVDQVSKALWE---RFSKELP 334 >gi|119662319|emb|CAJ33147.1| RNA polymerase alpha subunit [Lactobacillus kalixensis] Length = 208 Score = 247 bits (630), Expect = 2e-63, Method: Composition-based stats. Identities = 95/207 (45%), Positives = 140/207 (67%) 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 GEDSVALASRILQDQLGMFINFEEPKK 239 D+++ A++IL + +F + + K Sbjct: 181 PNDALSFAAKILVEHFKVFESADASTK 207 >gi|150036818|emb|CAM98041.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax] Length = 222 Score = 247 bits (630), Expect = 2e-63, Method: Composition-based stats. Identities = 94/220 (42%), Positives = 142/220 (64%), Gaps = 2/220 (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 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 SI D+++L ++IL + L +F + E + ++V+ Sbjct: 181 SIKPSDALSLGAKILSEHLNLFTDISSVAAETEVMVDVEQ 220 >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 = 247 bits (630), Expect = 2e-63, Method: Composition-based stats. Identities = 90/325 (27%), Positives = 162/325 (49%), Gaps = 22/325 (6%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 +E + E + I PL G A+T+G +RR L+ ++G IT + + + HE Sbjct: 18 WRCVESK-VESERLFYSRFILSPLKVGQANTIGLVMRRALLGEIKGTCITCAKFENITHE 76 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 S++ G+ E + DI++N K I LK ++ I GP VTA DI+ +EV++P Sbjct: 77 YSTMDGIQESVHDILINSKEIVLKSKSSEAQKAFISIVGPRRVTAQDIELPTSVEVIDPM 136 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 I + + +EL + K GY ++ G T+DA+++PI+ V+Y++ Sbjct: 137 QHIATITKKVKLNIELKIEKDSGYRRQNIVEYKD---GNFTVDAVFTPIRSVNYSIHCFE 193 Query: 192 -EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 + + + L I ++GSIT E+++ ASR + F+ E+ K++ K + +S Sbjct: 194 SHDKSIMKEMLLYEIWSNGSITPEEAIYEASRSSINLFLPFLQAEKEKEDFKGEDIHESN 253 Query: 251 PFNPA--------------LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 +P+ +E+LELS ++ N L+ N+ + DL+ ++ D+++M Sbjct: 254 ALHPSVSIVVDQMAKKVTFQHIFIEQLELSPKAYNFLKKINVHTISDLLDYSQDDLMKMK 313 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNL 321 NFG+KS+ +I L + GM L Sbjct: 314 NFGKKSVEQI---LEALQKRFGMRL 335 >gi|165910443|gb|ABY73976.1| RNA polymerase alpha subunit [Cuscuta epilinum] Length = 330 Score = 247 bits (630), Expect = 2e-63, Method: Composition-based stats. Identities = 82/328 (25%), Positives = 151/328 (46%), Gaps = 26/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + + I PL +G A T+G A+RR L+ + G IT V+ + Sbjct: 13 LQWKCVES-RIDSKRLSYGRFILSPLIKGQADTIGIAMRRALLGEIEGTCITRVKSEKAS 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + +I +GP VTA DI +++++ Sbjct: 72 HEYSTIGGIQESVHEILMNLKEIVLRSNLYGTCDASICIKGPRHVTAQDIILPPHVQIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + + GY ++ G+ IDAL+ P++ ++++ S Sbjct: 132 NTQHIAWLTEPIDFFIGLKIERNRGYFNKVDLHFDD---GIYPIDALFMPVQNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV-- 247 + L + I T+GS+T ++++ A+RIL D F + EE + + + Sbjct: 189 YGNE---KQEILFLEIWTNGSLTPKEALHEAARILIDFFIPFFHMEEENLYLADAEHTIP 245 Query: 248 --------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 K L +++LE + NCL NI + DL E D+L Sbjct: 246 LSSLIFYNKVTKLIKKKKKLSLKLIFIDQLEFPPKIYNCLTKSNIFTLFDLFNHKEEDLL 305 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 ++ +F L +IK +LG + + + L Sbjct: 306 KIEHF---QLEDIKKILGILAKYFALYL 330 >gi|119662343|emb|CAJ33160.1| RNA polymerase alpha subunit [Lactobacillus plantarum] Length = 204 Score = 246 bits (629), Expect = 3e-63, Method: Composition-based stats. Identities = 99/204 (48%), Positives = 145/204 (71%), 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 KHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 + ++ ++ 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|119662295|emb|CAJ33134.1| RNA polymerase alpha subunit [Lactobacillus crispatus] Length = 212 Score = 246 bits (628), Expect = 3e-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|150036808|emb|CAM98277.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 235 Score = 246 bits (628), Expect = 4e-63, 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|51859691|gb|AAU11125.1| RNA polymerase alpha subunit [Psathyrostachys caduca] Length = 339 Score = 246 bits (628), Expect = 4e-63, Method: Composition-based stats. Identities = 85/298 (28%), Positives = 145/298 (48%), Gaps = 21/298 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 13 LQWKCVES-RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I NL ++L + + GY +N G IDA+ P++ V+Y++ S Sbjct: 132 XAQPIANLTEPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N + Sbjct: 189 CGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFT 247 Query: 250 LP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 P P +++LEL+ R+ NCL+ NI + DL+ +TE D Sbjct: 248 PPLFTFQKRLTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEED 305 >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 = 246 bits (627), Expect = 4e-63, Method: Composition-based stats. Identities = 102/310 (32%), Positives = 169/310 (54%), Gaps = 11/310 (3%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 +E +V+ E + EPL G A T+GNALRRVL+S + G I +V+I G+ HE Sbjct: 11 ECLESMVINSREI-YGKFMIEPLSYGQAITVGNALRRVLLSDVPGVTIVSVRIAGINHEF 69 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 S++KGV ED+ +I+LN+K I LK + ++ + +GP +VT+G I+ DI V++P Sbjct: 70 STVKGVKEDVLEILLNLKNIVLKGNVLKNQIGRLKVQGPAIVTSGQIEFPLDITVVDPCQ 129 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + + MEL V K GY + + P+ + ID+++ P+KKV+Y VE + Sbjct: 130 YIATISGNDYLEMELKVEKSSGYKLVETFSKK-SPLDFLPIDSIFMPVKKVNYYVEEILD 188 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 +V Y+KL + + T+GS++ + S+ AS L + ++ + Sbjct: 189 SKVA-YEKLILELWTNGSLSPQQSINYASDNLVKLFNPLRVLD-----FSKESSSVYEQN 242 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 + K +EEL LSVR+ NCL+ + +GDL++ + D+L + NFG+KS+ E+ L Sbjct: 243 SLIKQKLIEELCLSVRAYNCLKRVQVDSIGDLLEYSIGDLLEIKNFGQKSVEEVSKALY- 301 Query: 313 MGLFLGMNLP 322 G+ L Sbjct: 302 --KKFGVKLK 309 >gi|119668303|emb|CAK95505.1| RNA polymerase alpha subunit [Lactobacillus curvatus] Length = 217 Score = 246 bits (627), Expect = 5e-63, Method: Composition-based stats. Identities = 90/217 (41%), Positives = 143/217 (65%) 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 ILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 I+ + L +F++ + K + + + L Sbjct: 181 IMTEHLAIFVDLTDEAKNAEIMVEKEETHKEKMLEMT 217 >gi|71056866|emb|CAH58988.1| DNA-directed RNA polymerase alpha chain [Enterococcus hermanniensis] Length = 214 Score = 246 bits (627), Expect = 5e-63, 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|150036796|emb|CAM98274.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. mesenteroides] Length = 214 Score = 246 bits (627), Expect = 5e-63, 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|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 = 246 bits (627), Expect = 5e-63, Method: Composition-based stats. Identities = 113/331 (34%), Positives = 180/331 (54%), Gaps = 27/331 (8%) Query: 9 LIKPNNIEYIV-LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 LIKP + Q+E N + PL +G+A TLGNALRRVL+SS+ AIT ++I G Sbjct: 4 LIKPEKFRIVQKEEQDEYNYSKYELFPLEKGYAITLGNALRRVLLSSIPSLAITGLRIPG 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG-------DSHKRVTIFKRGPG--VVTAGD 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 ID ++S Sbjct: 124 IKTPAELEVANPDFVIAHVNKDMEVDFELYAQAGKGFIPAQELTFQSDIEY-IFIDGVFS 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|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 = 246 bits (627), Expect = 6e-63, Method: Composition-based stats. Identities = 116/270 (42%), Positives = 175/270 (64%), 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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 ++L+ N G+KSL EIK V + GL L M Sbjct: 238 VELLKTPNLGKKSLTEIKDVHASRGLSLRM 267 >gi|119662303|emb|CAJ33139.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. indicus] Length = 223 Score = 245 bits (626), Expect = 6e-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|71056937|emb|CAH59027.1| DNA-directed RNA polymerase alpha chain [Enterococcus malodoratus] Length = 221 Score = 245 bits (626), Expect = 6e-63, Method: Composition-based stats. Identities = 100/221 (45%), Positives = 145/221 (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 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 LA++IL + L +F+N + K + + + L Sbjct: 181 LAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMT 221 >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 = 245 bits (626), Expect = 7e-63, Method: Composition-based stats. Identities = 81/333 (24%), Positives = 152/333 (45%), Gaps = 28/333 (8%) Query: 16 EYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 E + EN + PL +G A+T+G+A+RRVL+ + G IT + + +E Sbjct: 14 ELKCVESRTENKRFHYSRFTLSPLRKGQANTIGSAIRRVLLGEVEGTCITRAKFHNISNE 73 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 S I G+ E + +I++N+K I L+ + +I GP VTA DI + +++ Sbjct: 74 YSVIIGIEESIHEILMNLKEIVLRSDAYGIREGSIHVVGPKKVTAQDIMLPPSVRIIDTT 133 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-------NDPIGLITIDALYSPIKKVS 184 I N++ + + L + KG GY+ + D + IDA ++P++ V+ Sbjct: 134 QHIANINKSITLDISLQIEKGRGYIIQNPNNYNPKDEIFAIDAAFVFPIDAAFAPVQNVN 193 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y++ S + L + I T+G + ++++ ASR L D F+N +E + Sbjct: 194 YSIHSYWSENET-QEILFLEIWTNGGLAPKEALYEASRNLIDFFLPFLNAKEENSDGTNS 252 Query: 245 INVKSLPFNPA------------LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 ++ P P +++L S R NCL+ NI + DL+ + D+ Sbjct: 253 LSDDITPSLPILHISTDTKRIAFDQMYIDQLNFSTRVYNCLKKANINTVSDLLNYSREDL 312 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 +++ + G +S+ EI + + ++ P P Sbjct: 313 MKIKHLGEQSVKEILEFIRNIQ----IDSPGNP 341 >gi|119668285|emb|CAK95451.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 217 Score = 245 bits (625), Expect = 8e-63, Method: Composition-based stats. Identities = 94/215 (43%), Positives = 138/215 (64%) 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 SVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 +++ A++IL + +F + + + + + + Sbjct: 181 ALSFAAKILVEHFKVFESADANTQFSEVMVEKEDD 215 >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 = 245 bits (625), Expect = 8e-63, 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|156788956|gb|ABU96049.1| RNA polymerase subunit A [Vibrio parahaemolyticus] Length = 258 Score = 245 bits (625), Expect = 8e-63, Method: Composition-based stats. Identities = 112/260 (43%), 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: 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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y Sbjct: 182 ATILTEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHY 238 Query: 281 MGDLIQRTEADMLRMANFGR 300 +GDL+QRTE ++L+ N G+ Sbjct: 239 IGDLVQRTEVELLKTPNLGK 258 >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 = 245 bits (625), Expect = 8e-63, Method: Composition-based stats. Identities = 74/307 (24%), Positives = 148/307 (48%), Gaps = 9/307 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 + +E+ G+ I PL +G A +G A+RR L+ + G IT + + + H Sbjct: 14 RWKCVEFRADGKR-LYYGRFILSPLKKGQADIIGIAMRRALLGEIEGTCITYAKFEKIPH 72 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ G+ E + +I++N+K I L+ + + +I RGP VTA DI + +++ Sbjct: 73 EYTTLVGIQESVYEIVMNLKEIVLRSNLYGTRDASICVRGPRDVTAQDIILPPSVAIVDN 132 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 I L + L + + GY T + IDA++ P+K V++++ + Sbjct: 133 TQHIVTLTEPIDFCVGLQIERNRGYSMKIPMPTNSHDDRGYPIDAVFMPVKNVNHSIHAY 192 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--VK 248 G ++ L I T+GS+T ++++ ASR L + F++ EE ++ + N + Sbjct: 193 ENGS---HEMLFFEIWTNGSLTPKEALREASRKLINLFIPFLHAEEENSHLENNQNQHTE 249 Query: 249 SLPFNPALLKKV---EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L + LK + + +EL R N L+G I + DL+ + ++++ +F + + + Sbjct: 250 ELSIDLCGLKDIYIDQLVELPPRLYNSLKGSGIHTVMDLMDKNTDALMKIPHFRHEDVEK 309 Query: 306 IKGVLGT 312 + +L Sbjct: 310 VMNILNK 316 >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 = 245 bits (625), Expect = 8e-63, 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|69215820|gb|AAZ03866.1| RNA polymerase alpha chain [Ginkgo biloba] Length = 337 Score = 245 bits (625), Expect = 9e-63, Method: Composition-based stats. Identities = 85/332 (25%), Positives = 149/332 (44%), Gaps = 24/332 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE V G+ PL +G A+T+G A+RR L+ + G IT + + + Sbjct: 13 LRWKCIESRVNGKRLH-YGRFALSPLQKGQANTIGIAMRRALLGEVEGTCITHAKFENMT 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI +N++GI L+ + +I+ GP VTA DI + +++ Sbjct: 72 HEYSAIMGIEESVHDISINLRGIVLQSDPYGIREASIYSVGPRDVTAQDIILPPSVRIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I +L + + K GY + + + G+ + DA+ P++ +Y++ S Sbjct: 132 TTQHIASLKESITSDIRSQIGKDRGYRIQSPNNSRD---GIFSTDAVSMPVRNANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + + L I T+GS+ +++ ASR L D F+ EE + ++ N Sbjct: 189 YGNGNEM-QEILFSEIWTNGSLAPGEALYEASRNLIDLFIPFMRAEEQNIDGIDNWNGYN 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 K +++ EL R NCL+ NI + DL+ + D Sbjct: 248 MSLFPFSHISTDTEKMEEEIAFKHIFIDQSELPPRVYNCLKRVNIHTLSDLLNYSRDDPT 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 R+ NFG +S+ +I VL ++LP Sbjct: 308 RIENFGNQSVEQILEVL---QKRFAIDLPKKK 336 >gi|119668355|emb|CAK95472.1| RNA polymerase alpha subunit [Lactobacillus plantarum] Length = 214 Score = 245 bits (625), Expect = 9e-63, Method: Composition-based stats. Identities = 98/214 (45%), Positives = 145/214 (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 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + I +GP VTA DI D+EVLNPD IC + A M +T + G GYV A+ + Sbjct: 61 KTLEIDVKGPANVTASDIIGDADVEVLNPDLPICTVADGAHFHMRMTANTGRGYVSAEDN 120 Query: 162 R--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 + ++ 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|119668283|emb|CAK95498.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 220 Score = 244 bits (624), Expect = 1e-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|72534420|emb|CAH59046.1| DNA-directed RNA polymerase alpha chain [Enterococcus canis] Length = 218 Score = 244 bits (624), Expect = 1e-62, Method: Composition-based stats. Identities = 97/218 (44%), Positives = 143/218 (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 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 +IL + L +F+N + K + + + L Sbjct: 181 KILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMT 218 >gi|150036794|emb|CAM98273.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. mesenteroides] Length = 213 Score = 244 bits (624), Expect = 1e-62, Method: Composition-based stats. Identities = 93/211 (44%), Positives = 138/211 (65%), Gaps = 2/211 (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 ITGEDSVALASRILQDQLGMFINFEEPKKEV 241 + D+++L ++IL + LG+F++ E Sbjct: 181 VKPSDALSLGAKILAEHLGLFMDISPVAAEA 211 >gi|301633194|gb|ADK86748.1| DNA-directed RNA polymerase, alpha subunit [Mycoplasma pneumoniae FH] Length = 327 Score = 244 bits (623), Expect = 2e-62, Method: Composition-based stats. Identities = 91/308 (29%), Positives = 160/308 (51%), Gaps = 13/308 (4%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 N + PL GF T+GNA+RRVL+S + GA++ A+ I G E ++++G+ ED+ Sbjct: 18 ANPNYGIFEVGPLESGFGITIGNAMRRVLLSCIPGASVFALSISGAKQEFAAVEGMKEDV 77 Query: 83 TDIILNIKGINLKMSG----DSHKR---------VTIFKRGPGVVTAGDIQTVNDIEVLN 129 T+++LN K + +K+S D +T+ G V A D++ EV+N Sbjct: 78 TEVVLNFKQLVVKISDLLFEDGEMVEPPLERWPLLTVTAEKAGPVYAKDLECPAGFEVVN 137 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 D + +L D V + + V +G G+V +R + +G+I D+ +SP+ Y V+ Sbjct: 138 KDLYLFSLQTDKKVTVNVYVKQGRGFVTFLENREMINSLGIIATDSNFSPVLHCGYEVQE 197 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + + D L+ I T+G+I+ D+ A+A++IL + L +N E K + Sbjct: 198 LKTSKQKITDHLTFKIATNGAISAVDAFAMAAKILIEHLNPIVNVNESIKALNIIQEKAE 257 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + K++EEL+ +VR+ NCL+ I + +L+ ++ AD+ + N G+KS EI Sbjct: 258 ERRVRSFAKQIEELDFTVRTFNCLKRSGIHTLQELLSKSLADIREIRNLGKKSEREIIKK 317 Query: 310 LGTMGLFL 317 + +GL L Sbjct: 318 VHELGLKL 325 >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 = 244 bits (623), Expect = 2e-62, Method: Composition-based stats. Identities = 82/330 (24%), Positives = 150/330 (45%), Gaps = 22/330 (6%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++I+ +E + + P RG +T+G A+RR L+ + GA+IT + + Sbjct: 10 TQVIQWKCVESKTESKRLH-HGRSVISPFKRGQVNTVGIAMRRALLEEVGGASITCAKFE 68 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S+I G+ E + DI +N+K + + K + GP VTAGD ++ Sbjct: 69 GVIHEYSTITGIQETIHDISVNLKETVPRSDSNDSKEAFLSVTGPKRVTAGDTSLPPSVK 128 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +++ I + V +E + K GY + + + G +DA+ P++ V+Y+ Sbjct: 129 IIDDSQYIVTITQPISVNIESRIEKDCGYRIEEFNGYRD---GEFPVDAVPMPVRNVNYS 185 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED-- 244 V G+ + + + I T+GS T +++ AS+ L D L F++ + ED Sbjct: 186 VHPFGSGREM-REISFIEIWTNGSPTPNEALCEASKNLIDLLIPFLHMKHEDVPHFEDEQ 244 Query: 245 ------------INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 I V +++LE R+ NCL+ I + DL+ + D+ Sbjct: 245 DSSDLTILSSQLIGVGESEGEVLRNTFIDQLESPARAFNCLKRAEIHTITDLLNHSREDL 304 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 L++ +FG+KS+ ++ L LP Sbjct: 305 LKIKSFGKKSVDQVSRALWE---RFATELP 331 >gi|150036760|emb|CAM98030.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 223 Score = 244 bits (622), Expect = 2e-62, 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|86438812|emb|CAJ43371.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 213 Score = 244 bits (622), Expect = 2e-62, 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|197131686|gb|ACH47361.1| RNA polymerase alpha subunit [Erodium chrysanthum] Length = 329 Score = 244 bits (622), Expect = 2e-62, Method: Composition-based stats. Identities = 79/307 (25%), Positives = 147/307 (47%), Gaps = 11/307 (3%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 + +E+ G+ I PL +G A +G A+RR L+ + G IT Q + + H Sbjct: 14 RWKCVEFRADGKR-LYYGRFILSPLKKGQADIIGIAMRRALLGEIEGTCITHAQFEKIPH 72 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E ++ G+ E + +I++N+K I L+ S + +I RGP VTA DI + +++ Sbjct: 73 EYTTRVGIQESVYEIVMNLKEIVLRSSLYGTRDASICVRGPRDVTAQDIILPPSVSIVDN 132 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 I L + L + + GY + IDA++ P+K V++++ S Sbjct: 133 TQHIVTLTEPIEFCVALQIERNRGYSLRIPTPNNSHDERGYPIDAVFMPVKNVNHSIHSY 192 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 G ++ L I T+GS+T ++++ ASR L + F++ EE K + + N + Sbjct: 193 ENGS---HEMLFFEIWTNGSLTPKEALREASRKLINLFIPFLHAEEEKPHFENNQN-EPR 248 Query: 251 PFNPALLKKVEEL------ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 L +++E+ ELS R N L+G I + DL+ + D+L++ +F ++ + Sbjct: 249 DELLVDLCELKEIYIDQLVELSPRLYNILKGSGIHTVMDLLDKNPDDLLKLRHFRQEDVE 308 Query: 305 EIKGVLG 311 + +L Sbjct: 309 RVMNILN 315 >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 = 243 bits (621), Expect = 2e-62, Method: Composition-based stats. Identities = 73/307 (23%), Positives = 143/307 (46%), Gaps = 11/307 (3%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 + +E G+ I PL +G A +G A+RR L+ + G IT + D + H Sbjct: 14 RWKCVESRADGKR-LYYGRFILSPLKKGQADIIGIAMRRALLGEIEGTCITHAKFDKIPH 72 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ G+ E + +I++N+K I L+ + +I RGP VTA DI +++ Sbjct: 73 EYTTLVGIQESIYEILMNLKEIVLRSHLYGTRDASICVRGPRDVTAQDIILPTSATIVDN 132 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 I + + L + + GY T ID+++ P+K V++++ S Sbjct: 133 TQHIVTITEPIDFCVGLQIERNRGYFIQIPMLTNLHDDRGYPIDSVFMPVKNVNHSIHSY 192 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 G + L + I T+GS+T ++++ ASR L + F++ EE + + N + Sbjct: 193 ENG---IHAMLFLEIWTNGSLTPKEALREASRKLSNLFIPFLHAEEQNFHFENNQNEHTD 249 Query: 251 PFNPALLKKVEEL------ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 P ++++ EL R NCL+ I + DL+ + D++++ +F ++ + Sbjct: 250 EL-PIDFCALKDIYIDQLVELPARFYNCLKISGIHTVMDLLNKNTEDLMKITHFRQQDIE 308 Query: 305 EIKGVLG 311 ++ +L Sbjct: 309 KVMHILN 315 >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 = 243 bits (621), Expect = 2e-62, Method: Composition-based stats. Identities = 91/308 (29%), Positives = 160/308 (51%), Gaps = 13/308 (4%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 N + PL GF T+GNA+RRVL+S + GA++ A+ I G E ++++G+ ED+ Sbjct: 18 ANPNYGIFEVGPLESGFVITIGNAMRRVLLSCIPGASVFALSISGAKQEFAAVEGMKEDV 77 Query: 83 TDIILNIKGINLKMSG----DSHKR---------VTIFKRGPGVVTAGDIQTVNDIEVLN 129 T+++LN K + +K+S D +T+ G V A D++ EV+N Sbjct: 78 TEVVLNFKQLVVKISDLLFEDGEMVEPPLERWPLLTVTAEKAGPVYAKDLECPAGFEVVN 137 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 D + +L D V + + V +G G+V +R + +G+I D+ +SP+ Y V+ Sbjct: 138 KDLYLFSLQTDKKVTVNVYVKQGRGFVTFLENREMINSLGIIATDSNFSPVLHCGYEVQE 197 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + + D L+ I T+G+I+ D+ A+A++IL + L +N E K + Sbjct: 198 LKTSKQKITDHLTFKIATNGAISAVDAFAMAAKILIEHLNPIVNVNESIKALNIIQEKAE 257 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + K++EEL+ +VR+ NCL+ I + +L+ ++ AD+ + N G+KS EI Sbjct: 258 ERRVRSFAKQIEELDFTVRTFNCLKRSGIHTLQELLSKSLADIREIRNLGKKSEREIIKK 317 Query: 310 LGTMGLFL 317 + +GL L Sbjct: 318 VHELGLKL 325 >gi|161513434|emb|CAP16860.1| DNA-directed RNA polymerase subunit alpha [Pediococcus cellicola] Length = 214 Score = 243 bits (621), Expect = 3e-62, Method: Composition-based stats. Identities = 96/202 (47%), Positives = 142/202 (70%), Gaps = 2/202 (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 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 K + I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A Sbjct: 61 EEKSLEINVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAVLTADTGRGYVSAD 120 Query: 160 HHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 ++ ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ ++ Sbjct: 121 ENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSISPSEAT 180 Query: 218 ALASRILQDQLGMFINFEEPKK 239 +L+++IL + L +F+N + + Sbjct: 181 SLSAKILTEHLALFVNLTDEAQ 202 >gi|119662363|emb|CAJ33170.1| RNA polymerase alpha subunit [Lactobacillus spicheri] Length = 210 Score = 243 bits (620), Expect = 3e-62, Method: Composition-based stats. Identities = 98/210 (46%), Positives = 145/210 (69%), 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 PAKHHRTEN--DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A ++ N 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|119662301|emb|CAJ33138.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. delbrueckii] Length = 215 Score = 243 bits (620), Expect = 3e-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|167957552|ref|ZP_02544626.1| DNA-directed RNA polymerase subunit alpha [candidate division TM7 single-cell isolate TM7c] Length = 294 Score = 243 bits (620), Expect = 3e-62, 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 EKLIVVIDTDGSITPRDAFEEAAAILVNQYTALAGSTVVESAPALGQEREEESNE--LNT 250 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +E+L+L+ R+ N L +I + DL+ TE D+ + FG K Sbjct: 251 SIEDLDLTARTANALINNDIRTVQDLVTLTEQDLRELKGFGSK 293 >gi|71056858|emb|CAH58984.1| DNA-directed RNA polymerase alpha chain [Enterococcus villorum] Length = 208 Score = 242 bits (619), Expect = 4e-62, 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|290489672|gb|ADD31220.1| RNA polymerase alpha subunit protein [Phoradendron serotinum] Length = 326 Score = 242 bits (619), Expect = 4e-62, Method: Composition-based stats. Identities = 82/316 (25%), Positives = 158/316 (50%), Gaps = 22/316 (6%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +K + + + I PL +G A T+G A+RR L+ + G IT + D + Sbjct: 13 LKWKCV-ASRVDNKRFYYGRFILSPLIKGQADTIGIAMRRALLGEIEGTCITRAKSDQIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I+G+ E + DI++N+K I L+ + +I+ +GP +TA DI +E+++ Sbjct: 72 HEYSTIRGIQESVHDILINLKEIVLRSNLYGTCNASIYIKGPRYITAQDIILPPYVEIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 +I +L + L + K GY +N G +I+A++ P++ ++++ + Sbjct: 132 HTQIIASLTEQIDFGIGLQIEKNRGYRIIT---PKNLQEGNFSIEAIFMPVRNANHSIHN 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 E + L + I T+GS+T ++++ A+R L D F++ ++ K V+++ + S Sbjct: 189 YNEKL----EILFLEIWTNGSLTPKEALHEAARNLIDLFIPFLHVKKEKLHVEDNQHKLS 244 Query: 250 LPFNPALLKK--------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 L L+K +++ ELS R NCL+ NI + DL+ + D++++ Sbjct: 245 LFTFHDRLQKLRKTKEKIALKSIFIDQSELSPRIYNCLKSSNIQNILDLLNKNREDLMKI 304 Query: 296 ANFGRKSLVEIKGVLG 311 +F + L I G+L Sbjct: 305 EHFRIEDLKHIWGILE 320 >gi|156752145|gb|ABU93823.1| RNA polymerase subunit A [Vibrio sp. 23023] Length = 256 Score = 242 bits (619), Expect = 4e-62, Method: Composition-based stats. Identities = 113/259 (43%), Positives = 172/259 (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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Sbjct: 181 RAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAI 237 Query: 279 VYMGDLIQRTEADMLRMAN 297 Y+GDL+QRTE ++L+ N Sbjct: 238 HYIGDLVQRTEVELLKTPN 256 >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 = 242 bits (619), Expect = 5e-62, Method: Composition-based stats. Identities = 100/322 (31%), Positives = 171/322 (53%), Gaps = 7/322 (2%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 V+ Q N +IA P GFA +L + +RR L+SS G A ++I+G HE S++G+ Sbjct: 15 VVEQISANEANIIAYPFETGFAVSLAHPIRRFLLSSSVGFAPIGIKIEGAKHEFDSVRGM 74 Query: 79 HEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 ED++D I+N+KGI K+ +G K +T GP + D+ D+EV+ P+ + L Sbjct: 75 LEDISDFIINLKGIRFKLKNGLKEKEITYSFAGPCEIHGSDLDND-DVEVVTPNAFLATL 133 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + DA + + + +G GY P++ R + G I +DA ++P+++ +Y +E+ + Sbjct: 134 NEDATLNFSVKIHQGIGYAPSEDVR-DILGDGYIALDAYFTPVRRATYAIENVLVEDNPN 192 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 ++K+ + I TDG I+ D+ A ++ Q+ +F N E K P L Sbjct: 193 FEKVVINIATDGQISPVDAFKNALEVMYAQMAVF-NSEVSIKAPAAAERGDEHPELKRLG 251 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 ++E+L LS RS NCL NI Y+G+++ ++ D+ + N G+KS EI + G + Sbjct: 252 ARIEDLGLSARSFNCLDRSNIKYIGEIVMMSQNDLKEVKNLGKKSFEEILEKITEYGYTV 311 Query: 318 GMNLPDWPPESIEELAKKYEDK 339 G +L D + I + KK E + Sbjct: 312 GQDLAD---DLISAIKKKIEAE 330 >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 = 242 bits (618), Expect = 5e-62, Method: Composition-based stats. Identities = 102/327 (31%), Positives = 175/327 (53%), Gaps = 7/327 (2%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P +I +G+ N+ + A P G+A TL + LRR+L+ S G A TA++I+G HE Sbjct: 11 PTDISIQEIGK---NKIKISAYPFESGYAITLAHPLRRLLLGSSVGFAPTALKIEGAAHE 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 N E + + + Sbjct: 186 LVEDNPTYEKIVLEIETDGLIEPIAAFKDALGVMQKQMSVF-NSEWSVSSAESTSSDEED 244 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 P LL+K+E L LS RS NCL + ++G+L+ E ++ + N G+KS EIK L Sbjct: 245 PELKPLLQKIEALNLSARSFNCLDRAGMKFVGELVLLGENELKEVKNLGKKSFDEIKDKL 304 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYE 337 +G +G +L + ++++ K + Sbjct: 305 EEIGYPVGSDLAEEVSSALQKRLNKLK 331 >gi|71056856|emb|CAH58983.1| DNA-directed RNA polymerase alpha chain [Enterococcus villorum] Length = 219 Score = 242 bits (618), Expect = 6e-62, 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|154424803|emb|CAL18504.1| RNA polymerase alpha subunit [Streptococcus hyovaginalis] Length = 212 Score = 242 bits (618), Expect = 6e-62, 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|119668361|emb|CAK95513.1| RNA polymerase alpha subunit [Lactobacillus reuteri] Length = 211 Score = 242 bits (617), Expect = 7e-62, Method: Composition-based stats. Identities = 97/210 (46%), Positives = 150/210 (71%), 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 YVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 Y+ A ++ ++ 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|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 = 242 bits (617), Expect = 7e-62, 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 HEDLTDIILNIKGINLKMSGDSHKRVT-IFKRGPGVVTAGDIQ--TVNDIEVLNPDHVIC 135 ED+ I+LN+K I + +T + +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 + Sbjct: 194 LVDKALHLEIWTNGSISPQEALHQAARILTHWFNPLQTLEWKTSHTKNEQ-----TMAQL 248 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +EEL+LSVR+ NCL+ I + DL+Q T+ ++L + NFG+KS+ E+ L Sbjct: 249 SNMLIEELDLSVRAYNCLKRAQIHSVADLMQYTQEELLALKNFGQKSVEEVNKALEQK 306 >gi|119662841|emb|CAJ33213.1| RNA polymerase alpha subunit [Lactobacillus fructivorans KCTC 3543] Length = 220 Score = 242 bits (617), Expect = 8e-62, Method: Composition-based stats. Identities = 101/220 (45%), Positives = 150/220 (68%), 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 SHKR--VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP 157 ++ ++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|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 = 241 bits (616), Expect = 8e-62, Method: Composition-based stats. Identities = 89/339 (26%), Positives = 155/339 (45%), Gaps = 26/339 (7%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 Q + Q ++ +E P +G A T+GNALRR L+ ++GAAIT Sbjct: 105 QSSTQSPLQWRCVETFKENDHRH-YARFAVSPFRQGQAITVGNALRRALLGEVQGAAITC 163 Query: 63 VQI--DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 G++HE ++ G+ E + DI+LN++ + + + ++ I GP V AGDI Sbjct: 164 ATFKDMGIVHEYQAVDGIQETVQDILLNVRDVAIGSNTHEPQKAFISVMGPRQVIAGDIL 223 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 + V +P I + +E+ V K GY ++ N G ID+++ P+ Sbjct: 224 CPPSLVVPDPSQNIALVTAAIPFNVEIEVEKDVGYRIVDPGKSTN---GRFYIDSVFMPV 280 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 + +Y+V S V + L + I T+GSI+ E+++ A+R L D L + E + Sbjct: 281 VQANYSVHSFEVEDVT-REILFLEIYTNGSISPEEALIEAARSLIDLLLPLLESEVIEVT 339 Query: 241 VKEDINVKSLPFNPALLKK----------------VEELELSVRSTNCLRGENIVYMGDL 284 + S + +++L+L R+ NCL+ NI + DL Sbjct: 340 NTTEKENGSRNISMLSSFLSSSDQITKEVTYKHVFIDQLKLPARAYNCLKRANIHTVSDL 399 Query: 285 IQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 + T+ D++R+ NFG+KS+ E+ L ++LP Sbjct: 400 LDYTQDDLMRIKNFGKKSVEEVLEALRA---QFNISLPK 435 >gi|156752143|gb|ABU93822.1| RNA polymerase subunit A [Vibrio sp. 0908] Length = 257 Score = 241 bits (616), Expect = 8e-62, Method: Composition-based stats. Identities = 109/258 (42%), Positives = 172/258 (66%), 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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y Sbjct: 183 ATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHY 239 Query: 281 MGDLIQRTEADMLRMANF 298 +GDL+QRTE ++L+ N Sbjct: 240 IGDLVQRTEVELLKTPNL 257 >gi|161511715|emb|CAP16868.1| DNA-directed RNA polymerase subunit alpha [Pediococcus acidilactici] Length = 225 Score = 241 bits (616), Expect = 9e-62, Method: Composition-based stats. Identities = 102/225 (45%), Positives = 144/225 (64%), 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 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR- 162 + I GP VTAGDI D+ VLNPD IC + LT G GY A ++ Sbjct: 61 LDINVVGPANVTAGDIMGDGDVTVLNPDSPICTVAEGTTFHAVLTADTGRGYTSADENKA 120 Query: 163 -TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 + 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|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 = 241 bits (616), Expect = 9e-62, Method: Composition-based stats. Identities = 89/328 (27%), Positives = 162/328 (49%), Gaps = 23/328 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + P +G A+T+G A+RR L+ + G +IT+ + G Sbjct: 13 VQWKCVESRIESKRLH-YGRFAISPFQKGQANTVGIAIRRALLGEVGGTSITSAKFQGAA 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ G+ E + DI++N+K I L+ + ++ I GP + AGDIQ + +++++ Sbjct: 72 HEYSTMAGIQESIHDILMNLKEIVLENNSYEVQKGFIQVIGPKKILAGDIQVCSSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P I + + +EL + K GY EN+ IDA++ PI+ +Y+V S Sbjct: 132 PSQYIATITKSISLNIELKIEKDRGYRIKNTDLKENE----FPIDAIFMPIRNANYSVHS 187 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDI 245 ++ + L Y+ L + I T+GS+T E +++ A+R L D + I+ E DI Sbjct: 188 FQKNKQL-YEILFLEIWTNGSLTPEKAISEATRNLIDLVVPLIHIGDKLTENPINGTSDI 246 Query: 246 NVKSLPFNPALLKK----------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 N S+ L K +++LEL R+ N L+ N+ + DL+ TE D+ + Sbjct: 247 NFPSVSGTNDLNKIAQEVAFKNIFIDQLELPARAYNGLKKVNVHTVSDLLMYTETDLRNI 306 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 + G+KS+ +I L + + L + Sbjct: 307 RSLGKKSVEQI---LEALQKKFAIKLSE 331 >gi|154424747|emb|CAL18476.1| RNA polymerase alpha subunit [Streptococcus pneumoniae] Length = 216 Score = 241 bits (616), Expect = 1e-61, 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|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 = 241 bits (615), Expect = 1e-61, Method: Composition-based stats. Identities = 89/339 (26%), Positives = 155/339 (45%), Gaps = 26/339 (7%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 Q + Q ++ +E P +G A T+GNALRR L+ ++GAAIT Sbjct: 192 QSSTQSPLQWRCVETFKENDHRH-YARFAVSPFRQGQAITVGNALRRALLGEVQGAAITC 250 Query: 63 VQI--DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 G++HE ++ G+ E + DI+LN++ + + + ++ I GP V AGDI Sbjct: 251 ATFKDMGIVHEYQAVDGIQETVQDILLNVRDVAIGSNTHEPQKAFISVMGPRQVIAGDIL 310 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 + V +P I + +E+ V K GY ++ N G ID+++ P+ Sbjct: 311 CPPSLVVPDPSQNIALVTAAIPFNVEIEVEKDVGYRIVDPGKSTN---GRFYIDSVFMPV 367 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 + +Y+V S V + L + I T+GSI+ E+++ A+R L D L + E + Sbjct: 368 VQANYSVHSFEVEDVT-REILFLEIYTNGSISPEEALIEAARSLIDLLLPLLESEVIEVT 426 Query: 241 VKEDINVKSLPFNPALLKK----------------VEELELSVRSTNCLRGENIVYMGDL 284 + S + +++L+L R+ NCL+ NI + DL Sbjct: 427 NTTEKENGSRNISMLSSFLSSSDQITKEVTYKHVFIDQLKLPARAYNCLKRANIHTVSDL 486 Query: 285 IQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 + T+ D++R+ NFG+KS+ E+ L ++LP Sbjct: 487 LDYTQDDLMRIKNFGKKSVEEVLEALRA---QFNISLPK 522 >gi|157493283|gb|ABV58007.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 249 Score = 241 bits (615), Expect = 1e-61, Method: Composition-based stats. Identities = 110/252 (43%), Positives = 168/252 (66%), 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++ + + + F+P LL+ V++LEL+V Sbjct: 181 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTV 237 Query: 268 RSTNCLRGENIV 279 RS NCL+ E I Sbjct: 238 RSANCLKAEAIH 249 >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 = 241 bits (615), Expect = 1e-61, Method: Composition-based stats. Identities = 99/320 (30%), Positives = 170/320 (53%), Gaps = 15/320 (4%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 NI+ ++ + + + +PL RGF HTLGN+LRRVL+S++ G ++ A++I V HE Sbjct: 8 NIQIGKDQNKDADYGVFVFKPLERGFGHTLGNSLRRVLLSNIIGHSLFAIKIPNVSHEFQ 67 Query: 74 SIKGVHEDLTDIILNIKGINLKMS----GDSHKRVTIFKRGP---------GVVTAGDIQ 120 SIKGV EDLT IILN+K + +K+ G+ ++ T ++ P 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 GRKSLVEIKGVLGTMGLFLG 318 G+KS EI + L L Sbjct: 308 GKKSFKEIIKKIQDRNLKLK 327 >gi|269784300|emb|CBH50795.1| alpha subunit of RNA polymerase [Vibrio sp. C 14.7] Length = 261 Score = 241 bits (615), Expect = 1e-61, Method: Composition-based stats. Identities = 113/264 (42%), Positives = 172/264 (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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMANFGRKSLVEIKGVLGTM 313 ++L+ N G+KSL EIK VL + Sbjct: 238 VELLKTPNLGKKSLTEIKDVLASR 261 >gi|161511721|emb|CAP16871.1| DNA-directed RNA polymerase subunit alpha [Pediococcus acidilactici] Length = 225 Score = 241 bits (615), Expect = 1e-61, Method: Composition-based stats. Identities = 101/225 (44%), Positives = 142/225 (63%), 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 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 K + I GP VTAGDI D+ VLNPD IC + LT G GY A Sbjct: 61 DEKTLDINVVGPANVTAGDIMGDGDVTVLNPDSPICTVAEGTTFHAVLTADTGRGYTSAD 120 Query: 160 HHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 ++ + 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|119668321|emb|CAK95507.1| RNA polymerase alpha subunit [Lactobacillus gasseri] Length = 214 Score = 241 bits (615), Expect = 1e-61, Method: Composition-based stats. Identities = 98/212 (46%), Positives = 143/212 (67%) 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 LASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 A++IL + +F++ + + + + Sbjct: 181 FAAKILVEHFKVFMSTDMDAQFDDVMVEKEDD 212 >gi|308125193|gb|ADO14945.1| DNA-directed RNA polymerase alpha chain [Enterococcus saccharolyticus] Length = 204 Score = 241 bits (615), Expect = 1e-61, 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|150036834|emb|CAM98282.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax] Length = 228 Score = 241 bits (614), Expect = 1e-61, 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|119662317|emb|CAJ33146.1| RNA polymerase alpha subunit [Lactobacillus johnsonii] Length = 214 Score = 241 bits (614), Expect = 2e-61, Method: Composition-based stats. Identities = 98/212 (46%), Positives = 143/212 (67%) 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 LASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 A++IL + +F++ + + + + Sbjct: 181 FAAKILVEHFKVFMSTDMDAQFDDVMVEKEDD 212 >gi|193795092|gb|ACF21675.1| RpoA [Sinorhizobium sp. 206] Length = 212 Score = 241 bits (614), Expect = 2e-61, Method: Composition-based stats. Identities = 150/212 (70%), Positives = 181/212 (85%), 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 RILQDQLGVFVNFDEPQKEAEEE-SVTELAFNPALLKKVDELELSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 GDLIQ+TEA+MLR NFGRKSL EIK VL +M Sbjct: 180 GDLIQKTEAEMLRTPNFGRKSLNEIKEVLASM 211 >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 = 241 bits (614), Expect = 2e-61, Method: Composition-based stats. Identities = 77/314 (24%), Positives = 147/314 (46%), Gaps = 19/314 (6%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++I+ +E + + P RG T+G A+RR + + G +IT + Sbjct: 10 TQVIQWKCVESKTESKRLH-YGRFVVSPFKRGQVSTVGIAMRRASLEEVEGTSITCARFH 68 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S+I G+ E + D+++N+K I K + + GP VTAGD ++ Sbjct: 69 GVVHEYSTITGIQETIRDVLVNLKEIAPKSDSNDIQEAVSSVTGPKKVTAGDTLLPPSVK 128 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 ++ + + V +E + K GY H G +DA+ P++ V+Y+ Sbjct: 129 AIDDSQYVVTITQPISVNIESKIEKDCGYRIENSH---GYGGGEFPVDAVSMPVRNVNYS 185 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EPKKEVKEDI 245 V G+ + + L + I T+GS+T ++++ AS+ L D L F++ + E ++ Sbjct: 186 VHLFGSGKAM-RETLFIEIWTNGSLTPDEAICEASKKLIDLLTPFLHVKCEDVPHSGDNQ 244 Query: 246 NVKSLPFNPALLKK-------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + + +P+ +++LEL R+ NCL+ I + DL+ + D Sbjct: 245 DFSASTGSPSHFDDVSELEGKISKNTFIDQLELPARAFNCLKRAEIHTISDLLNYSREDS 304 Query: 293 LRMANFGRKSLVEI 306 R+ +FG+KS+ ++ Sbjct: 305 SRIKSFGQKSVDQV 318 >gi|150187048|emb|CAK30159.1| RNA polymerase alpha subunit [Streptococcus australis ATCC 700641] Length = 217 Score = 241 bits (614), Expect = 2e-61, 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|156752147|gb|ABU93824.1| RNA polymerase subunit A [Vibrio sp. 09022] Length = 256 Score = 241 bits (614), Expect = 2e-61, Method: Composition-based stats. Identities = 111/259 (42%), Positives = 171/259 (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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y+ Sbjct: 181 TILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYI 237 Query: 282 GDLIQRTEADMLRMANFGR 300 GDL+QRTE ++L+ N G+ Sbjct: 238 GDLVQRTEVELLKTPNLGK 256 >gi|190411113|gb|ACE78311.1| RpoA [Vibrio campbellii] Length = 257 Score = 241 bits (614), Expect = 2e-61, Method: Composition-based stats. Identities = 111/260 (42%), Positives = 172/260 (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++ + + + F+P LL+ V++LEL+VRS NC + E I Y Sbjct: 181 ATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCRKAEAIHY 237 Query: 281 MGDLIQRTEADMLRMANFGR 300 +GDL+QRTE ++L+ N G+ Sbjct: 238 IGDLVQRTEVELLKTPNLGK 257 >gi|119662279|emb|CAJ33126.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 210 Score = 240 bits (613), Expect = 2e-61, Method: Composition-based stats. Identities = 92/210 (43%), Positives = 136/210 (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 LASRILQDQLGMFINFEEPKKEVKEDINVK 248 A++IL + +F + + + + + + Sbjct: 181 FAAKILVEHFKVFESADANTQFSEVMVEKE 210 >gi|119668281|emb|CAK95497.1| RNA polymerase alpha subunit [Lactobacillus amylolyticus] Length = 217 Score = 240 bits (613), Expect = 2e-61, 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|119662367|emb|CAJ33172.1| RNA polymerase alpha subunit [Lactobacillus ultunensis] Length = 212 Score = 240 bits (613), Expect = 2e-61, 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|308125189|gb|ADO14943.1| DNA-directed RNA polymerase alpha chain [Enterococcus pallens] Length = 204 Score = 240 bits (613), Expect = 2e-61, 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|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 = 240 bits (613), Expect = 2e-61, Method: Composition-based stats. Identities = 97/328 (29%), Positives = 172/328 (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 EISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 E S++G+ ED++D ILN+K I K+ + S +++ 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|308125199|gb|ADO14948.1| DNA-directed RNA polymerase alpha chain [Enterococcus termitis] Length = 204 Score = 240 bits (613), Expect = 2e-61, 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|308125183|gb|ADO14940.1| DNA-directed RNA polymerase alpha chain [Enterococcus aquimarinus] Length = 204 Score = 240 bits (612), Expect = 2e-61, 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|295809868|emb|CBL85110.1| alpha subunit of RNA polymerase [Vibrio tapetis] Length = 263 Score = 240 bits (612), Expect = 3e-61, Method: Composition-based stats. Identities = 112/263 (42%), Positives = 170/263 (64%), 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-AVVRMELTVSKGHGYVPAKHH---RTENDPIG 169 V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA + 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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDIRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMANFGRKSLVEIKGVLGT 312 ++L+ N G KSL EIK VL + Sbjct: 238 VELLKTPNLGNKSLTEIKDVLAS 260 >gi|150187035|emb|CAK30156.1| RNA polymerase alpha subunit [Streptococcus entericus] Length = 222 Score = 240 bits (612), Expect = 3e-61, 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|71056860|emb|CAH58985.1| DNA-directed RNA polymerase alpha chain [Enterococcus gilvus] Length = 205 Score = 240 bits (612), Expect = 3e-61, 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|193795085|gb|ACF21672.1| RpoA [Rhizobium tropici] gi|193795087|gb|ACF21673.1| RpoA [Rhizobium tropici] Length = 212 Score = 240 bits (612), Expect = 3e-61, Method: Composition-based stats. Identities = 152/213 (71%), Positives = 183/213 (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 NFGRKSL EIK VL +MG Sbjct: 180 GDLIQKTEAEMLRTPNFGRKSLNEIKEVLASMG 212 >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 = 240 bits (612), Expect = 3e-61, Method: Composition-based stats. Identities = 108/317 (34%), Positives = 179/317 (56%), Gaps = 11/317 (3%) Query: 13 NNIEYIVLGQEEENRTLMI----AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + +E++ Q +E+ P+ +G AH LGN++RRVL+SSL GA+I V I V Sbjct: 6 SKLEFVPNIQLKEDLGAFSYKVQLSPVEKGMAHILGNSIRRVLLSSLSGASIIKVNIANV 65 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+++ V ED+ +I+ N+K + +K+ + + + GVV AGD +T +E+ Sbjct: 66 LHEYSTLEDVKEDVVEIVSNLKKVAIKLDTGIDRLDLELSVNKSGVVRAGDFKTTQGVEI 125 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N D I L + TVS G TE + +G I +DA ++PIK+V++ V Sbjct: 126 INKDQPIATLTNQRAFSLTATVSVGRNVGILSAIPTELERVGDIAVDADFNPIKRVAFEV 185 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 D + L + + T+G+I +V A +Q+ +F++ P D+ + Sbjct: 186 FD-----NGDSETLEVFVKTNGTIGPLAAVTKALEYFCEQISVFVSLRVPSNGKTGDVLI 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 S +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK Sbjct: 241 DSN-IDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIK 299 Query: 308 GVLGTMGLFLGMNLPDW 324 +L L LG+ + ++ Sbjct: 300 QILIDNNLSLGVQIDNF 316 >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 = 240 bits (612), Expect = 3e-61, Method: Composition-based stats. Identities = 107/338 (31%), Positives = 167/338 (49%), Gaps = 10/338 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++K P IE + EN + A P G+A TL + LRR+L +S G A Sbjct: 1 MRKITTSAYMPTEIEVQSIS---ENVAKITAYPFETGYAVTLAHPLRRLLYTSTVGFAPI 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 ND-VVEIVNPDAYLATINEDAELNFSVIIQKGIGYVPSEEIREEIEDDY-IALDAFFTPV 175 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KK Y +E+ DY+K+ TI TDG + ++ + Q+ +F + Sbjct: 176 KKAVYELENVLVEDDPDYEKIVFTITTDGQVGPIEAFKHCLEAMYQQMSVFKGVLDIDVN 235 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + L VEEL LS RS NCL I Y+G+L E ++ + N G+ Sbjct: 236 APMMSSSVGGEHAKL-LSSVEELNLSARSFNCLDKAEIRYIGELALMDENELKDLKNLGK 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK V+ +G +G D +S E+L KK + Sbjct: 295 KSLEEIKAVMEEIGYPVG---SDVLKDSKEQLRKKIAE 329 >gi|193795065|gb|ACF21664.1| RpoA [Sinorhizobium sp. 72] Length = 212 Score = 240 bits (612), Expect = 3e-61, Method: Composition-based stats. Identities = 147/213 (69%), 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 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 RILQDQLSVFVNFDEPQKEAEEEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 GDLIQ+TEA+MLR NFGRKSL EIK VL + G Sbjct: 180 GDLIQKTEAEMLRTPNFGRKSLNEIKEVLASSG 212 >gi|150036786|emb|CAM98270.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 221 Score = 240 bits (612), Expect = 3e-61, 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|119668373|emb|CAK95478.1| RNA polymerase alpha subunit [Lactobacillus sakei subsp. carnosus] Length = 203 Score = 240 bits (612), Expect = 3e-61, 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|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 = 240 bits (612), Expect = 3e-61, Method: Composition-based stats. Identities = 105/322 (32%), Positives = 170/322 (52%), Gaps = 8/322 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + EN + A P G+A TL + LRR+L SS G A T V+I+GV HE S++G Sbjct: 5 ISVESISENVARITAYPFETGYAVTLAHPLRRLLYSSTVGFAATGVKIEGVSHEFDSMRG 64 Query: 78 VHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 + ED+ I+N+K I K+ +S + V +GP + AGD+++ ++++N D + Sbjct: 65 MLEDVAQFIINLKNIRFKLKNESEREVVEYSFKGPKEIKAGDLKSD-VVDIVNLDAYLAT 123 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 ++ DA ++ + + KG GYVP++ R +N G I +DA ++P+KK Y + + Sbjct: 124 INEDAELKFSVIIQKGIGYVPSEEIR-DNTEEGYIALDAFFTPVKKAVYELVNVLVEDNP 182 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 DY+K+ T+ TDG + ++ A + Q+ +F + S + L Sbjct: 183 DYEKIIFTVTTDGQVGAIEAFKHAIEAMYQQMSVFKGVLNIDVSAGLNAQT-SGSEHAKL 241 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 L+ VEEL LS RS NCL I ++G+L E ++ + N G+KSL EIK V+ +G Sbjct: 242 LQSVEELNLSARSFNCLDKAEIRFIGELALMDENELKELKNLGKKSLDEIKAVMQEIGYP 301 Query: 317 LGMNLPDWPPESIEELAKKYED 338 +G +L E+L KK D Sbjct: 302 VGGDLGG----GKEQLKKKIAD 319 >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 = 240 bits (612), Expect = 3e-61, Method: Composition-based stats. Identities = 105/322 (32%), Positives = 170/322 (52%), Gaps = 8/322 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + EN + A P G+A TL + LRR+L SS G A T V+I+GV HE S++G Sbjct: 5 ISVESISENVARITAYPFETGYAVTLAHPLRRLLYSSTVGFAATGVKIEGVSHEFDSMRG 64 Query: 78 VHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 + ED+ I+N+K I K+ +S + V +GP + AGD+++ ++++NPD + Sbjct: 65 MLEDVAQFIINLKNIRFKLKNESEREVVEYSFKGPKEIKAGDLKSD-VVDIVNPDAYLAT 123 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 ++ DA ++ + + KG GYVP++ R + G I +DA ++P+KK Y + + Sbjct: 124 INEDAELKFSVIIQKGIGYVPSEEIR-GDTEEGYIALDAFFTPVKKAVYELVNVLVEDNP 182 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 DY+K+ T+ TDG + ++ A + Q+ +F + S + L Sbjct: 183 DYEKIIFTVTTDGQVGAIEAFKHAIEAMYQQMSVFKGVLNIDISAGLNAQT-SGSEHAKL 241 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 L+ VEEL LS RS NCL I ++G+L E ++ + N G+KSL EIK V+ +G Sbjct: 242 LQSVEELNLSARSFNCLDKAEIRFIGELALMDENELKELKNLGKKSLEEIKAVMQEIGYP 301 Query: 317 LGMNLPDWPPESIEELAKKYED 338 +G +L E+L KK D Sbjct: 302 VGGDLGG----GKEQLKKKIAD 319 >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 = 239 bits (611), Expect = 3e-61, 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|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 = 239 bits (611), Expect = 3e-61, Method: Composition-based stats. Identities = 100/237 (42%), Positives = 153/237 (64%), Gaps = 7/237 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALR +L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRAILLSSMPGCAVT 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 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDL 234 >gi|71056862|emb|CAH58986.1| DNA-directed RNA polymerase alpha chain [Enterococcus malodoratus] Length = 205 Score = 239 bits (611), Expect = 4e-61, 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|150187071|emb|CAK30164.1| RNA polymerase alpha subunit [Streptococcus equi subsp. equi] Length = 215 Score = 239 bits (611), Expect = 4e-61, Method: Composition-based stats. Identities = 91/213 (42%), Positives = 144/213 (67%) 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 VALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + L++R+L + L +F + + K + + Sbjct: 181 LGLSARVLIEHLNLFTDLTDVAKATEVMKEAEK 213 >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 = 239 bits (611), Expect = 4e-61, Method: Composition-based stats. Identities = 109/319 (34%), Positives = 178/319 (55%), Gaps = 11/319 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 QE + PN + + P+ +G AH LGN++RRVL+SSL GA+I V I Sbjct: 8 QEFV-PN---IQLKEDLGAFSYKVQLSPVEKGMAHILGNSIRRVLLSSLSGASIIKVNIA 63 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDI 125 VLHE S+++ V ED+ +I+ N+K + +K+ + + + GVV+AGD +T + Sbjct: 64 NVLHEYSTLEDVKEDVVEIVSNLKKVAIKLDTAIDRLDLELSVNKSGVVSAGDFKTTQGV 123 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++N D I L + TVS G TE + +G I +DA ++PIK+V++ Sbjct: 124 EIINKDQPIATLTNQRAFSLTATVSVGRNVGILSAIPTELERVGDIAVDADFNPIKRVAF 183 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 V D + L + + T+G+I +V A +Q+ +F++ P D+ Sbjct: 184 EVFD-----NGDSETLEVFVKTNGTIEPLAAVTKALEYFCEQISVFVSLRVPSNGKTGDV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + S +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL E Sbjct: 239 LIDSN-IDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLGKKSLNE 297 Query: 306 IKGVLGTMGLFLGMNLPDW 324 IK +L L LG+ + ++ Sbjct: 298 IKQILIDNNLSLGVQIDNF 316 >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 = 239 bits (611), Expect = 4e-61, Method: Composition-based stats. Identities = 98/305 (32%), Positives = 159/305 (52%), Gaps = 4/305 (1%) 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 ISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 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 ELKP-FLVPVDALGLGARSFNSLDRAGIKYLGELVLMSENELKEIKNLGKKSLDEIQEVL 304 Query: 311 GTMGL 315 G Sbjct: 305 AEHGF 309 >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 = 239 bits (611), Expect = 4e-61, Method: Composition-based stats. Identities = 109/319 (34%), Positives = 178/319 (55%), Gaps = 11/319 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 QE + PN + + P+ +G AH LGN++RRVL+SSL GA+I V I Sbjct: 8 QEFV-PN---IQLKEDLGAFSYKVQLSPVEKGMAHILGNSIRRVLLSSLSGASIIKVNIS 63 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDI 125 VLHE S+++ V ED+ +I+ N+K + +K+ + + + GVV+AGD +T + Sbjct: 64 NVLHEYSTLEDVKEDVVEIVSNLKKVAIKLDTGIDRLDLELSVNKSGVVSAGDFKTTQGV 123 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++N D I L + TVS G TE + +G I +DA ++PIK+V++ Sbjct: 124 EIINKDQPIATLTNQRAFSLTATVSVGRNVGILSAIPTELERVGDIAVDADFNPIKRVAF 183 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 V D + L + + T+G+I +V A +Q+ +F++ P D+ Sbjct: 184 EVFD-----NGDSETLEVFVKTNGTIEPLAAVTKALEYFCEQISVFVSLRVPSNGKTGDV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + S +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL E Sbjct: 239 LIDSN-IDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLGKKSLNE 297 Query: 306 IKGVLGTMGLFLGMNLPDW 324 IK +L L LG+ + ++ Sbjct: 298 IKQILIDNNLSLGVQIDNF 316 >gi|119668339|emb|CAK95509.1| RNA polymerase alpha subunit [Lactobacillus kefiri] Length = 218 Score = 239 bits (610), Expect = 4e-61, Method: Composition-based stats. Identities = 102/217 (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 PAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A ++ 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|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 = 239 bits (610), Expect = 4e-61, Method: Composition-based stats. Identities = 109/319 (34%), Positives = 178/319 (55%), Gaps = 11/319 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 QE + PN + + P+ +G AH LGN++RRVL+SSL GA+I V I Sbjct: 8 QEFV-PN---IQLKEDLGAFSYKVQLSPVEKGMAHILGNSIRRVLLSSLSGASIIKVNIA 63 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDI 125 VLHE S+++ V ED+ +I+ N+K + +K+ + + + GVV+AGD +T + Sbjct: 64 NVLHEYSTLEDVKEDVVEIVSNLKKVAIKLDAGIDRLDLELSVNKSGVVSAGDFKTTQGV 123 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++N D I L + TVS G TE + +G I +DA ++PIK+V++ Sbjct: 124 EIINKDQPIATLTNQRAFSLTATVSVGRNVGILSAIPTELERVGDIAVDADFNPIKRVAF 183 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 V D + L + + T+G+I +V A +Q+ +F++ P D+ Sbjct: 184 EVFD-----NGDSETLEVFVKTNGTIEPLAAVTKALEYFCEQISVFVSLRVPSNGKTGDV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + S +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL E Sbjct: 239 LIDSN-IDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLGKKSLNE 297 Query: 306 IKGVLGTMGLFLGMNLPDW 324 IK +L L LG+ + ++ Sbjct: 298 IKQILIDNNLSLGVQIDNF 316 >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 = 239 bits (610), Expect = 4e-61, 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|119668317|emb|CAK95459.1| RNA polymerase alpha subunit [Lactobacillus gallinarum] Length = 214 Score = 239 bits (610), Expect = 4e-61, Method: Composition-based stats. Identities = 92/212 (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 + + 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 LASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 A++IL + +F + + K + + + Sbjct: 181 FAAKILVEHFKVFESADADTKFSEVMVEKEDD 212 >gi|119668309|emb|CAK95455.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. delbrueckii] Length = 200 Score = 239 bits (610), Expect = 4e-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|119668319|emb|CAK95460.1| RNA polymerase alpha subunit [Lactobacillus gasseri] Length = 198 Score = 239 bits (610), Expect = 5e-61, 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|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 = 239 bits (610), Expect = 5e-61, Method: Composition-based stats. Identities = 106/328 (32%), Positives = 172/328 (52%), Gaps = 10/328 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P IE + N+ + A P GFA TL + LRR+L+ S G+A TAV+I+GV HE Sbjct: 11 PTEIEVENIS---ANKVQISAYPFESGFAVTLAHPLRRLLLGSTIGSAPTAVKIEGVTHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKR-VTIFKRGPGVVTAGDIQTVNDIEVLNP 130 S++G+ ED+ I+N+K I K+ GD + V GP + D+ + IE++ P Sbjct: 68 FDSMRGMLEDVALFIINLKNIRFKIKGDEKRVEVNYSFSGPKEIKGSDL-ANSHIEIVTP 126 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D + ++ DA L + KG GYVP++ + + I +DA ++P+K+ Y +E+ Sbjct: 127 DTYLATINEDAEFNFSLIIEKGIGYVPSE-NIRDLLTDDYIALDAFFTPVKRAVYDIENV 185 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 +Y+K+ TI+TDG ++ ++ A + Q+ +F + K + + ++ Sbjct: 186 LVEDNPNYEKIVFTIETDGLVSPIEAFKNALEAMYAQMSVFNGILDIAVAPKNETSHDNV 245 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L+ VEEL LS RS NCL + Y+G+L +E ++ + N G+KSL EI+ V+ Sbjct: 246 ELGKL-LQSVEELNLSARSFNCLDRAEVKYIGELALMSETELKDLKNLGKKSLEEIRQVM 304 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYED 338 G +G N D E+ L KK ED Sbjct: 305 EESGYPVGYNFSD---ETASLLKKKIED 329 >gi|119662845|emb|CAJ33215.1| RNA polymerase alpha subunit [Lactobacillus hamsteri] Length = 212 Score = 239 bits (610), Expect = 5e-61, 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|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 = 239 bits (609), Expect = 6e-61, Method: Composition-based stats. Identities = 108/317 (34%), Positives = 180/317 (56%), Gaps = 11/317 (3%) Query: 13 NNIEYIVLGQEEENRTLMI----AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + +E++ Q +E+ P+ +G AH LGN++RRVL+SSL GA+I V I V Sbjct: 6 SKLEFVPNIQLKEDLGAFSYKVQLSPVEKGMAHILGNSIRRVLLSSLSGASIIKVNIANV 65 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+++ V ED+ +I+ N+K + +K+ + + + GVV+AGD +T +E+ Sbjct: 66 LHEYSTLEDVKEDVVEIVSNLKKVAIKLDTGIDRLDLELSVNKSGVVSAGDFKTTQGVEI 125 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N D I L + TVS G TE + +G I +DA ++PIK+V++ V Sbjct: 126 INKDQPIATLTNQRAFSLTATVSVGRNVGILSAIPTELERVGDIAVDADFNPIKRVAFEV 185 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 D + L + + T+G+I +V A +Q+ +F++ P D+ + Sbjct: 186 FD-----NGDSETLEVFVKTNGTIEPLAAVTKALEYFCEQISVFVSLRVPSNGKTGDVLI 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 S +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK Sbjct: 241 DSN-IDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIK 299 Query: 308 GVLGTMGLFLGMNLPDW 324 +L L LG+ + ++ Sbjct: 300 QILIDNNLSLGVQIDNF 316 >gi|154424781|emb|CAL18493.1| RNA polymerase alpha subunit [Streptococcus dysgalactiae subsp. equisimilis] Length = 205 Score = 239 bits (609), Expect = 6e-61, Method: Composition-based stats. Identities = 92/204 (45%), Positives = 142/204 (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 SVALASRILQDQLGMFINFEEPKK 239 ++ L++R+L + L +F + + K Sbjct: 181 ALGLSARVLIEHLNLFTDLTDVAK 204 >gi|193795063|gb|ACF21663.1| RpoA [Rhizobium giardinii] Length = 212 Score = 239 bits (609), Expect = 6e-61, Method: Composition-based stats. Identities = 150/213 (70%), 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 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 RILQDQLGVFVNFDEPQKEAEEEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 GDLIQ+TEA+MLR N GRKSL EIK VL +MG Sbjct: 180 GDLIQKTEAEMLRTPNLGRKSLNEIKEVLASMG 212 >gi|308125195|gb|ADO14946.1| DNA-directed RNA polymerase alpha chain [Enterococcus sanguinicola] Length = 204 Score = 239 bits (609), Expect = 6e-61, 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|295809862|emb|CBL85107.1| alpha subunit of RNA polymerase [Vibrio tapetis] Length = 260 Score = 239 bits (609), Expect = 6e-61, Method: Composition-based stats. Identities = 112/263 (42%), Positives = 170/263 (64%), 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-AVVRMELTVSKGHGYVPAKHH---RTENDPIG 169 V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA + 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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDIRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMANFGRKSLVEIKGVLGT 312 ++L+ N G KSL EIK VL + Sbjct: 238 VELLKTPNLGNKSLTEIKDVLAS 260 >gi|161511747|emb|CAP16884.1| DNA-directed RNA polymerase subunit alpha [Pediococcus inopinatus] Length = 215 Score = 239 bits (609), Expect = 6e-61, Method: Composition-based stats. Identities = 94/213 (44%), Positives = 143/213 (67%), Gaps = 2/213 (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 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR-- 162 I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A ++ 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 ILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 IL + L +F+N + K+ + + + Sbjct: 181 ILTEHLALFVNLTDEAKDAEIMVEKEETHKEKM 213 >gi|119662321|emb|CAJ33148.1| RNA polymerase alpha subunit [Lactobacillus kefiranofaciens subsp. kefirgranum] Length = 215 Score = 239 bits (609), Expect = 6e-61, 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|161511709|emb|CAP16865.1| DNA-directed RNA polymerase subunit alpha [Pediococcus inopinatus] Length = 204 Score = 238 bits (608), Expect = 7e-61, Method: Composition-based stats. Identities = 94/204 (46%), Positives = 142/204 (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 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR-- 162 I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A ++ 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|71056854|emb|CAH58982.1| DNA-directed RNA polymerase alpha chain [Enterococcus asini] Length = 204 Score = 238 bits (608), Expect = 7e-61, 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|308125187|gb|ADO14942.1| DNA-directed RNA polymerase alpha chain [Enterococcus devriesei] Length = 204 Score = 238 bits (608), Expect = 8e-61, 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|328675432|gb|AEB28107.1| DNA-directed RNA polymerase alpha subunit [Francisella cf. novicida 3523] Length = 323 Score = 238 bits (608), Expect = 8e-61, Method: Composition-based stats. Identities = 109/319 (34%), Positives = 178/319 (55%), Gaps = 11/319 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 QE + PN + + P+ +G AH LGN++RRVL+SSL GA+I V I Sbjct: 8 QEFV-PN---IQLKEDLGAFSYKVELSPVEKGMAHILGNSIRRVLLSSLSGASIIKVNIA 63 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDI 125 VLHE S+++ V ED+ +I+ N+K + +K+ + + + GVV+AGD +T + Sbjct: 64 NVLHEYSTLEDVKEDVVEIVSNLKKVAIKLDKGIDRLDLELSVNKSGVVSAGDFKTTQGV 123 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++N D I L + TVS G TE + +G I +DA ++PIK+V++ Sbjct: 124 EIINKDQPIATLTNQRAFNLTATVSIGRNVGILSAIPTELERVGDIAVDADFNPIKRVAF 183 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 V D + L + + T+G+I +V A +Q+ +F++ P D+ Sbjct: 184 EVFD-----NGDSETLEVFVKTNGTIEPLAAVTKALEYFCEQISVFVSLRVPSNGKTGDV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + S +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL E Sbjct: 239 LIDSN-IDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLGKKSLNE 297 Query: 306 IKGVLGTMGLFLGMNLPDW 324 IK +L L LG+ + ++ Sbjct: 298 IKQILIDNNLSLGVQIDNF 316 >gi|193795081|gb|ACF21670.1| RpoA [Rhizobium gallicum] Length = 212 Score = 238 bits (608), Expect = 8e-61, Method: Composition-based stats. Identities = 149/212 (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+ 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 RILQDQLGVFVNFDEPQKEAEEEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 GDLIQ+TEA+MLR NFGRKSL EIK VL +M Sbjct: 180 GDLIQKTEAEMLRTPNFGRKSLNEIKEVLASM 211 >gi|193795090|gb|ACF21674.1| RpoA [Rhizobium tropici] Length = 212 Score = 238 bits (608), Expect = 8e-61, 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|150036784|emb|CAM98269.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis] Length = 211 Score = 238 bits (607), Expect = 1e-60, Method: Composition-based stats. Identities = 89/211 (42%), Positives = 133/211 (63%), Gaps = 2/211 (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 VALASRILQDQLGMFINFEEPKKEVKEDINV 247 ++L ++IL + L +F++ E + Sbjct: 181 LSLGAKILAEHLNLFMDISPVAAEANVMVEA 211 >gi|119662361|emb|CAJ33169.1| RNA polymerase alpha subunit [Lactobacillus zymae] Length = 202 Score = 238 bits (607), Expect = 1e-60, 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|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 = 238 bits (607), Expect = 1e-60, Method: Composition-based stats. Identities = 111/338 (32%), Positives = 179/338 (52%), Gaps = 10/338 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++K P IE + + EN +IA P G+A TL + LRR+L +S G A T Sbjct: 1 MKKITTSAYMPTEIEVVNVS---ENVAKIIAYPFETGYAVTLAHPLRRLLYTSTVGFAPT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQ 120 AV+IDGV HE S++G+ ED+T I+N+K + K+ DS + + +GP +T D+ Sbjct: 58 AVKIDGVAHEFDSMRGMLEDVTLFIINLKNLRFKLKNDSKREVIEYSFKGPKEITGIDLN 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +E++NPD + ++ DA ++ L V KG GYVP++ R D I +DA ++P+ Sbjct: 118 ND-IVEIVNPDSYLATINEDAELKFSLIVEKGIGYVPSEEIRDYIDSEY-IALDAFFTPV 175 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KK Y +E+ DY+K+ +T+ TDG ++ ++ + + Q+ +F N Sbjct: 176 KKAVYEIENVLVEDNPDYEKIVLTVTTDGQVSPIEAFKHSIEAMYKQMSIFNNVLNIDVN 235 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + S + L+ VE L LS RS NCL +I Y+G+L E+++ + N G+ Sbjct: 236 MALTSSQNSNEHSKL-LESVENLNLSARSFNCLDKADIRYIGELALMEESELKDLKNLGK 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK V+ +G G + +S E L KK + Sbjct: 295 KSLDEIKAVMAEIGYPFG---ENTLGDSKEALRKKISE 329 >gi|150036754|emb|CAM98262.1| DNA-directed RNA polymerase alpha chain [Fructobacillus durionis] Length = 220 Score = 238 bits (607), Expect = 1e-60, 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|119662323|emb|CAJ33149.1| RNA polymerase alpha subunit [Lactobacillus kimchii] Length = 213 Score = 238 bits (607), Expect = 1e-60, 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|150036822|emb|CAM98042.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax KCTC 3537] Length = 204 Score = 238 bits (607), Expect = 1e-60, 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|117575079|emb|CAJ84779.1| RNA polymerase alpha subunit [Lactobacillus amylotrophicus] Length = 202 Score = 237 bits (606), Expect = 1e-60, 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|193795067|gb|ACF21665.1| RpoA [Rhizobium tropici] Length = 212 Score = 237 bits (606), Expect = 1e-60, Method: Composition-based stats. Identities = 151/212 (71%), 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+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 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 GDLIQ+TEA+MLR NFGRKSL EIK VL +M Sbjct: 180 GDLIQKTEAEMLRTPNFGRKSLNEIKEVLASM 211 >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 = 237 bits (606), Expect = 1e-60, Method: Composition-based stats. Identities = 101/333 (30%), Positives = 176/333 (52%), Gaps = 12/333 (3%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 I P+ ++ + + +EN + P G+A ++ + LRR+L+SS G A ++I+GV Sbjct: 6 ITPSVPTHMEVEKIKENAIRLHVYPYESGYAISVAHPLRRLLLSSTAGYAPIGLKIEGVQ 65 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG--VVTAGDIQTVNDIEV 127 HE S++G+ ED+ I+N+K + K+ + VT+ G + D + +EV Sbjct: 66 HEFDSVRGMLEDVAAFIINLKNVRFKLRDSEQENVTLEYEFSGPKELFGKDFEND-LVEV 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 EKVLVEDNPNYEKIVFDIETDGQVDPVSALKMAMNVMQSQMEIFTNDIEVTETVGQNIEN 243 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + ++ L+LS RS NCL I Y+G+L+ + + + N G+KSL EI+ Sbjct: 244 SE-----IFYQPLDILDLSARSYNCLDKAGIKYVGELLLMSNEALKSIKNLGKKSLDEIQ 298 Query: 308 GVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 L + + LG L D E+I L K ++K Sbjct: 299 EKLSELNIDLG-KLSDQEKETI--LKKIEQNKS 328 >gi|119672807|emb|CAK95484.1| RNA polymerase alpha subunit [Lactobacillus fermentum] Length = 196 Score = 237 bits (606), Expect = 1e-60, Method: Composition-based stats. Identities = 92/196 (46%), Positives = 139/196 (70%), 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 SKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GY A ++T 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|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 = 237 bits (605), Expect = 2e-60, Method: Composition-based stats. Identities = 102/331 (30%), Positives = 170/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSDH-IEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ + E P G + +D ++PIKKV Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKKVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELSSEQRESLKKRLEKLEDK 340 >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 = 237 bits (605), Expect = 2e-60, Method: Composition-based stats. Identities = 95/293 (32%), Positives = 147/293 (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 TKLKLELQIESGCGYRLVTDELHRDSGT-FLNIDAIFTPVKNVSYKVLDLYRFDEKLLED 192 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + I TDGS+ +D++ A+ ILQ+ G V E +K + + Sbjct: 193 LVLEITTDGSLNPKDALIQAANILQNMFGSLT--------VGEPKALKQTTTISSRQILI 244 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 EEL+LSVR+ NCL+ NI + DL Q + ++ + NFG+KS E+ L Sbjct: 245 EELQLSVRAYNCLKRANIRTIDDLTQYSIKELKELKNFGQKSANEVIQKLQDR 297 >gi|158148899|dbj|BAF81984.1| RNA polymerase alpha subunit [Lactobacillus senmaizukei] Length = 199 Score = 237 bits (605), Expect = 2e-60, Method: Composition-based stats. Identities = 97/199 (48%), Positives = 142/199 (71%), Gaps = 4/199 (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 AKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 A ++ + PIG++ +D++Y+PI++V+Y VE+AR GQ DYDKL++ + T+GSI + Sbjct: 121 ADENKARNTDMPIGVLAVDSIYTPIERVNYQVENARVGQRADYDKLTLDVWTNGSINPSE 180 Query: 216 SVALASRILQDQLGMFINF 234 ++ALA++IL + L MF++ Sbjct: 181 AIALAAKILTEHLAMFVDL 199 >gi|154424751|emb|CAL18478.1| RNA polymerase alpha subunit [Streptococcus salivarius] Length = 216 Score = 237 bits (605), Expect = 2e-60, 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|150036802|emb|CAM98037.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 231 Score = 237 bits (605), Expect = 2e-60, 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|193795070|gb|ACF21666.1| RpoA [Rhizobium tropici CIAT 899] gi|193795078|gb|ACF21669.1| RpoA [Rhizobium tropici] Length = 212 Score = 237 bits (604), Expect = 2e-60, 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 RILQDQLGVFVNFDEPQKEAEEEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 GDLIQ+TEA+MLR NFGRKSL EIK VL +M Sbjct: 180 GDLIQKTEAEMLRTPNFGRKSLNEIKEVLASM 211 >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 = 237 bits (604), Expect = 2e-60, Method: Composition-based stats. Identities = 101/331 (30%), Positives = 169/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSDH-IEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ + E P G + +D ++PIK V Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKNVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >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 = 91/193 (47%), Positives = 130/193 (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 LASRILQDQLGMF 231 A++IL + +F Sbjct: 181 FAAKILVEHFKVF 193 >gi|150036774|emb|CAN89786.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gasicomitatum] Length = 219 Score = 237 bits (604), Expect = 2e-60, 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|193795075|gb|ACF21668.1| RpoA [Rhizobium tropici] gi|193795083|gb|ACF21671.1| RpoA [Rhizobium tropici] Length = 212 Score = 236 bits (603), Expect = 3e-60, 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|86438810|emb|CAJ43370.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 208 Score = 236 bits (603), Expect = 3e-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|154424851|emb|CAL18528.1| RNA polymerase alpha subunit [Streptococcus ratti] Length = 212 Score = 236 bits (603), Expect = 3e-60, 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|150036830|emb|CAM98044.1| DNA-directed RNA polymerase alpha chain [Leuconostoc kimchii] Length = 216 Score = 236 bits (602), Expect = 4e-60, 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|119662355|emb|CAJ33166.1| RNA polymerase alpha subunit [Lactobacillus salivarius] Length = 199 Score = 236 bits (602), Expect = 4e-60, Method: Composition-based stats. Identities = 94/199 (47%), Positives = 141/199 (70%), Gaps = 2/199 (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 VALASRILQDQLGMFINFE 235 ++L+++IL + L +F++ Sbjct: 181 ISLSAKILTEHLALFVDLT 199 >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 = 236 bits (601), Expect = 5e-60, Method: Composition-based stats. Identities = 103/357 (28%), Positives = 172/357 (48%), Gaps = 27/357 (7%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQ + I+ +E + Q PL +G A+TLG LRR L+S L G I Sbjct: 1 MIQNVTDDKIQWKCLESKIESQRIH-YGRFAIAPLKKGQANTLGITLRRTLLSDLDGICI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+V+ID + HE ++ GV E + DI+LN+K I K D ++ IF +GP +TA DIQ Sbjct: 60 TSVKIDNIKHEYCTLTGVRESIQDILLNLKEIVFKGVCDKTQKGFIFVKGPKKITASDIQ 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IE+L+ + +I +L ++ELT+ K G+ + D +IDA++ PI Sbjct: 120 IEPCIEILDSNQIIAHLTEPIDFKVELTIEKSMGFRLQNATQISKDS---FSIDAIFMPI 176 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL------------ 228 + V+Y++ + + L + I T+GSIT +++ AS + + Sbjct: 177 RNVNYSIHPVEKAGDWKSELLILEIWTNGSITPKEAFHQASEKIMNIFLSLSNSSDNQIQ 236 Query: 229 -GMFINFEEPKKEVKEDINVKSLPFNPALLK-------KVEELELSVRSTNCLRGENIVY 280 NFEE ++ + ++I+ + + + +LELS R+ NCL+ E I Sbjct: 237 EKSTKNFEEKEEFIFQNIDGFKQDKETKVQESLGWKKISINQLELSARAYNCLKNEKIST 296 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 + DL+ ++ D+L++ NFG++S ++ L M L + E K E Sbjct: 297 LFDLLNYSQEDLLKIKNFGKRSFEQVVNALE---KHFDMKLSKDSSKKFYEQLKNLE 350 >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 = 236 bits (601), Expect = 5e-60, Method: Composition-based stats. Identities = 102/331 (30%), Positives = 170/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLSSEH-IEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ + E P G + +D ++PIKKV Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKKVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELSHEQRESLKKRLEKLEDK 340 >gi|150036778|emb|CAM98268.1| DNA-directed RNA polymerase alpha chain [Fructobacillus fructosus KCTC 3544] Length = 206 Score = 236 bits (601), Expect = 5e-60, 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|150036804|emb|CAM98275.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 230 Score = 236 bits (601), Expect = 5e-60, 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|317009976|gb|ADU80556.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori India7] Length = 344 Score = 236 bits (601), Expect = 6e-60, Method: Composition-based stats. Identities = 102/331 (30%), Positives = 170/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKESNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSEH-IEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ + E P G + +D ++PIKKV Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKKVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSTKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|119662837|emb|CAJ33211.1| RNA polymerase alpha subunit [Lactobacillus satsumensis] Length = 210 Score = 235 bits (600), Expect = 6e-60, Method: Composition-based stats. Identities = 87/210 (41%), Positives = 142/210 (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 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH-- 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|317013080|gb|ADU83688.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori Lithuania75] Length = 344 Score = 235 bits (600), Expect = 6e-60, Method: Composition-based stats. Identities = 102/331 (30%), Positives = 170/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSEH-IEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ + E P G + +D ++PIKKV Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKKVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|197131692|gb|ACH47364.1| RNA polymerase alpha subunit [Geranium macrorrhizum] Length = 329 Score = 235 bits (600), Expect = 7e-60, Method: Composition-based stats. Identities = 72/306 (23%), Positives = 141/306 (46%), Gaps = 9/306 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 + +E + I PL +G A +G A+RR L+ + G IT + D + H Sbjct: 14 RWKCVES-RADSKRLYYGRFILSPLKKGQADMIGIAMRRALLGEIEGTCITHAKFDKIPH 72 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ G+ E + +I++N+K I L+ + +I RGP VT+ DI +++ Sbjct: 73 EYTTLVGIQESIYEILMNLKEIVLRSHLYGTRDASICVRGPRDVTSQDIILPTFATIVDN 132 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 I L + L + + GY + IDA++ P+K V++++ S Sbjct: 133 TQHIVTLTEPIDFCVGLQIERNRGYFIQIPMLSNLHDDRGYPIDAVFMPVKNVNHSIHSY 192 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 G + L + I T+GS+T ++++ ASR L + F++ EE + + N + Sbjct: 193 ENG---IHAMLFLEIWTNGSLTPKEALRGASRKLINLFIPFLHAEEQNCHFENNQNEHTD 249 Query: 251 PFN----PALLKKVEEL-ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + +++L EL R CL+G I + DL+ + D++++ F ++ + + Sbjct: 250 ELSIDFCALKDIYIDQLVELPARFYKCLKGSGIDTVMDLLNKNTDDLIKITQFCQQDVEK 309 Query: 306 IKGVLG 311 + +L Sbjct: 310 VMNILN 315 >gi|317014684|gb|ADU82120.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori Gambia94/24] Length = 344 Score = 235 bits (600), Expect = 7e-60, Method: Composition-based stats. Identities = 101/331 (30%), Positives = 169/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSEH-IEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ + E P G + +D ++PIK V Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKNVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >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 = 235 bits (600), Expect = 7e-60, Method: Composition-based stats. Identities = 100/331 (30%), Positives = 169/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLSSEH-IEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 N + + ++ DA + L + KG GYVP++ + E P G + +D ++PIKKV Y +E Sbjct: 133 NLEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKKVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L E++++ +K EDK Sbjct: 310 KLNDLGYPVGTELSPEQRENLKKRLEKLEDK 340 >gi|154424867|emb|CAL18536.1| RNA polymerase alpha subunit [Streptococcus uberis] Length = 210 Score = 235 bits (600), Expect = 7e-60, Method: Composition-based stats. Identities = 90/210 (42%), Positives = 140/210 (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 LASRILQDQLGMFINFEEPKKEVKEDINVK 248 L++R+L + L +F + E K + Sbjct: 181 LSARVLIEHLNLFTDLTEVAKATDVMKETE 210 >gi|119662371|emb|CAJ33174.1| RNA polymerase alpha subunit [Lactobacillus amylolyticus DSM 11664] Length = 208 Score = 235 bits (600), Expect = 8e-60, Method: Composition-based stats. Identities = 91/208 (43%), Positives = 135/208 (64%) 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 ILQDQLGMFINFEEPKKEVKEDINVKSL 250 IL + +F + + K + + + Sbjct: 181 ILVEHFKVFESADADNKFSEVMVEKEDN 208 >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 = 235 bits (599), Expect = 8e-60, Method: Composition-based stats. Identities = 101/331 (30%), Positives = 169/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALIGQDSSLENQSVVVDYSFKGPMELKARDLSSEH-IEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ + E P G + +D ++PIK V Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKNVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMGKQLGVFG--ERPITNTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELSSEQRESLKKRLEKLEDK 340 >gi|308064070|gb|ADO05957.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori Sat464] Length = 344 Score = 235 bits (599), Expect = 8e-60, Method: Composition-based stats. Identities = 100/331 (30%), Positives = 169/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKVLVGQDSSLENQSVVVDYSFKGPMELRARDLSSEH-IEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 N + + ++ DA + L + KG GYVP++ + E P G + +D ++PIKKV Y +E Sbjct: 133 NLEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKKVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L E++++ +K EDK Sbjct: 310 KLNDLGYPVGTELSPEQRENLKKRLEKLEDK 340 >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 = 235 bits (599), Expect = 8e-60, Method: Composition-based stats. Identities = 110/319 (34%), Positives = 180/319 (56%), Gaps = 11/319 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 QE + PN + + + P+ +G AH LGN++RR L+SSL GA+I V ID Sbjct: 8 QEFV-PN---IQLKEELGAFGYKIQVSPVEKGMAHILGNSIRRFLLSSLSGASIIKVNID 63 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR-VTIFKRGPGVVTAGDIQTVNDI 125 GVLHE S+++ V ED+ +I+ N+K + +K+ + K + + GVVTAGD +T I Sbjct: 64 GVLHEYSTLEDVKEDVVEIVSNLKKVAIKLDKNVSKVELELSVTKSGVVTAGDFKTTQGI 123 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++N D I L + + TVS G TE + +G I +D+ ++PIK+V++ Sbjct: 124 EIINKDQPIATLTNERKFSLTATVSVGRNVGILSALPTELEKVGDIAVDSDFNPIKRVAF 183 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 + + L + + T+G+I +V A +Q+ +F++ P D Sbjct: 184 EIFDNGTN-----ETLEVFVKTNGTIEPLVAVTKALEYFCEQISVFVSLRVPSNGKTGDA 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + S +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL E Sbjct: 239 LLDSN-IDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLGKKSLNE 297 Query: 306 IKGVLGTMGLFLGMNLPDW 324 IK +L L LG+ + ++ Sbjct: 298 IKQILIDNNLSLGVQIDNF 316 >gi|308062578|gb|ADO04466.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori Cuz20] Length = 344 Score = 235 bits (599), Expect = 8e-60, Method: Composition-based stats. Identities = 102/331 (30%), Positives = 170/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRIKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVNYSFKGPMELRARDLNSEH-IEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ + E P G + +D ++PIKKV Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKKVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >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 = 235 bits (599), Expect = 9e-60, Method: Composition-based stats. Identities = 87/329 (26%), Positives = 159/329 (48%), Gaps = 26/329 (7%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 + +E + + + I PL +G A+T+G ALRR L+S + G IT+V+I +H Sbjct: 14 QWRCLESK-IEKSTLHYGRFIISPLWKGQANTIGLALRRTLLSEVEGTCITSVKIKNAIH 72 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E SS+ GV E + DI++N+K I L S + GP V A D+ + I+++NP Sbjct: 73 EYSSLSGVQESVHDILINLKKIILSSSFSGIFEGFLSVVGPKTVLASDLNLPSFIKIVNP 132 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D I ++ +++ + KG GY + G +D ++ PI+ V+Y++ S Sbjct: 133 DQYIATVNKPINFNLQIYIQKGKGYSLKNPISIK---QGFFLVDPVFIPIRSVNYSIHSF 189 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----------FEEPKKE 240 + + + L + + T+GSI ++++ AS L + ++ F+E +K Sbjct: 190 EDEKAT-KEFLIVEVWTNGSIEPKEAIKEASYNLVNLFTPLVSQEYQQLKNQLFKEDEKN 248 Query: 241 VK--------EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + I+ +N +++LELS R+ N L+ NI + DL++ + D+ Sbjct: 249 KELNFIETNSNAISDNENSYNLYNQIFLDQLELSSRAYNSLKKNNINTISDLLKYSYEDL 308 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 L++ NFG+KS ++ L + L Sbjct: 309 LKIKNFGKKSADQVIEQLK---KRFKIQL 334 >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 = 235 bits (599), Expect = 1e-59, Method: Composition-based stats. Identities = 102/331 (30%), Positives = 169/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKESNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSE-QIEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ + E P G + +D ++PIKKV Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKKVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|317182539|dbj|BAJ60323.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori F57] Length = 344 Score = 235 bits (599), Expect = 1e-59, Method: Composition-based stats. Identities = 101/331 (30%), Positives = 169/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSEH-IEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ + E P G + +D ++PIK V Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKNVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELSPDQRESLKKRLEKLEDK 340 >gi|150036816|emb|CAM98278.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax] Length = 220 Score = 234 bits (598), Expect = 1e-59, Method: Composition-based stats. Identities = 89/212 (41%), Positives = 136/212 (64%), Gaps = 2/212 (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 ALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 +L ++IL + L +F + E + ++V+ Sbjct: 181 SLGAKILSEHLNLFTDISSVAAETEVMVDVEQ 212 >gi|119662847|emb|CAJ33216.1| RNA polymerase alpha subunit [Lactobacillus kunkeei] Length = 202 Score = 234 bits (598), Expect = 1e-59, Method: Composition-based stats. Identities = 97/202 (48%), Positives = 141/202 (69%), Gaps = 4/202 (1%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD--S 100 LGN+LRR+L+SSL GAA+T++QID VLHE S++ GV ED+T IILN+K I+LK+ + Sbjct: 1 LGNSLRRILLSSLPGAAVTSIQIDDVLHEFSTVPGVVEDVTQIILNVKKISLKLDAEDGE 60 Query: 101 HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 K + I GP VTAGDIQ D+ VLNPD I + + M +T +KG GYV A Sbjct: 61 DKEMEINVTGPAQVTAGDIQADGDVTVLNPDLHIATVAEGSTFHMRMTANKGRGYVSADE 120 Query: 161 HRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 ++ ND 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|150036756|emb|CAM98263.1| DNA-directed RNA polymerase alpha chain [Leuconostoc inhae KCTC 3774] Length = 214 Score = 234 bits (598), Expect = 1e-59, 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|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 = 234 bits (598), Expect = 1e-59, Method: Composition-based stats. Identities = 102/331 (30%), Positives = 169/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSE-QIEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ + E P G + +D ++PIKKV Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKKVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|311990468|gb|ADQ26364.1| RNA polymerase alpha subunit [Lactobacillus fermentum] Length = 220 Score = 234 bits (598), Expect = 1e-59, Method: Composition-based stats. Identities = 94/220 (42%), Positives = 146/220 (66%), 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 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + I +GP VTA DIQ D+ +LN D I + A + +++T KG GY A ++T Sbjct: 61 LEIDVKGPAEVTAADIQGDGDVTILNSDLHIATVSDGAELHVKMTADKGRGYSSADDNKT 120 Query: 164 --ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 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|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 = 234 bits (598), Expect = 1e-59, 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|150186982|emb|CAK30141.1| RNA polymerase alpha subunit [Streptococcus suis] Length = 205 Score = 234 bits (598), Expect = 1e-59, Method: Composition-based stats. Identities = 93/205 (45%), Positives = 142/205 (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 ILQDQLGMFINFEEPKKEVKEDINV 247 IL + LG+F + E K + Sbjct: 181 ILMEHLGLFTDLTEVAKSAEVMKEA 205 >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 = 234 bits (598), Expect = 1e-59, Method: Composition-based stats. Identities = 101/331 (30%), Positives = 168/331 (50%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMEIRARDLNSE-QIEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ + E P G + +D ++PIK V Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKNVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELSPEQRESLKKRLEKLEDK 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 = 234 bits (598), Expect = 1e-59, 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|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 = 234 bits (598), Expect = 1e-59, Method: Composition-based stats. Identities = 107/318 (33%), Positives = 165/318 (51%), Gaps = 14/318 (4%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 NI++ +L + ++ PL +GF T+GNALRRVL+ S+ GAA+ A++IDGV HE Sbjct: 8 NIDFKLLES-SQYMASVVISPLKQGFGTTIGNALRRVLLGSIPGAAVFAIKIDGVDHEFM 66 Query: 74 SIKGVHEDLTDIILNIKGINLKMSG-------------DSHKRVTIFKRGPGVVTAGDIQ 120 + +GV ED+T+IILN+K + + + + I K GVV A DI+ Sbjct: 67 APEGVLEDVTNIILNVKKLVISIDEKVVDVQSLEEKSISEWPTMKIKKNKAGVVYANDIE 126 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 ++V+N D IC L D MEL + GY +R D + +I+ID+L+SPI Sbjct: 127 CPPGMKVINKDLKICELSKDVEFGMELYATLDRGYRSFSENRERLDTLKIISIDSLFSPI 186 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KV + V + + DKL +T+ T+GS+ D+++LA+ L L F + Sbjct: 187 VKVEWKVVEEKTTKQGTTDKLHLTLVTNGSVKAADALSLAAHTLISLLEPISAFNPETSK 246 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 K + A+ ++ELEL++RS NCL+ I + +L + T A+ + N G+ Sbjct: 247 RKLIGEAEVATKKVAMATPIDELELTMRSFNCLKQNGINTITELAEMTRAEAENIKNLGK 306 Query: 301 KSLVEIKGVLGTMGLFLG 318 KSL EI L GL Sbjct: 307 KSLNEIIAKLAEKGLKFK 324 >gi|317178416|dbj|BAJ56204.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori F30] Length = 344 Score = 234 bits (597), Expect = 1e-59, Method: Composition-based stats. Identities = 101/331 (30%), Positives = 169/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLSSEH-IEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ + E P G + +D ++PIK V Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKNVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMGKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKSVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELNPEQRESLKKRLEKLEDK 340 >gi|119662369|emb|CAJ33173.1| RNA polymerase alpha subunit [Lactobacillus versmoldensis] Length = 215 Score = 234 bits (597), Expect = 2e-59, Method: Composition-based stats. Identities = 86/214 (40%), Positives = 141/214 (65%), Gaps = 1/214 (0%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRRVL++SL G A++ +QIDGVLHE +I GV ED+T I+LNIK ++LK Sbjct: 1 YGTTLGNSLRRVLLASLPGTAVSDIQIDGVLHEFFAIDGVIEDVTQIVLNIKKLSLKSYA 60 Query: 99 DS-HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP 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|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 = 234 bits (597), Expect = 2e-59, Method: Composition-based stats. Identities = 92/315 (29%), Positives = 157/315 (49%), Gaps = 3/315 (0%) 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 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVT-AGDIQTVNDIEVL 128 HE SI+G+ ED++ I N+K I + V + G + + + + + ++ Sbjct: 66 HEFDSIRGIVEDVSHFITNLKNIRFLIKDTESDNVQLHYEFKGPMVLSANELVNDMVGIV 125 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ +A + L V KG GYVP++ R + I +DA ++P+KK Y +E Sbjct: 126 NPEAYLATINENASLSFSLIVQKGIGYVPSESIRGKISEDY-IPLDAYFTPVKKAVYEIE 184 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A I+ Q+ +F +I+ Sbjct: 185 NVLVEDNPNYEKIVFDIETDGQIEPITAFKEAIAIMHKQMSIFGVDLSTASSGTRNISED 244 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 S L+ K++ L LS R NCL + Y+G+L+ +E ++ + N G+KS EI Sbjct: 245 SGEL-KTLMIKIDTLNLSARCFNCLDRSGLKYVGELVIMSENELKNIKNMGKKSYDEIAD 303 Query: 309 VLGTMGLFLGMNLPD 323 L +G +G + D Sbjct: 304 KLEELGYPVGGEIAD 318 >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 = 234 bits (596), Expect = 2e-59, 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|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 = 234 bits (596), Expect = 2e-59, Method: Composition-based stats. Identities = 102/331 (30%), Positives = 169/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPIGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +G + A D+ + + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGSMELRARDLNSDH-IEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ R E P G + +D ++PIKKV Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSETTR-ELMPEGYMPLDGSFTPIKKVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|317181015|dbj|BAJ58801.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori F32] Length = 344 Score = 234 bits (596), Expect = 2e-59, Method: Composition-based stats. Identities = 100/331 (30%), Positives = 170/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSEH-IEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ +A + L + KG GYVP++ + E P G + +D ++PIKKV Y +E Sbjct: 133 NPEMPLATINENAQLNFSLIICKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKKVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L E++++ +K EDK Sbjct: 310 KLNDLGYPVGTELNPEQRENLKKRLEKLEDK 340 >gi|119668279|emb|CAK95450.1| RNA polymerase alpha subunit [Lactobacillus amylolyticus] Length = 213 Score = 234 bits (596), Expect = 2e-59, 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|119668325|emb|CAK95462.1| RNA polymerase alpha subunit [Lactobacillus hilgardii] Length = 200 Score = 234 bits (596), Expect = 2e-59, Method: Composition-based stats. Identities = 99/200 (49%), Positives = 140/200 (70%), Gaps = 4/200 (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 PAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A ++ PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ I T+GSIT Sbjct: 121 SAVENKKRATEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDIWTNGSITPS 180 Query: 215 DSVALASRILQDQLGMFINF 234 ++V+LA++IL + L MF++ Sbjct: 181 EAVSLAAKILTEHLEMFVDL 200 >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 = 234 bits (596), Expect = 2e-59, 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|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 = 234 bits (596), Expect = 2e-59, Method: Composition-based stats. Identities = 100/240 (41%), Positives = 152/240 (63%), Gaps = 8/240 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E ++P ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLRPRLVD---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 Y P+ K++Y VE+AR Q D DKL + ++T G++ E++V A+ IL +QL F++ + Sbjct: 178 YRPVDKIAYAVEAARVEQRTDLDKLVIDMETSGTLEPEEAVRRAATILAEQLDAFVDLRD 237 >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 = 234 bits (596), Expect = 2e-59, Method: Composition-based stats. Identities = 93/328 (28%), Positives = 166/328 (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 EISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 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 ++ + G I +DA ++P++ +Y +E+ Sbjct: 126 PNTHLATLNEDSTLNFSIRIAQGIGYVASED-TYDELQDGYIALDAYFTPVRSATYKIEN 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|261838612|gb|ACX98378.1| alpha subunit of the DNA-dependent RNA polymerase core enzyme [Helicobacter pylori 51] Length = 344 Score = 234 bits (596), Expect = 2e-59, Method: Composition-based stats. Identities = 100/331 (30%), Positives = 169/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALIGQDSSLENQSVVVDYSFKGPMEIRARDLSSEH-IEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG G+VP++ + E P G + +D ++PIK V Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGHVPSE-NTRELMPEGYMPLDGSFTPIKNVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >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 = 234 bits (596), Expect = 2e-59, 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|315587182|gb|ADU41563.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori 35A] Length = 344 Score = 234 bits (596), Expect = 2e-59, Method: Composition-based stats. Identities = 101/331 (30%), Positives = 169/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSEH-IEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ + E P G + +D ++PIK V Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKNVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELNPEQRESLKKRLEKLEDK 340 >gi|119668345|emb|CAK95469.1| RNA polymerase alpha subunit [Lactobacillus paracasei subsp. paracasei] Length = 186 Score = 234 bits (596), Expect = 2e-59, 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|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 = 234 bits (596), Expect = 2e-59, Method: Composition-based stats. Identities = 102/331 (30%), Positives = 169/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKESNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPIGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSE-QIEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ + E P G + +D ++PIKKV Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKKVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYT 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|328813999|gb|AEB52115.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 215 Score = 234 bits (596), Expect = 2e-59, Method: Composition-based stats. Identities = 95/215 (44%), Positives = 142/215 (66%), 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 KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TEN 165 +GP VTAGDI D+EVLNPD IC + A M +T + G GYV A+ ++ ++ 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|317178032|dbj|BAJ55821.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori F16] Length = 344 Score = 234 bits (596), Expect = 2e-59, Method: Composition-based stats. Identities = 100/331 (30%), Positives = 169/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSEH-IEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ + E P G + +D ++PIK V Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKNVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEITE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L E++++ +K EDK Sbjct: 310 KLNDLGYPVGTELNPEQRENLKKRLEKLEDK 340 >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 = 233 bits (595), Expect = 2e-59, Method: Composition-based stats. Identities = 97/320 (30%), Positives = 166/320 (51%), Gaps = 4/320 (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 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ I+N+K + K+ GDS+K + F G + +EV+N D + ++ Sbjct: 75 LEDVALFIINLKKLRFKIKGDSNKEIVEFSFKGSKEIYGKDLNNDQVEVVNKDAYLATIN 134 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 DA ++ L V KG GYVP++ + + I +DA ++P+++ +Y +E DY Sbjct: 135 EDAELKFTLIVEKGIGYVPSEEIKELINDPKFIALDAFFTPVREATYDIEKVLFEDNPDY 194 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +K+ +T+ TDG IT ++ A + QL +F + +K L N LL+ Sbjct: 195 EKVVLTVTTDGQITPNEAFQNALEAMYKQLSVFDKITNVRSVIKNQATSNELE-NTKLLQ 253 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 + +L LS RS NCL +VY+G+L + +++ + N G+KSL EIK ++ ++G +G Sbjct: 254 NITDLNLSARSYNCLEKAGVVYIGELALMSVSELAGLKNLGKKSLDEIKNIMESIGFPVG 313 Query: 319 MNLPDWPPESIEELAKKYED 338 + ++ E L K + Sbjct: 314 TS---KLSDNKEILKNKIAE 330 >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 = 233 bits (595), Expect = 3e-59, Method: Composition-based stats. Identities = 106/250 (42%), Positives = 162/250 (64%), 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++ + + + F+P LL+ V+ Sbjct: 121 VIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVD 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|261886106|ref|ZP_06010145.1| DNA-directed RNA polymerase subunit alpha [Campylobacter fetus subsp. venerealis str. Azul-94] Length = 326 Score = 233 bits (595), Expect = 3e-59, Method: Composition-based stats. Identities = 105/316 (33%), Positives = 170/316 (53%), Gaps = 7/316 (2%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 EN +IA P +A TL + LRR+L +S G A TAV+IDGV HE S++G+ ED+T Sbjct: 14 SENVAKIIAYPFETVYAVTLAHPLRRLLYTSTVGFAPTAVKIDGVAHEFDSMRGMLEDVT 73 Query: 84 DIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 I+N+K + K+ DS + + +GP +T D+ +E++NPD + ++ DA Sbjct: 74 LFIINLKNLRFKLKNDSKREVIEYSFKGPKEITGIDLNND-IVEIVNPDSYLATINEDAE 132 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 ++ L V KG GYVP++ R D I +DA ++P+KK Y +E+ DY+K+ Sbjct: 133 LKFSLIVEKGIGYVPSEEIRDYIDSEY-IALDAFFTPVKKAVYEIENVLVEDNPDYEKIV 191 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 +++ TDG ++ ++ + + Q+ +F N + + S + L+ VE Sbjct: 192 LSVSTDGQVSPIEAFKHSIEAMYKQMSIFNNVLNIDVNMALTSSQNSNEHSKL-LESVEN 250 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 L LS RS NCL +I Y+G+L E+++ + N G+KSL EIK V+ +G G Sbjct: 251 LNLSARSFNCLDKADIRYIGELALMEESELKDLKNLGKKSLDEIKAVMAEIGYPFG---E 307 Query: 323 DWPPESIEELAKKYED 338 + +S E L KK + Sbjct: 308 NTLGDSKEALRKKISE 323 >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 = 233 bits (595), Expect = 3e-59, Method: Composition-based stats. Identities = 101/331 (30%), Positives = 168/331 (50%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPIGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSE-QIEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ + E G + +D ++PIKKV Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMSEGYMPLDGSFTPIKKVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELSHEQRESLKKRLEKLEDK 340 >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 = 233 bits (595), Expect = 3e-59, 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 PTKIEVKEVGV---NKVQITAYPFENGYAITLAHPLRRLLLGSSVGFAPVALHIAGVAHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 S++GV ED++ I+N+K I K+ DS V GP V+T D+ +EV+ P Sbjct: 68 FDSVRGVTEDVSQFIVNLKTIRFKIKDDSDSVSVDYTFNGPKVITGADLSND-LVEVVTP 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|190411115|gb|ACE78312.1| RpoA [Vibrio parahaemolyticus] Length = 252 Score = 233 bits (595), Expect = 3e-59, Method: Composition-based stats. Identities = 108/255 (42%), Positives = 168/255 (65%), 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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GD Sbjct: 181 LAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGD 237 Query: 284 LIQRTEADMLRMANF 298 L+QRTE ++L+ N Sbjct: 238 LVQRTEVELLKTPNL 252 >gi|119668273|emb|CAK95495.1| RNA polymerase alpha subunit [Lactobacillus kefiri] Length = 203 Score = 233 bits (594), Expect = 3e-59, Method: Composition-based stats. Identities = 101/203 (49%), 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 PAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A ++ 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|86438806|emb|CAJ43368.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 192 Score = 233 bits (594), Expect = 3e-59, Method: Composition-based stats. Identities = 90/191 (47%), Positives = 128/191 (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 LASRILQDQLG 229 A++IL + Sbjct: 181 FATKILVEHFK 191 >gi|261840008|gb|ACX99773.1| DNA-directed RNA polymerase alpha subunit [Helicobacter pylori 52] Length = 344 Score = 233 bits (594), Expect = 3e-59, Method: Composition-based stats. Identities = 100/331 (30%), Positives = 168/331 (50%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSEH-IEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ + E G + +D ++PIK V Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMHEGYMPLDGSFTPIKNVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELNPEQRESLKKRLEKLEDK 340 >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 = 233 bits (594), Expect = 3e-59, 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 ENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 ++ G + +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 ARILVDQLSVFAALEG-TESAAEAAAARAPQIDPILLRPVDDLELTVRSANCLKAENIYY 179 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +GDLIQRTE ++L+ N GRKSL EIK VL + GL LGM L +WPP +E+ Sbjct: 180 IGDLIQRTENELLKTPNLGRKSLNEIKEVLASRGLTLGMKLENWPPAGLEK 230 >gi|119668307|emb|CAK95506.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. delbrueckii] Length = 209 Score = 233 bits (594), Expect = 4e-59, 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|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 = 233 bits (594), Expect = 4e-59, Method: Composition-based stats. Identities = 95/327 (29%), Positives = 164/327 (50%), Gaps = 8/327 (2%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P IE G N+ + A P G+A TL + LRR+L+ S G A A++I GV HE Sbjct: 11 PTKIEVRETGN---NKVQITAYPFENGYAITLAHPLRRLLLGSSVGFAPIALRISGVAHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 S++GV ED++ I+N+K I ++ +S +K V G + +EV+ PD Sbjct: 68 FDSVRGVVEDVSQFIVNLKAIRFRIKDNSDNVSVDYKFNGSKVITGADLSNELVEVVTPD 127 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA + + + KG GYVP++ R + P G + +DA ++P+ +YT E+ Sbjct: 128 IHLATINEDATLAFSIIIYKGIGYVPSEEIRA-SVPEGFMPLDAYFTPVTSATYTTENML 186 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I TDG + + A ++ Q+ +F N E + + ++ + P Sbjct: 187 LEDDPNYEKIIFDIQTDGQVDPLTAFKNALSVMHKQMSIF-NSELNIEMPETTVSEEERP 245 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L + ++ L S R NCL I Y+G+L+ E + + N G+KSL EI L Sbjct: 246 ELKVLSQTIDSLNFSARCFNCLDRSGIRYLGELVLLNEDQIKNIKNLGKKSLDEITAKLD 305 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYED 338 +G + +P+ + ++ L KK+ + Sbjct: 306 ELGYPVNREIPE---DLLQILKKKFSN 329 >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 = 233 bits (594), Expect = 4e-59, Method: Composition-based stats. Identities = 103/301 (34%), Positives = 167/301 (55%), Gaps = 4/301 (1%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 N +A+P RG+A T+GNALRRVL+SS+ G AITA++IDGV +E ++ G+ ED Sbjct: 24 TPNYGKFVAQPFERGYATTIGNALRRVLLSSIPGYAITAIKIDGVTNEFENVPGMKEDTI 83 Query: 84 DIILNIKGINLKMSGD-SHKRVTIFKRGPGVVT-AGDIQTVNDIEVLNPDHVICNLDVDA 141 +I+++K + + + + K + I K GP VT A D+ V NP+H I + Sbjct: 84 VMIMHLKNVVVALPENVDAKTIHIKKEGPCTVTAADFASADADVSVFNPEHHIATIAEGY 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD-YDK 200 M++ + G+ YVPA+ + + + I IDA+YSPI V + V+ R GQ ++ Y K Sbjct: 144 TFEMDVQIESGYNYVPAEVNMELLEDVNAIAIDAIYSPIVSVKFAVDDVRVGQRINYYGK 203 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK-EDINVKSLPFNPALLKK 259 L++ I+T G+I E +++ A+++L+D L F+ EE + + + K + K Sbjct: 204 LTLEIETKGNIAPEKALSWAAKLLRDNLTPFMLPEEANGDDEKIEETPKDSVLDSLKDKH 263 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 VEE+E SVR+ N L ++ + + +T+AD+LR+ + EIK L LGM Sbjct: 264 VEEVEFSVRTANFLISSDLKTLDKVALKTDADLLRLIGANEMIIEEIKEKLAEYNAHLGM 323 Query: 320 N 320 Sbjct: 324 R 324 >gi|150036748|emb|CAM98027.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 210 Score = 232 bits (593), Expect = 4e-59, 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|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 = 232 bits (593), Expect = 4e-59, Method: Composition-based stats. Identities = 106/322 (32%), Positives = 168/322 (52%), Gaps = 6/322 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + EN +IA P G+A TL + LRR+L +S G A TAV+I+GV HE S++G Sbjct: 5 IKVENVSENVAKIIAYPFETGYAVTLAHPLRRLLYTSTVGFAPTAVKIEGVSHEFDSMRG 64 Query: 78 VHEDLTDIILNIKGINLKMSGDS-HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 + ED+ I+N+KG+ K+ GDS + V +GP + D+ +E++NP + Sbjct: 65 MLEDMAAFIINLKGLRFKIKGDSLREVVEYSFKGPKEIYGSDLNNDA-VEIVNPSAYLAT 123 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 ++ DA ++ L + KG GYVP++ R EN I +DA ++P+ K Y +E+ Sbjct: 124 INEDADLKFTLIIEKGIGYVPSEEIR-ENLDADFIALDAFFTPVTKAVYDIENVFVEDNP 182 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 DY+K+ TI TDG I+ D+ A + QL +F + + L Sbjct: 183 DYEKVVFTITTDGQISAIDAFKNALEAMYQQLAVFKGIVNISAADTFGRAIPANSEFAKL 242 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 + V L LS RS NCL +I ++G+L E+++ + N G+KSL EIK V+ +G Sbjct: 243 FESVSNLSLSARSFNCLDRADIRFIGELAIMEESELKDLKNLGKKSLEEIKAVMEEIGYP 302 Query: 317 LGMNLPDWPPESIEELAKKYED 338 +G E E+L +K ++ Sbjct: 303 IG---NQELGEKKEQLKRKLDE 321 >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 = 232 bits (593), Expect = 4e-59, Method: Composition-based stats. Identities = 95/320 (29%), Positives = 163/320 (50%), Gaps = 4/320 (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 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ I+N+K + K+ DS+K + F G + +EV+N D + ++ Sbjct: 75 LEDVALFIINLKKLRFKIKSDSNKEIVEFSFKGSKEIYGKDLNNDQVEVVNKDAYLATIN 134 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 DA + L V KG GY+P++ + + I +DA ++P+++ +Y +E DY Sbjct: 135 EDAELEFTLIVEKGIGYIPSEEIKEFLNDPKFIALDAFFTPVREATYDIEKVLFEDNPDY 194 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +K+ +T+ TDG IT ++ A + QL +F + +K L N LL+ Sbjct: 195 EKVVLTVTTDGQITPNEAFQNALEAMYKQLSVFDKITNVRSVIKNQATSNELE-NTKLLQ 253 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 + +L LS RS NCL +VY+G+L + +++ + N G+KSL EIK ++ +G +G Sbjct: 254 NITDLNLSARSYNCLEKAGVVYIGELALMSVSELAGLKNLGKKSLDEIKNIMENIGFPVG 313 Query: 319 MNLPDWPPESIEELAKKYED 338 + ++ E L K + Sbjct: 314 TS---KLSDNKEILKNKIAE 330 >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 = 232 bits (593), Expect = 4e-59, Method: Composition-based stats. Identities = 96/320 (30%), Positives = 166/320 (51%), Gaps = 4/320 (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 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ I+N+K + K+ G+S+K + F G + +EV+N D + ++ Sbjct: 75 LEDVALFIINLKKLRFKIKGESNKEIVEFSFKGSKEIYGKDLNNDQVEVVNKDAYLATIN 134 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 DA ++ L V KG GYVP++ + + I +DA ++P+++ +Y +E DY Sbjct: 135 EDAELKFTLIVEKGIGYVPSEEIKELINDPKFIALDAFFTPVREATYDIEKVLFEDNPDY 194 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +K+ +T+ TDG IT ++ A + QL +F + +K L N LL+ Sbjct: 195 EKVVLTVTTDGQITPNEAFQNALEAMYKQLSVFDKITNVRSVIKNQATSNELE-NTKLLQ 253 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 + +L LS RS NCL +VY+G+L + +++ + N G+KSL EIK ++ ++G +G Sbjct: 254 NITDLNLSARSYNCLEKAGVVYIGELALMSVSELAGLKNLGKKSLDEIKNIMESIGFPVG 313 Query: 319 MNLPDWPPESIEELAKKYED 338 + ++ E L K + Sbjct: 314 TS---KLSDNKEILKNKIAE 330 >gi|297380475|gb|ADI35362.1| DNA-directed RNA polymerase, alpha subunit [Helicobacter pylori v225d] Length = 344 Score = 232 bits (593), Expect = 4e-59, Method: Composition-based stats. Identities = 102/331 (30%), Positives = 169/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRIKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLSSE-YIEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ + E P G + +D ++PIKKV Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKKVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLNAKIENMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELNPEQRESLKKRLEKLEDK 340 >gi|150187066|emb|CAK30163.1| RNA polymerase alpha subunit [Streptococcus dysgalactiae subsp. equisimilis] Length = 208 Score = 232 bits (593), Expect = 4e-59, Method: Composition-based stats. Identities = 90/208 (43%), Positives = 141/208 (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 RILQDQLGMFINFEEPKKEVKEDINVKS 249 R+L + L +F + + K + + Sbjct: 181 RVLIEHLNLFTDLTDVAKATEVMKETEK 208 >gi|317011493|gb|ADU85240.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori SouthAfrica7] Length = 344 Score = 232 bits (593), Expect = 5e-59, Method: Composition-based stats. Identities = 102/331 (30%), Positives = 169/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPIGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSE-QIEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ R E P G + +D ++PIK V Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSEITR-ELMPEGYMPLDGSFTPIKNVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E+P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--EKPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLSDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|193795072|gb|ACF21667.1| RpoA [Rhizobium tropici] Length = 212 Score = 232 bits (592), Expect = 6e-59, Method: Composition-based stats. Identities = 149/213 (69%), 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 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 RILQDQLGVFVNFDEPQKEAEEEA-VTELAFNPALLKKVDERERSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 GDLIQ+TEA+MLR N GRKSL EIK VL +MG Sbjct: 180 GDLIQKTEAEMLRTPNLGRKSLNEIKEVLASMG 212 >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 = 232 bits (592), Expect = 6e-59, Method: Composition-based stats. Identities = 96/320 (30%), Positives = 166/320 (51%), Gaps = 4/320 (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 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ I+N+K + K+ G+S+K + F G + +EV+N D + ++ Sbjct: 75 LEDVALFIINLKKLRFKIKGESNKEIVEFSFKGSKEIYGKDLNNDQVEVVNKDTYLATIN 134 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 DA ++ L V KG GYVP++ + + I +DA ++P+++ +Y +E DY Sbjct: 135 EDAELKFTLIVEKGIGYVPSEEIKELINDPKFIALDAFFTPVREATYDIEKVLFEDNPDY 194 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +K+ +T+ TDG IT ++ A + QL +F + +K L N LL+ Sbjct: 195 EKVVLTVTTDGQITPNEAFQNALEAMYKQLSVFDKITNVRSVIKNQATSNELE-NTKLLQ 253 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 + +L LS RS NCL +VY+G+L + +++ + N G+KSL EIK ++ ++G +G Sbjct: 254 NITDLNLSARSYNCLEKAGVVYIGELALMSVSELAGLKNLGKKSLDEIKNIMESIGFPVG 313 Query: 319 MNLPDWPPESIEELAKKYED 338 + ++ E L K + Sbjct: 314 TS---KLSDNKEILKNKIAE 330 >gi|161367356|gb|ABX71083.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae O1] Length = 244 Score = 232 bits (592), Expect = 6e-59, Method: Composition-based stats. Identities = 106/247 (42%), Positives = 164/247 (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++ + + + F+P LL+ V++LEL+VRS NC Sbjct: 181 PEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANC 237 Query: 273 LRGENIV 279 L+ E I Sbjct: 238 LKAEAIH 244 >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 = 232 bits (592), Expect = 6e-59, Method: Composition-based stats. Identities = 103/323 (31%), Positives = 181/323 (56%), Gaps = 11/323 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I+ Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKIN 60 Query: 67 -GVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVND 124 G + + + E + DIILN+K + + + G +T G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLPVTLAEGVETGTITFELSGSEEEIFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG G+ PA+ + + G +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQDNFKD----GEFLLDATFSPVVFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + Sbjct: 177 FEIKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGIF-- 234 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL Sbjct: 235 VEDPTKDINPILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLT 294 Query: 305 EIKGVLGTMGLFLGMNLPDWPPE 327 EIK L +GL LG + +WP + Sbjct: 295 EIKDKLSELGLSLGTLIENWPQD 317 >gi|119668275|emb|CAK95496.1| RNA polymerase alpha subunit [Lactobacillus parabuchneri] Length = 216 Score = 232 bits (592), Expect = 6e-59, Method: Composition-based stats. Identities = 99/216 (45%), 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 HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 + + I GP VTAGDIQ +D+ VLNPD I + A M LT +KG GYV A Sbjct: 61 EENLEIDVIGPADVTAGDIQADSDVTVLNPDLHIATVAEGATFHMRLTANKGRGYVSAVE 120 Query: 161 HRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 ++ 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|119662811|emb|CAJ33197.1| RNA polymerase alpha subunit [Lactobacillus psittaci] Length = 205 Score = 232 bits (592), Expect = 6e-59, Method: Composition-based stats. Identities = 94/206 (45%), Positives = 141/206 (68%), Gaps = 1/206 (0%) 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 LQDQLGMFINFEEPKKEVKEDINVKS 249 L + +F F + + + ++ V+ Sbjct: 181 LVEHFKVF-EFSDAETDFGGEVMVEK 205 >gi|119662329|emb|CAJ33152.1| RNA polymerase alpha subunit [Lactobacillus mindensis] Length = 197 Score = 232 bits (591), Expect = 7e-59, 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|119662851|emb|CAJ33218.1| RNA polymerase alpha subunit [Lactobacillus fuchuensis] Length = 202 Score = 232 bits (591), Expect = 7e-59, 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|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 = 232 bits (591), Expect = 8e-59, Method: Composition-based stats. Identities = 104/323 (32%), Positives = 181/323 (56%), Gaps = 11/323 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I+ Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKIN 60 Query: 67 -GVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVND 124 G + + + E + DIILN+K + + + G +T G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLPVTLAEGVETGTITFELSGSEEEIFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG G+ PA+ + E G +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQDNFKE----GEFLLDATFSPVVFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + Sbjct: 177 FEIKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGIF-- 234 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL Sbjct: 235 VEDPTKDINPILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLT 294 Query: 305 EIKGVLGTMGLFLGMNLPDWPPE 327 EIK L +GL LG + +WP + Sbjct: 295 EIKDKLSELGLSLGTLIENWPQD 317 >gi|150036828|emb|CAM98281.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis] Length = 208 Score = 232 bits (591), Expect = 8e-59, 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|154424821|emb|CAL18513.1| RNA polymerase alpha subunit [Streptococcus mutans] Length = 200 Score = 232 bits (591), Expect = 8e-59, 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|119662375|emb|CAJ33176.1| RNA polymerase alpha subunit [Lactobacillus parabuchneri] Length = 201 Score = 231 bits (590), Expect = 9e-59, Method: Composition-based stats. Identities = 99/201 (49%), Positives = 140/201 (69%), Gaps = 4/201 (1%) 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 PAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A ++ PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ + TDGSIT Sbjct: 121 SAVENKKRSSEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDVWTDGSITPS 180 Query: 215 DSVALASRILQDQLGMFINFE 235 ++V+LA++IL + L MF++ Sbjct: 181 EAVSLAAKILTEHLEMFVDLT 201 >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 = 231 bits (590), Expect = 9e-59, Method: Composition-based stats. Identities = 101/330 (30%), Positives = 167/330 (50%), Gaps = 16/330 (4%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSEH-IEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ DA + L + KG GYVP++ + E P G + +D ++PIKKV Y +E Sbjct: 133 NPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTRELMPEGYMPLDGSFTPIKKVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--ERPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYED 338 L +G +G L E E L K+ E+ Sbjct: 310 KLNDLGYPVGTELS---HEQRESLKKRLEN 336 >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 = 231 bits (590), Expect = 1e-58, Method: Composition-based stats. Identities = 103/323 (31%), Positives = 181/323 (56%), Gaps = 11/323 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I+ Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKIN 60 Query: 67 -GVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVND 124 G + + + E + DIILN+K + + + G +T G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLPVTLAEGVETGTITFELSGSEEEIFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG G+ PA+ + + G +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQDNFKD----GEFLLDATFSPVVFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + Sbjct: 177 FEIKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNILDIEEINKGIF-- 234 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL Sbjct: 235 VEDPTKDINPILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLT 294 Query: 305 EIKGVLGTMGLFLGMNLPDWPPE 327 EIK L +GL LG + +WP + Sbjct: 295 EIKDKLSELGLSLGTLIENWPQD 317 >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 = 231 bits (590), Expect = 1e-58, Method: Composition-based stats. Identities = 107/342 (31%), Positives = 178/342 (52%), 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 MRKITTSAYMPTEIEVENVS---ENVAKIIAYPFETGYAVTLAHPLRRLLYTSTVGYAPT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQ 120 AV+IDGV HE S++G+ ED+ I+N+KGI K+ GDS + + GP +T D+ Sbjct: 58 AVKIDGVSHEFDSMRGMLEDVAIFIINLKGIRFKIKGDSKREVIEYNFTGPKEITGKDLN 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +E++NPD + ++ DA ++ + + KG GYVP++ R + I +DA ++P+ Sbjct: 118 ND-IVEIVNPDAYLATINEDADLKFSVVIEKGIGYVPSESIR-DYVSSDYIALDAFFTPV 175 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 + Y +E+ DY+K+ TI TDG ++ D+ A + Q+ +F + Sbjct: 176 IRAIYDIENVFVEDNPDYEKIIFTITTDGQVSAVDAFKNALEAMYQQMSVFKGIVDIDTG 235 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + S + + +E L LS RS NCL +I ++G+++ E+++ + N G+ Sbjct: 236 KSFTKQIPSGEHSKL-FESIENLNLSARSFNCLEKADIKFVGEIVIMDESELKGIKNLGK 294 Query: 301 KSLVEIKGVLGTMGLFLG----MNLPDWPPESIEELAKKYED 338 KSL EIK V+ +G +G + + + I EL KK +D Sbjct: 295 KSLEEIKSVMEEIGYPIGNEEIKDKKEVLSKKIAELKKKAKD 336 >gi|119662817|emb|CAJ33200.1| RNA polymerase alpha subunit [Lactobacillus homohiochii] Length = 205 Score = 231 bits (590), Expect = 1e-58, Method: Composition-based stats. Identities = 98/205 (47%), Positives = 146/205 (71%), Gaps = 4/205 (1%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR- 103 N+LRRVL++SL GAA+T++QIDGVLHE S++KGV ED+T IILN+K INLK++ D ++ Sbjct: 1 NSLRRVLLASLPGAAVTSIQIDGVLHEFSTVKGVVEDVTQIILNVKKINLKINSDDNETK 60 Query: 104 -VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 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|119672805|emb|CAK95518.1| RNA polymerase alpha subunit [Lactobacillus vaccinostercus] Length = 197 Score = 231 bits (590), Expect = 1e-58, Method: Composition-based stats. Identities = 95/196 (48%), Positives = 145/196 (73%), Gaps = 2/196 (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 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 + I +GP VTAGDI+ D+EVLNP+ I + A + +++T + G GYV A ++ Sbjct: 61 TLEIDVKGPAAVTAGDIEADGDVEVLNPELHIATVADGAELHIQMTANTGRGYVSADDNK 120 Query: 163 T--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 ++ PIG++ ID++Y+PI++V+YTVE+AR GQ DYDKL++ + +DGSIT +S++LA Sbjct: 121 ARMDDLPIGVLPIDSIYTPIERVNYTVENARVGQRNDYDKLTLDVWSDGSITPSESISLA 180 Query: 221 SRILQDQLGMFINFEE 236 ++IL + L MF+ + Sbjct: 181 AKILTEHLAMFVVLTD 196 >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 = 231 bits (590), Expect = 1e-58, 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 GHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVP + ++ G + +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|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 = 231 bits (590), Expect = 1e-58, Method: Composition-based stats. Identities = 104/323 (32%), Positives = 180/323 (55%), Gaps = 11/323 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I+ Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKIN 60 Query: 67 -GVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVND 124 G + + + E + DIILN+K + + + G +T G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLPVTLAEGVETGTITFELSGSEEEIFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG G+ PA +N G +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGVGFRPA----QDNFKNGEFLLDATFSPVVFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + Sbjct: 177 FEIKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGIF-- 234 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL Sbjct: 235 VEDPTKDINPILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLT 294 Query: 305 EIKGVLGTMGLFLGMNLPDWPPE 327 EIK L +GL LG + +WP + Sbjct: 295 EIKDKLSELGLSLGTLIENWPQD 317 >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 = 231 bits (590), Expect = 1e-58, 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|150036798|emb|CAM98035.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax] Length = 208 Score = 231 bits (589), Expect = 1e-58, 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|119662815|emb|CAJ33199.1| RNA polymerase alpha subunit [Lactobacillus kefiranofaciens subsp. kefiranofaciens] Length = 203 Score = 231 bits (589), Expect = 1e-58, 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|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 = 231 bits (589), Expect = 1e-58, Method: Composition-based stats. Identities = 102/323 (31%), Positives = 180/323 (55%), Gaps = 11/323 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I+ Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKIN 60 Query: 67 -GVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVND 124 G + + + E + DIILN+K + + + G +T G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLPVTLTEGVETGTITFELSGSEEEIFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG G+ PA+ + + G +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQDNFKD----GEFLLDATFSPVVFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + Sbjct: 177 FEIKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGIF-- 234 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + NP LLK EEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL Sbjct: 235 VEDPTKDINPILLKHAEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLT 294 Query: 305 EIKGVLGTMGLFLGMNLPDWPPE 327 EIK L +GL LG + +WP + Sbjct: 295 EIKDKLSELGLSLGTLIENWPQD 317 >gi|119672813|emb|CAK95487.1| RNA polymerase alpha subunit [Lactobacillus gasseri] Length = 195 Score = 231 bits (589), Expect = 1e-58, Method: Composition-based stats. Identities = 94/192 (48%), Positives = 137/192 (71%) 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 LQDQLGMFINFE 235 L + +F++ + Sbjct: 181 LVEHFKVFMSTD 192 >gi|119668295|emb|CAK95502.1| RNA polymerase alpha subunit [Lactobacillus crispatus] Length = 203 Score = 231 bits (589), Expect = 1e-58, 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|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 = 231 bits (589), Expect = 1e-58, Method: Composition-based stats. Identities = 103/323 (31%), Positives = 182/323 (56%), Gaps = 12/323 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I+ Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKIN 60 Query: 67 -GVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVND 124 G + + + E + DIILN+K +++ ++ D +T G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLSVTLAEDVETGTITFELSGSEEEIFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG G+ PA+ + + G +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQDNFKD----GEFLLDATFSPVVFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + + Sbjct: 177 FEIKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGIFVE 236 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL Sbjct: 237 ---DPKDINPILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLT 293 Query: 305 EIKGVLGTMGLFLGMNLPDWPPE 327 EIK L +GL LG + +WP + Sbjct: 294 EIKDKLSELGLSLGTLIENWPQD 316 >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 = 231 bits (589), Expect = 1e-58, Method: Composition-based stats. Identities = 95/320 (29%), Positives = 165/320 (51%), Gaps = 4/320 (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 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ I+N+K + K+ GDS+K + F G + +EV+N D + ++ Sbjct: 75 LEDVALFIINLKKLRFKIKGDSNKEIVEFNFKGSKEIYGKDLNNDQVEVVNKDAYLATIN 134 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D ++ L + KG GYVP++ + + I +DA ++P+++ +Y +E DY Sbjct: 135 EDTELKFTLIIEKGIGYVPSEEIKELLNDPKFIALDAFFTPVREATYDIEKVLFEDNPDY 194 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +K+ +T+ TDG IT ++ A + QL +F + +K L N LL+ Sbjct: 195 EKVVLTVTTDGQITPNEAFQNALEAMYKQLSVFDKITNVRSAIKNQATSNELE-NTKLLQ 253 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 + +L LS RS NCL +VY+G+L + +++ + N G+KSL EIK ++ ++G +G Sbjct: 254 NITDLNLSARSYNCLEKAGVVYIGELALMSVSELAGLKNLGKKSLDEIKNIMESIGFPVG 313 Query: 319 MNLPDWPPESIEELAKKYED 338 + ++ E L K + Sbjct: 314 TS---KLSDNKEILKNKIVE 330 >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 = 231 bits (588), Expect = 1e-58, Method: Composition-based stats. Identities = 102/331 (30%), Positives = 171/331 (51%), Gaps = 13/331 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE S++G Sbjct: 14 IKVLEKEGNRIKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHEFDSLRG 73 Query: 78 VHEDLTDIILNIKGINLKMS---------GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 V ED++ I+N+K I + V +GP + A D+ + + IE++ Sbjct: 74 VTEDVSLFIMNLKNIRFIAKALVGQDSPLENQSVVVDYSFKGPMELRARDLNSEH-IEII 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ ++ ++ DA + L + KG GYVP++ R E P G + +D ++PIK V Y +E Sbjct: 133 NPEMLLATINEDAQLNFSLIIYKGMGYVPSEITR-ELMPEGYMPLDGSFTPIKNVVYEIE 191 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A +++ QLG+F E+P + + Sbjct: 192 NVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVFG--EKPIANTEYSGDYA 249 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS EI Sbjct: 250 QRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKSYDEIAE 309 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G L ES+++ +K EDK Sbjct: 310 KLNDLGYPVGTELSLEQRESLKKRLEKLEDK 340 >gi|150036772|emb|CAN89785.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gasicomitatum LMG 18811] Length = 203 Score = 231 bits (588), Expect = 1e-58, 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|119662305|emb|CAJ33140.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. lactis] Length = 214 Score = 231 bits (588), Expect = 1e-58, 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|154424753|emb|CAL18479.1| RNA polymerase alpha subunit [Streptococcus agalactiae] Length = 213 Score = 231 bits (588), Expect = 2e-58, 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|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 = 231 bits (588), Expect = 2e-58, Method: Composition-based stats. Identities = 94/322 (29%), Positives = 157/322 (48%), Gaps = 36/322 (11%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 L IA PL G A TLG A+RR L+ S++G AI A +I G HE S+++G+ E + DI+ Sbjct: 31 YMLFIASPLLAGQATTLGVAIRRTLLESIQGTAIVAAKIYGAAHEYSTLEGIQESIHDIL 90 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+K + +K ++ I GP VTA DI+ +I + NP H I + ++E Sbjct: 91 LNLKQVIIKNKICEFQKCLISIIGPKKVTAADIELSQNITISNPYHHIATITKPIRFQVE 150 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 L ++KG GY+ + ++ G +DAL++P++ V++++ + E + L + I Sbjct: 151 LIINKGRGYLIQDGNDVQD---GYFPVDALFNPVRNVNFSIHNLAE----QQEALILEIW 203 Query: 207 TDGSITGEDSVALASRILQDQL--------------------------GMFINFEEPKKE 240 T+G+IT D++ S L + FE E Sbjct: 204 TNGAITPLDALRQGSENLIHLFLPPFGLEDDTYMTSLGSQDYNIHIKNSLKEKFELHSIE 263 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ED ++ F +E LELS R CL+ NI + DL++ ++ D+L+++N G Sbjct: 264 RIEDSHLIKDQFLEYSKTPIELLELSTRPFKCLKNANIYTINDLLKLSQQDLLKISNMGP 323 Query: 301 KSLVEIKGVLGTMGLFLGMNLP 322 S +K ++ + G+NL Sbjct: 324 SS---VKQIVEALDKRFGINLK 342 >gi|154424871|emb|CAL18538.1| RNA polymerase alpha subunit [Streptococcus vestibularis] Length = 211 Score = 231 bits (588), Expect = 2e-58, 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|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 = 230 bits (587), Expect = 2e-58, Method: Composition-based stats. Identities = 94/320 (29%), Positives = 166/320 (51%), Gaps = 1/320 (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 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ I+N+K + K+ G+S+K + F G + +EV+N D + ++ Sbjct: 75 LEDVALFIINLKKLRFKIKGESNKEIVEFSFKGSKEIYGKDLNNDQVEVVNKDAYLATIN 134 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 DA ++ L V KG GYVP++ + + I +DA ++P+++ +Y +E DY Sbjct: 135 EDAELKFTLIVEKGIGYVPSEEIKELINDPKFIALDAFFTPVREATYDIEKVLFEDNPDY 194 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +K+ +T+ TDG IT ++ A + QL +F + +K L N LL+ Sbjct: 195 EKVVLTVTTDGQITPNEAFQNALEAMYKQLSVFDKITNVRSVIKNQATSNELE-NTKLLQ 253 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 + +L LS RS NCL +VY+G+L + +++ + N G+KSL EIK ++ ++G +G Sbjct: 254 NITDLNLSARSYNCLEKAGVVYIGELALMSVSELAGLKNLGKKSLDEIKNIMESIGFPVG 313 Query: 319 MNLPDWPPESIEELAKKYED 338 + E ++ ++ + Sbjct: 314 TSKLSDNKEILKNKNRRIKS 333 >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 = 230 bits (587), Expect = 2e-58, Method: Composition-based stats. Identities = 103/323 (31%), Positives = 181/323 (56%), Gaps = 12/323 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I+ Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKIN 60 Query: 67 -GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVND 124 G + + + E + DIILN+K + + ++ D +T G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLPVTLAEDVEMGTITFELSGSEEEIFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG G+ PA+ + + G +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQDNFKD----GEFLLDATFSPVVFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + + Sbjct: 177 FEIKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGIFVE 236 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL Sbjct: 237 ---DPKDINPILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLT 293 Query: 305 EIKGVLGTMGLFLGMNLPDWPPE 327 EIK L +GL LG + +WP + Sbjct: 294 EIKDKLSELGLSLGTLIENWPQD 316 >gi|150036844|emb|CAM98287.1| DNA-directed RNA polymerase alpha chain [Leuconostoc holzapfelii] Length = 199 Score = 230 bits (587), Expect = 2e-58, 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|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 = 230 bits (587), Expect = 2e-58, Method: Composition-based stats. Identities = 104/338 (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 MRKITTSAYMPTEIEVKSVS---ENVANITAYPFEAGYAVTLAHPLRRLLYTSTVGFAPI 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I GV HE S++G+ ED+ I+N+K I K+ SG + + +GP +T D+ Sbjct: 58 GVKIKGVSHEFDSMRGMLEDVAFFIINLKKIRFKLKSGSEREVIEYSFKGPKEITGADLN 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +E++NPD + ++ DA + + + KG GYVP++ R E + I +DA ++P+ Sbjct: 118 ND-LVEIVNPDAYLATINEDAELNFSVIIQKGIGYVPSEEIREEIEDE-YIALDAFFTPV 175 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KK Y +++ DY+K+ TI TDG + ++ + Q+ +F + Sbjct: 176 KKAVYEIQNVLVEDDPDYEKIVFTITTDGQVGPVEAFKNCLEAMYQQMSVFKGILDIDVS 235 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + S F+ L VE+L LS RS NCL I ++G+L E ++ + N G+ Sbjct: 236 APVASSSASGEFSKL-LSSVEDLNLSARSFNCLDKAEIRFIGELALMDENELKELKNLGK 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK V+ +G +G+++ +S E+L KK + Sbjct: 295 KSLEEIKAVMEEIGYPVGVDV---LKDSKEQLRKKITE 329 >gi|119662825|emb|CAJ33205.1| RNA polymerase alpha subunit [Lactobacillus fermentum] Length = 190 Score = 230 bits (587), Expect = 2e-58, Method: Composition-based stats. Identities = 90/190 (47%), Positives = 135/190 (71%), 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 GYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A ++T 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|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 = 230 bits (586), Expect = 3e-58, Method: Composition-based stats. Identities = 110/321 (34%), Positives = 180/321 (56%), Gaps = 13/321 (4%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 QE + PN + + + P+ +G AH LGN++RR L+SSL GA+I V ID Sbjct: 8 QEFV-PN---IQLKEELGAFGYKIQVSPVEKGMAHILGNSIRRFLLSSLSGASIIKVNID 63 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR-VTIFKRGPGVV--TAGDIQTVN 123 GVLHE S+++ V ED+ +I+ N+K + +K+ + K + + GVV TAGD +T Sbjct: 64 GVLHEYSTLEDVKEDVVEIVSNLKKVAIKLDKNVSKVELELSVTKSGVVVVTAGDFKTTQ 123 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 IE++N D I L + + TVS G TE + +G I +D+ ++PIK+V Sbjct: 124 GIEIINKDQPIATLTNEREFSLTATVSVGRNVGILSALPTELEKVGDIAVDSDFNPIKRV 183 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 ++ + + L + + T+G+I +V A +Q+ +F++ P Sbjct: 184 AFEIFDNGTN-----ETLEVFVKTNGTIEPLVAVTKALEYFCEQISVFVSLRVPSNGKTG 238 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 D + S +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL Sbjct: 239 DALLDSN-IDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLGKKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDW 324 EIK +L L LG+ + ++ Sbjct: 298 NEIKQILIDNNLSLGVQIDNF 318 >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 = 230 bits (586), Expect = 3e-58, Method: Composition-based stats. Identities = 105/321 (32%), Positives = 163/321 (50%), Gaps = 8/321 (2%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + + + A P G+A TL + LRR+L SS G A T V+I GV HE S++G+ Sbjct: 16 IENISDTVAKVSAWPFEIGYAITLAHPLRRLLYSSTVGFAPTGVKIKGVAHEFDSMRGML 75 Query: 80 EDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ I+N+K + K+ DS K VT +GP + D+ +EV+N D + ++ Sbjct: 76 EDVALFIINLKKLRFKLKTDSEKEIVTFSFKGPKEICGKDLDND-VVEVVNADSYLATIN 134 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 DA + L + KG GYVP++ + DP I +DA ++P+K Y +E DY Sbjct: 135 EDADLEFTLIIEKGIGYVPSEEVQNFLDPE-FIALDAFFTPVKHAVYDIEKVLFEDNPDY 193 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +K+ TI TDG I+ D+ A + QL +F + V+ + L+ Sbjct: 194 EKVVFTITTDGQISPSDAFKNALEAMYKQLSVFDKITNAQSVVRSQTQNNEVEHVKL-LQ 252 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 + EL L RS NCL N+VY+G+L +++ + N G+KSL EIK V+ ++G +G Sbjct: 253 NITELNLGARSFNCLEKANVVYIGELALMNASELADLKNLGKKSLDEIKSVMESIGFPIG 312 Query: 319 -MNLPDWPPESIEELAKKYED 338 L D E+ L KK + Sbjct: 313 NSKLSDSAKET---LKKKITE 330 >gi|154424847|emb|CAL18526.1| RNA polymerase alpha subunit [Streptococcus pyogenes] Length = 202 Score = 230 bits (586), Expect = 3e-58, 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 = 229 bits (585), Expect = 3e-58, Method: Composition-based stats. Identities = 90/207 (43%), Positives = 139/207 (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 ILQDQLGMFINFEEPKKEVKEDINVKS 249 +L + L +F + E K + Sbjct: 181 VLIEHLNLFTDLTEVAKATDVMKETEK 207 >gi|150036740|emb|CAM98259.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. dextranicum] Length = 195 Score = 229 bits (585), Expect = 3e-58, 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|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 = 229 bits (585), Expect = 4e-58, Method: Composition-based stats. Identities = 103/323 (31%), Positives = 180/323 (55%), Gaps = 11/323 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+V+I+ Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGYALKQTMLYSIHGACVTSVKIN 60 Query: 67 -GVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVND 124 G + + + E + DIILN+K + + + G +T G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLPVTLAEGVDTGVITFELSGSEEEVFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG GY A+ + + +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGIGYRQAQENFKNEE----FLLDAAFSPVSFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y ++ AR G+ D DKL + I T+G+++ E+++ +A+ +Q+QL ++ EE K + Sbjct: 177 YEIKDARVGRRTDLDKLELNIKTNGNVSCEEALRIAATKIQNQLRNIVDVEEINKGIF-- 234 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL Sbjct: 235 VEDPTKDINPLLLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLT 294 Query: 305 EIKGVLGTMGLFLGMNLPDWPPE 327 EIK L +GL LG + +WP + Sbjct: 295 EIKDKLSELGLSLGTMIDNWPED 317 >gi|119662299|emb|CAJ33137.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. bulgaricus] Length = 214 Score = 229 bits (584), Expect = 5e-58, 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|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 = 229 bits (584), Expect = 5e-58, Method: Composition-based stats. Identities = 102/323 (31%), Positives = 182/323 (56%), Gaps = 12/323 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I+ Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKIN 60 Query: 67 -GVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVND 124 G + + + E + DIILN+K +++ ++ D +T G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLSVTLAEDVETGTITFELSGSEEEIFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG G+ PA+ + + + +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQDNFKDCE----FLLDATFSPVVFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + + Sbjct: 177 FEIKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGIFVE 236 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL Sbjct: 237 ---DPKDINPILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLT 293 Query: 305 EIKGVLGTMGLFLGMNLPDWPPE 327 EIK L +GL LG + +WP + Sbjct: 294 EIKDKLSELGLSLGTLIENWPQD 316 >gi|161511755|emb|CAP16888.1| DNA-directed RNA polymerase subunit alpha [Pediococcus damnosus] Length = 187 Score = 229 bits (584), Expect = 5e-58, Method: Composition-based stats. Identities = 93/186 (50%), Positives = 133/186 (71%), 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 KHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ ++ 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|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 = 229 bits (584), Expect = 5e-58, Method: Composition-based stats. Identities = 90/327 (27%), Positives = 169/327 (51%), Gaps = 7/327 (2%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P +E + + E + A P GFA TL + LRR+L+SS G + AV+I+G HE Sbjct: 11 PTEVEIEAISETE---AKISAYPFESGFAITLAHPLRRLLLSSSVGYSPIAVKIEGASHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKR-VTIFKRGPGVVTAGDIQTVNDIEVLNP 130 S++G+ ED+ I+N+K I K+ D ++ V GP + D+ +D+E+++P Sbjct: 68 FDSLRGMLEDIAIFIINLKNIKFKILSDENQVEVEYSFNGPKEIKGSDL-VNSDVEIVSP 126 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 + + ++ D + + + KG GY+P++ R + I +DA ++P+KKV Y +E Sbjct: 127 EAHLATINADCNLTFSVIIQKGIGYMPSEDIR-DMVSSDYIPLDAFFTPVKKVVYDIEKM 185 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 +++K T+ T+G IT ++ A ++ Q+ +F + EV + + Sbjct: 186 LVEDNPNFEKAVFTVQTNGQITPINAFKEAVSVMYSQMSVFNKVFD-LSEVTVSDSTEEP 244 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L+ K+++L LS RS N L + Y+G+L+ +E ++ + N G+KS EI L Sbjct: 245 VELKDLIVKIDDLNLSARSFNSLDRAGLKYLGELVLMSEVEVKNIKNLGKKSYDEIADKL 304 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYE 337 ++G + LP+ ++ ++++ Sbjct: 305 ASLGFPVENTLPENIASALRRKLEQFK 331 >gi|119662393|emb|CAJ33186.1| RNA polymerase alpha subunit [Lactobacillus plantarum] Length = 204 Score = 229 bits (583), Expect = 7e-58, Method: Composition-based stats. Identities = 92/204 (45%), Positives = 138/204 (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 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDP 167 GP VTAGDI D+EVLNPD IC + A M +T + G GYV A+ ++ ++ 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|154424859|emb|CAL18532.1| RNA polymerase alpha subunit [Streptococcus sobrinus] Length = 203 Score = 229 bits (583), Expect = 7e-58, 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|332184519|gb|AEE26773.1| DNA-directed RNA polymerase alpha subunit [Francisella cf. novicida 3523] Length = 318 Score = 228 bits (581), Expect = 1e-57, Method: Composition-based stats. Identities = 102/323 (31%), Positives = 180/323 (55%), Gaps = 11/323 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I+ Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKIN 60 Query: 67 -GVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVND 124 G + + + E + DIILN+K + + + G +T G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLPVTLAEGVETGIITFELSGSEEEIFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG G+ PA+ + + G +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQDNFKD----GEFLLDATFSPVVFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + Sbjct: 177 FEIKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGIF-- 234 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL Sbjct: 235 VEDPTKDINPILLKHVEELNLTARSSNCLKAVNIKLIGELVQKTENELLKAPNFGKKSLT 294 Query: 305 EIKGVLGTMGLFLGMNLPDWPPE 327 EIK L + L LG + +WP + Sbjct: 295 EIKDKLSELSLSLGTIIENWPQD 317 >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 = 228 bits (581), Expect = 1e-57, Method: Composition-based stats. Identities = 103/239 (43%), Positives = 153/239 (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++ + + + F+P LL+ V++LEL+VRS NC Sbjct: 128 PEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANC 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|150186952|emb|CAK30135.1| RNA polymerase alpha subunit [Streptococcus equi subsp. zooepidemicus] Length = 205 Score = 228 bits (581), Expect = 1e-57, Method: Composition-based stats. Identities = 87/205 (42%), Positives = 139/205 (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 LQDQLGMFINFEEPKKEVKEDINVK 248 L + L +F + + K + + Sbjct: 181 LIEHLNLFTDLTDVAKATEVMKEAE 205 >gi|119668371|emb|CAK95515.1| RNA polymerase alpha subunit [Lactobacillus sakei subsp. carnosus] Length = 196 Score = 228 bits (581), Expect = 1e-57, 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|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 = 228 bits (581), Expect = 1e-57, Method: Composition-based stats. Identities = 92/328 (28%), Positives = 167/328 (50%), Gaps = 12/328 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P +E + +N + A P GFA TL + LRR+L+SS G A AV+I+G HE Sbjct: 11 PTEVEIEAIS---DNEAKISAYPFEDGFAITLAHPLRRLLLSSSVGCAPIAVKIEGASHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 S++G+ ED+ ++N+K I K++GD + V GP + D+ ++++V++ Sbjct: 68 FDSLRGMLEDVAIFVINLKNIKFKINGDKEQVVVEYSFNGPRDIKGEDLI-NSEVDVVSK 126 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D + ++ D + + + KG GY+P++ R + I IDA ++P+KKV Y +E Sbjct: 127 DAHLATINSDCNLTFSVILQKGIGYMPSEDIR-DIVGADYIPIDAFFTPVKKVVYDIEKM 185 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 +Y+K + T+G I+ + A ++ Q+ +F + EV + + Sbjct: 186 LVEDNPNYEKAVFRVQTNGQISPVTAFKEAVSVMYSQMSVFNKVFD-LSEVAVSDSGEEP 244 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L+ ++++L LS RS N L + Y+G+L+ +E ++ + N G+KS EI L Sbjct: 245 VELKELVIRIDDLNLSARSFNSLDRAGLKYLGELVLMSEVEVKNIKNLGKKSYDEIAEKL 304 Query: 311 GTMGLFLGMNLPDWPPESIEE-LAKKYE 337 ++G + + PE++ L +K E Sbjct: 305 ESLGYP----VENTLPENVASALRRKLE 328 >gi|150036788|emb|CAM98271.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 205 Score = 227 bits (580), Expect = 1e-57, Method: Composition-based stats. Identities = 85/205 (41%), Positives = 129/205 (62%), Gaps = 2/205 (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 ILQDQLGMFINFEEPKKEVKEDINV 247 IL + L +F++ E + Sbjct: 181 ILAEHLNLFMDISPVAAEASVMVEA 205 >gi|195973794|gb|ACG63462.1| DNA-directed RNA polymerase subunit alpha [Francisella philomiragia subsp. philomiragia ATCC 25015] Length = 290 Score = 227 bits (580), Expect = 1e-57, Method: Composition-based stats. Identities = 103/283 (36%), Positives = 166/283 (58%), Gaps = 7/283 (2%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + P+ +G AH LGN++RR L+SSL GA+I V IDGVLHE S+++ V ED+ +I+ N Sbjct: 13 KIQVSPVEKGMAHILGNSIRRFLLSSLSGASIIKVNIDGVLHEYSTLEDVKEDVVEIVSN 72 Query: 89 IKGINLKMSGDSHKR-VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 +K + +K+ + K + + GVVTAGD +T IE++N D I L + + Sbjct: 73 LKKVAIKLDKNVSKVELELSVTKSGVVTAGDFKTTQGIEIINKDQPIATLTNERKFSLTA 132 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 TVS G TE + +G I +D+ ++PIK+V++ + + L + + T Sbjct: 133 TVSVGRNVGILSALPTELEKVGDIAVDSDFNPIKRVAFEIFDNGTN-----ETLEVFVKT 187 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G+I +V A +Q+ +F++ P D + S +P LLK +++LEL+V Sbjct: 188 NGTIEPLVAVTKALEYFCEQISVFVSLRVPSNGKTGDALLDSN-IDPILLKPIDDLELTV 246 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 RS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L Sbjct: 247 RSSNCLRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQIL 289 >gi|119668313|emb|CAK95457.1| RNA polymerase alpha subunit [Lactobacillus fructivorans KCTC 3543] Length = 192 Score = 227 bits (580), Expect = 1e-57, Method: Composition-based stats. Identities = 97/192 (50%), Positives = 142/192 (73%), Gaps = 4/192 (2%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRRVL++SL GAA+T++QIDGVLHE S++KGV ED+T IILN+K INLK++ D ++ Sbjct: 1 GNSLRRVLLASLPGAAVTSIQIDGVLHEFSTVKGVVEDVTQIILNVKKINLKINSDDNET 60 Query: 104 --VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 ++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|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 = 227 bits (579), Expect = 2e-57, Method: Composition-based stats. Identities = 103/283 (36%), Positives = 166/283 (58%), Gaps = 7/283 (2%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + P+ +G AH LGN++RR L+SSL GA+I V IDGVLHE S+++ V ED+ +I+ N Sbjct: 13 KIQVSPVEKGMAHILGNSIRRFLLSSLSGASIIKVNIDGVLHEYSTLEDVKEDVVEIVSN 72 Query: 89 IKGINLKMSGDSHKR-VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 +K + +K+ + K + + GVVTAGD +T IE++N D I L + + Sbjct: 73 LKKVAIKLDKNVSKVELELSVTKSGVVTAGDFKTTQGIEIINKDQPIATLTNEREFSLTA 132 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 TVS G TE + +G I +D+ ++PIK+V++ + + L + + T Sbjct: 133 TVSVGRNVGILSALPTELEKVGDIAVDSDFNPIKRVAFEIFDNGTN-----ETLEVFVKT 187 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G+I +V A +Q+ +F++ P D + S +P LLK +++LEL+V Sbjct: 188 NGTIEPLVAVTKALEYFCEQISVFVSLRVPSNGKTGDALLDSN-IDPILLKPIDDLELTV 246 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 RS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L Sbjct: 247 RSSNCLRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQIL 289 >gi|150036728|emb|CAM98255.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 194 Score = 227 bits (579), Expect = 2e-57, Method: Composition-based stats. Identities = 87/193 (45%), Positives = 128/193 (66%), Gaps = 2/193 (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 VALASRILQDQLG 229 ++L ++IL + LG Sbjct: 181 LSLGAKILAEHLG 193 >gi|195973802|gb|ACG63466.1| DNA-directed RNA polymerase subunit alpha [Francisella philomiragia] Length = 290 Score = 227 bits (578), Expect = 2e-57, Method: Composition-based stats. Identities = 102/283 (36%), Positives = 165/283 (58%), Gaps = 7/283 (2%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + P+ +G AH LGN++RR L+SSL GA+I V IDGVLHE S+++ V ED+ +I+ N Sbjct: 13 KIQVSPVEKGMAHILGNSIRRFLLSSLSGASIIKVNIDGVLHEYSTLEDVKEDVVEIVSN 72 Query: 89 IKGINLKMSGDSHKR-VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 +K + +K+ + K + + G VTAGD +T IE++N D I L + + Sbjct: 73 LKKVAIKLDKNVSKVELELSVTKSGAVTAGDFKTTQGIEIINKDQPIATLTNEREFSLTA 132 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 TVS G TE + +G I +D+ ++PIK+V++ + + L + + T Sbjct: 133 TVSVGRNVGILSALPTELEKVGDIAVDSDFNPIKRVAFEIFDNGTN-----ETLEVFVKT 187 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G+I +V A +Q+ +F++ P D + S +P LLK +++LEL+V Sbjct: 188 NGTIEPLVAVTKALEYFCEQISVFVSLRVPSNGKTGDALLDSN-IDPILLKPIDDLELTV 246 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 RS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L Sbjct: 247 RSSNCLRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQIL 289 >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 = 227 bits (578), Expect = 2e-57, Method: Composition-based stats. Identities = 82/210 (39%), Positives = 135/210 (64%) Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL 170 P +TAGDI T +DIE++NPDH + + ++ +TV+K GYVPA+ ++ ++ P+G Sbjct: 2 PAEITAGDILTDSDIEIVNPDHYLFTIAEGHSLKATMTVAKNRGYVPAEGNKKDDAPVGT 61 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L + Sbjct: 62 LAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNL 121 Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 F + E K + + + L + +EEL+LSVRS NCL+ I + DL ++TE Sbjct: 122 FTDLTEVAKATEVMKETEKVNDEKVLDRTIEELDLSVRSYNCLKRAGINTVXDLTEKTEP 181 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 +M+++ N GRKSL E+K L +GL L + Sbjct: 182 EMMKVRNLGRKSLEEVKIKLADLGLGLKND 211 >gi|168805077|gb|ACA28617.1| DNA-directed RNA polymerase subunit alpha [Thiomonas arsenivorans] Length = 228 Score = 227 bits (578), Expect = 2e-57, Method: Composition-based stats. Identities = 100/228 (43%), Positives = 154/228 (67%), 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 LDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSYTVESAREG 193 L + M++ V KG GYVP R ++ IG 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|195973808|gb|ACG63469.1| DNA-directed RNA polymerase subunit alpha [Francisella noatunensis] Length = 290 Score = 227 bits (578), Expect = 3e-57, Method: Composition-based stats. Identities = 102/283 (36%), Positives = 165/283 (58%), Gaps = 7/283 (2%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + P+ +G AH LGN++RR L+SSL GA+I V I GVLHE S+++ V ED+ +I+ N Sbjct: 13 KIQVSPVEKGMAHILGNSIRRFLLSSLSGASIIKVNISGVLHEYSTLEDVKEDVVEIVSN 72 Query: 89 IKGINLKMSGDSHKR-VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 +K + +K+ + K + + GVVTAGD +T IE++N D I L + + Sbjct: 73 LKKVAIKLDKNVSKVELELSVTKSGVVTAGDFKTTQGIEIINKDQPIATLTNEREFSLVA 132 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 TVS G E + +G I +DA ++PIK+V++ + + L + + T Sbjct: 133 TVSVGRNVGILSALPIELEKVGDIAVDADFNPIKRVAFEIFDNGAS-----ETLEVFVKT 187 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G+I +V A +Q+ +F++ + P D + S +P LLK +++LEL+V Sbjct: 188 NGTIEPLAAVTKALEYFCEQISVFVSLKVPSNGKTGDALLDSN-IDPILLKPIDDLELTV 246 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 RS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L Sbjct: 247 RSSNCLRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQIL 289 >gi|150036792|emb|CAN89787.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis] Length = 198 Score = 226 bits (577), Expect = 3e-57, Method: Composition-based stats. Identities = 86/191 (45%), Positives = 125/191 (65%), Gaps = 2/191 (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 SRILQDQLGMF 231 ++IL + L Sbjct: 181 AKILAEHLNFV 191 >gi|119668347|emb|CAK95470.1| RNA polymerase alpha subunit [Lactobacillus paracasei subsp. paracasei] Length = 180 Score = 226 bits (577), Expect = 3e-57, 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|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 = 226 bits (577), Expect = 3e-57, 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|154424839|emb|CAL18522.1| RNA polymerase alpha subunit [Streptococcus pluranimalium] Length = 203 Score = 226 bits (577), Expect = 3e-57, 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|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 = 226 bits (576), Expect = 4e-57, Method: Composition-based stats. Identities = 106/308 (34%), Positives = 170/308 (55%), Gaps = 9/308 (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 LTDIILNIKGINLK---MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL- 137 + I+LN+K + + + D + + +F G VTA + V I+++NP+ I NL Sbjct: 77 VMSIVLNLKQVVISVDSIDDDFEQEMELFVTGKQKVTASCFEQVEGIKIINPEQEIANLV 136 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPI-GLITIDALYSPIKKVSYTVESAREGQVL 196 +A ++M + + +G GYV A+ ++ GLI+ID LY+P+ KVSY +E ++ Sbjct: 137 SENASLKMTVLIKRGIGYVSAEENKIYTKKKKGLISIDTLYTPVSKVSYDIE----KKLG 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 LGMNLPDW 324 +L Sbjct: 313 FQNDLEKK 320 >gi|150036768|emb|CAM98265.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. cremoris] Length = 212 Score = 226 bits (576), Expect = 4e-57, 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|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 = 226 bits (576), Expect = 4e-57, Method: Composition-based stats. Identities = 91/331 (27%), Positives = 166/331 (50%), Gaps = 11/331 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P ++ LG N+ ++A P G+A TL + LRR+L+SS G A A++I+GV HE Sbjct: 11 PTTVDVEELG---PNKVRVMAYPFESGYAVTLAHPLRRLLLSSSVGLAPIALKIEGVAHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL-----KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 SI+G+ ED++ I+N+K I + + +GP V++ G + I+ Sbjct: 68 FDSIRGIVEDVSPFIVNLKNIRFLGKEGGFLEEEKVELHYSFQGPMVLSGGHLAND-QID 126 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 ++N + + ++ DAV+ + V KG GYVP++ R I +DA ++P++K Y Sbjct: 127 IVNKEAPLATINEDAVLNFSIIVQKGIGYVPSEDIRGLISEDY-IPLDAYFTPVRKAVYE 185 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 +E+ Y+K+ ++TDG + ++ A I+ Q+ +F N + + Sbjct: 186 IENVLVEDNPTYEKIIFDVETDGQVDPYEAFKQAIAIMYSQMSIF-NADISSISTTQKQA 244 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 ++ LL K++ L L+ R NCL I Y+G+L+ +E+++ + N G+ S EI Sbjct: 245 IEDNFDFKDLLMKIDSLNLNARCFNCLDRIGIRYVGELVLMSESEIKGVKNLGKTSYNEI 304 Query: 307 KGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 L +G +G L + ++ + K + Sbjct: 305 VEKLQEIGYPIGTELEEDKKIALTKKISKLK 335 >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 = 226 bits (576), Expect = 4e-57, Method: Composition-based stats. Identities = 102/283 (36%), Positives = 165/283 (58%), Gaps = 7/283 (2%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + P+ +G AH LGN++RR L+SSL GA+I V I G+LHE S+++ V ED+ +I+ N Sbjct: 13 KIQVSPVEKGMAHILGNSIRRFLLSSLSGASIIKVNISGILHEYSTLEDVKEDVVEIVSN 72 Query: 89 IKGINLKMSGDSHKR-VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 +K + +K+ + K + + GVVTAGD +T IE++N D I L + + Sbjct: 73 LKKVAIKLDKNVSKVELELSVTKSGVVTAGDFKTTQGIEIINKDQPIATLTNEREFSLVA 132 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 TVS G TE + +G I +DA ++PIK+V++ + + L + + T Sbjct: 133 TVSVGRNVGILSALPTELEKVGDIAVDADFNPIKRVAFEIFDNGAS-----ETLEVFVKT 187 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G+I +V A +Q+ +F++ P D + S +P LLK +++LEL+V Sbjct: 188 NGTIEPLAAVTKALEYFCEQISVFVSLRVPSNGKTGDALLDSN-IDPILLKPIDDLELTV 246 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 RS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L Sbjct: 247 RSSNCLRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQIL 289 >gi|150186989|emb|CAK30143.1| RNA polymerase alpha subunit [Streptococcus gordonii] Length = 202 Score = 226 bits (576), Expect = 5e-57, 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|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 = 225 bits (575), Expect = 5e-57, Method: Composition-based stats. Identities = 92/307 (29%), Positives = 156/307 (50%), Gaps = 5/307 (1%) 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 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 S++GV ED++ I+N+K I K+ DS +K V G+ + ++++ P+ Sbjct: 68 FDSVRGVVEDVSHFIVNLKTIRFKVKDDSESVSIDYKFIGPKVITGEDLKNDLVDIVTPN 127 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ DA++ + V KG GYVP++ R G + +DA ++P+ V+Y E+ Sbjct: 128 IHLATINEDAILNFSIIVRKGIGYVPSEDIRNLISE-GYMPLDAYFTPVTSVTYDTENVL 186 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +Y+K+ I TDG I + A ++ Q+ +F N E + + + + P Sbjct: 187 VEDDPNYEKVVFNIQTDGQIEPLTAFKNALSVMHKQMAIF-NSELNIEVPEVSLGEEDSP 245 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L + ++ L S R NCL I Y+G+L+ +E + + N G+KSL EI L Sbjct: 246 EIRVLSQSIDSLNFSARCFNCLDRSGIKYLGELVLLSEDQIKNIKNLGKKSLDEITVKLE 305 Query: 312 TMGLFLG 318 +G +G Sbjct: 306 ELGYPIG 312 >gi|119662347|emb|CAJ33162.1| RNA polymerase alpha subunit [Lactobacillus reuteri] Length = 203 Score = 225 bits (575), Expect = 5e-57, Method: Composition-based stats. Identities = 91/203 (44%), Positives = 144/203 (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 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT- 163 + +GP VTA DIQ N++ +LNPD I + A + ++LT KG GY+ A ++ Sbjct: 61 ELDVKGPAEVTASDIQGDNEVTILNPDLHIATVADGAELHIKLTADKGRGYLSANDNKAR 120 Query: 164 -ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 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|190411125|gb|ACE78317.1| RpoA [Vibrio parahaemolyticus] Length = 244 Score = 225 bits (575), Expect = 5e-57, Method: Composition-based stats. Identities = 107/247 (43%), Positives = 164/247 (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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y+ Sbjct: 181 TILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYI 237 Query: 282 GDLIQRT 288 GDL+QRT Sbjct: 238 GDLVQRT 244 >gi|119668293|emb|CAK95452.1| RNA polymerase alpha subunit [Lactobacillus collinoides] Length = 191 Score = 225 bits (575), Expect = 5e-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|151416836|emb|CAO78489.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gelidum] Length = 193 Score = 225 bits (575), Expect = 6e-57, 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|150036770|emb|CAM98266.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gasicomitatum] Length = 210 Score = 225 bits (575), Expect = 6e-57, 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|150187019|emb|CAK30152.1| RNA polymerase alpha subunit [Streptococcus sobrinus] Length = 202 Score = 225 bits (574), Expect = 6e-57, 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|150187089|emb|CAK30168.1| RNA polymerase alpha subunit [Streptococcus alactolyticus] Length = 202 Score = 225 bits (574), Expect = 6e-57, 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|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 = 225 bits (574), Expect = 8e-57, 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|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 = 225 bits (574), Expect = 8e-57, Method: Composition-based stats. Identities = 88/289 (30%), Positives = 150/289 (51%), Gaps = 7/289 (2%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 E + + + L +G T+GN LRRVL++ L G AITAV+I+G+ +E ++I GV ED+ + Sbjct: 18 EQSSRFLLKELTQGQGLTIGNTLRRVLLTELEGTAITAVRINGINNEFATIPGVREDVLE 77 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 I+LN+K I + +GP +VTA +I + + +LN +H I + Sbjct: 78 ILLNLKQIKFTGLVTEPFFTHVSVQGPQLVTAANISLPDGLSLLNSNHYIAAVAEQTNFE 137 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +EL + G GY +++D++++P+K V+Y ++ + + + L + Sbjct: 138 IELKIESGTGYNFTDEENRIC-SGDFLSLDSIFTPVKNVNYQIKDSYKIDEKITEILDLE 196 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 I T+GSIT D++ A+ +LQ G + E V + L +EEL+ Sbjct: 197 IITNGSITPNDALNKAALVLQTLFGSLVIDELQTNPVLPEQTETE------LDILIEELQ 250 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 LSVR+ NCL+ NI + DL+Q + ++ + NFG+KS E+ L Sbjct: 251 LSVRAYNCLKRVNIKTIADLVQYSVKELKDIKNFGQKSANEVVEKLQDR 299 >gi|119672791|emb|CAK95479.1| RNA polymerase alpha subunit [Lactobacillus sakei subsp. sakei] Length = 176 Score = 224 bits (572), Expect = 1e-56, 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|255023418|ref|ZP_05295404.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes FSL J1-208] Length = 195 Score = 224 bits (572), Expect = 1e-56, 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|150187125|emb|CAK30176.1| RNA polymerase alpha subunit [Streptococcus intermedius] Length = 202 Score = 224 bits (572), Expect = 1e-56, 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|154424797|emb|CAL18501.1| RNA polymerase alpha subunit [Streptococcus gordonii] Length = 194 Score = 224 bits (572), Expect = 1e-56, 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|119668335|emb|CAK95508.1| RNA polymerase alpha subunit [Lactobacillus johnsonii] Length = 185 Score = 224 bits (572), Expect = 1e-56, 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|190411123|gb|ACE78316.1| RpoA [Vibrio parahaemolyticus] Length = 243 Score = 224 bits (571), Expect = 1e-56, Method: Composition-based stats. Identities = 106/246 (43%), Positives = 163/246 (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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y+ Sbjct: 181 TILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYI 237 Query: 282 GDLIQR 287 GDL+QR Sbjct: 238 GDLVQR 243 >gi|86438816|emb|CAJ43373.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 203 Score = 224 bits (570), Expect = 2e-56, 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|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 = 224 bits (570), Expect = 2e-56, Method: Composition-based stats. Identities = 92/327 (28%), Positives = 159/327 (48%), Gaps = 6/327 (1%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P +E + + NR ++A P G+A TL + LRR+++ S G A +V+I+G HE Sbjct: 11 PTEVE---VNEISANRAEIVAYPFESGYAVTLAHPLRRLILGSSIGYAPISVKIEGAAHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 +I+G+HED+ I+N+K I K+ G + G VTA D+ IEV+N Sbjct: 68 FDNIRGMHEDVAVFIINLKNIRFKIKDGSDRVELKYSFSGYKEVTAQDLNND-QIEVVNG 126 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D + L+ DA + + ++KG GYVP++ R E P I +DA ++P++K +Y +E Sbjct: 127 DLPLATLNEDAELNFTMVIAKGIGYVPSEDLRDEVAP-DSIALDAFFTPVRKANYKIEPV 185 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 +++K++ I+TD I ++ A ++ QL +F + Sbjct: 186 LVEDNPNFEKITFDIETDAQIGPVEAFTNALEVMNKQLSVFNGVLDVDISTTLPKRTNDD 245 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L V+ L LS RS N L I ++G+L+ +E ++ + N G+KSL E L Sbjct: 246 NELKPFLAAVDALGLSARSFNSLDRAGIKFLGELVLMSENEIKNIKNLGKKSLDETNECL 305 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYE 337 G L + ++ + ++ + Sbjct: 306 VEHGFGPEFELKENTRANLVKKLEQLK 332 >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 (570), Expect = 2e-56, Method: Composition-based stats. Identities = 91/332 (27%), Positives = 163/332 (49%), Gaps = 12/332 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P +I LG + + G+A TL + LRR+L+ S G A A++I+GV HE Sbjct: 12 PTDIRVERLG---DRGIRVSVSAFESGYAITLAHPLRRLLLQSSVGFAPIAIKIEGVAHE 68 Query: 72 ISSIKGVHEDLTDIILNIKGINLKM----SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 S++G+ ED+ I N+K I L + + V GP ++ D+ T ++EV Sbjct: 69 FDSVRGMAEDVALFIANLKNIRLVAKNLENAEDQLVVHYSFNGPAKLSGKDLATE-EVEV 127 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 ++ + + ++ D + L + KG GYVP++ R I +DA ++PIKK Y + Sbjct: 128 VDTETYLATINEDGQLGFSLIIQKGMGYVPSESIRGFISSDY-IPLDACFTPIKKAIYHI 186 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ +++K+ I++DG + + + A + + Q+ +F + K ++ Sbjct: 187 ENILVDGNPNFEKVIFEIESDGQVDPKQAFQEAIKTMHAQMHIF---STNLSDSKNAYHL 243 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 ++ L+KKVE+L+LS R NCL I Y+G+L+ ++ + N G+KS EI Sbjct: 244 ENNLEIKELIKKVEDLDLSARCLNCLDKVGIKYIGELVLMDVYELKGIKNLGKKSYDEIA 303 Query: 308 GVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L + +G LP+ S++ K + + Sbjct: 304 EKLEQLKYPVGQELPEGFKASLKARIDKLKSE 335 >gi|150186942|emb|CAK30133.1| RNA polymerase alpha subunit [Streptococcus canis] Length = 204 Score = 224 bits (570), Expect = 2e-56, Method: Composition-based stats. Identities = 86/204 (42%), Positives = 138/204 (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 DQLGMFINFEEPKKEVKEDINVKS 249 + L +F + + K + ++ Sbjct: 181 EHLNLFTDLTDVAKATEVMKETET 204 >gi|162955842|gb|ABY25296.1| RNA polymerase alpha subunit [Vibrio sp. MSSRF7] Length = 240 Score = 224 bits (570), Expect = 2e-56, Method: Composition-based stats. Identities = 100/222 (45%), Positives = 149/222 (67%), Gaps = 5/222 (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 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 D DKL + ++T+G+I E+++ A+ IL +QL F++ + + Sbjct: 181 DLDKLVIDMETNGTIEPEEAIRRAATILAEQLDAFVDLRDVR 222 >gi|47679547|gb|AAT36717.1| RNA polymerase alpha subunit [Corethron hystrix] Length = 301 Score = 223 bits (569), Expect = 2e-56, Method: Composition-based stats. Identities = 87/282 (30%), Positives = 143/282 (50%), Gaps = 3/282 (1%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 L G T+G LRR L+S L AIT V+I GV +E S I+GV ED+ +++ Sbjct: 21 YGQFQINDLNPGQGITIGTVLRRFLLSELNATAITGVRIAGVNNEFSIIEGVREDVLELL 80 Query: 87 LNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 LN++ I +K + D K + +GP V+TA IQ ++E+LNP+ I + ++ Sbjct: 81 LNLRPIVIKNNSDNSEMKFGRLKVQGPAVITANAIQLPTELEILNPNQYIATISRSMILE 140 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 ME G GY + E + IDA++ P++KV + VE+ + + L + Sbjct: 141 MEFKFESGIGYRLVNQTKME-SSSDFLEIDAVFMPVQKVDFKVENIYDKNKHISENLIID 199 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 I T+GSI+ E ++ +S + + I + K+ ++ + +EEL+ Sbjct: 200 IWTNGSISPETALYESSNNIIELFNSLIENKFKKEILEPLPENTRINSENHTNISIEELQ 259 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 LSVRS NCL+ I + DL++ + + + NFGRKS E+ Sbjct: 260 LSVRSYNCLKRAQINSISDLLKYSPEKLQEIKNFGRKSADEV 301 >gi|150187122|emb|CAK30175.1| RNA polymerase alpha subunit [Streptococcus lutetiensis] Length = 201 Score = 223 bits (569), Expect = 2e-56, 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|315451273|gb|ADU24721.1| RNA polymerase alpha subunit [Lactobacillus sp. YM 0097] Length = 212 Score = 223 bits (569), Expect = 3e-56, 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|119662357|emb|CAJ33167.1| RNA polymerase alpha subunit [Lactobacillus salivarius] Length = 194 Score = 223 bits (569), Expect = 3e-56, 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|228017206|gb|ACP52026.1| RNA polymerase alpha subunit [Pinus leiophylla var. chihuahuana] Length = 335 Score = 223 bits (568), Expect = 3e-56, Method: Composition-based stats. Identities = 77/329 (23%), Positives = 146/329 (44%), Gaps = 24/329 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ IE + T+G A+RR L+ + G IT V+++ + Sbjct: 13 LRWKCIESRAYSKRLH-YGRFXXXXXXXXXXDTIGIAMRRALLGEVEGTCITRVKLENIK 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + DI++N+K I L+ + +I+ GP VTA DI +++++ Sbjct: 72 HEYSAIIGIEESVHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIID 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + L + K GY+ H N G+ IDA++ P++ +Y++ S Sbjct: 132 TTQHIARLTKSITSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--- 246 G + + L + I T+G +T +++ ASR L D F++ EE + + Sbjct: 189 YGSGNEI-REVLFLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSN 247 Query: 247 -------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ L +++L LR NI + DL+ + D++ Sbjct: 248 MLPFPLSHLLTDTGETKEKIAFQLIFIDQLXXXXXXXXXLRRANIHTLLDLLNYSREDLM 307 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 R+ +FG++S+ ++ VL + ++ P Sbjct: 308 RIEHFGKESVEQVLEVLQKL---FAIDPP 333 >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 = 222 bits (567), Expect = 4e-56, Method: Composition-based stats. Identities = 82/301 (27%), Positives = 145/301 (48%), Gaps = 34/301 (11%) Query: 48 RRVL-------MSSLRGAAITA--VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 RRVL + + G + A + V HE S+I G+ E + +I+LN+K I L+ + Sbjct: 46 RRVLALGRGFNLEKIEGNNVLATRAKFGSVPHEYSTIAGIEESVQEILLNLKEIVLRSNL 105 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 + +I +GP +TA DI +E+++ I NL +EL + + GY Sbjct: 106 YGVRDASISVKGPRYITAQDIILPPSVEIVDTSQPIANLTEPIDFCIELQIKRDRGYQTE 165 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 +N G IDA+ P++ V+Y++ S G ++ L + I T+GS+T ++++ Sbjct: 166 LR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNG-NEKHEILFLEIWTNGSLTPKEALY 221 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLP------------------FNPALLKKV 260 ASR L D F++ EE +E+ N + P P + Sbjct: 222 EASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKRLTNLNLKKNKKGIPLNCIFI 281 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 ++LEL R+ NCL+ NI + DL+ +TE D++R+ +F + + K + T+ +L ++ Sbjct: 282 DQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSFH---MEDGKQIWDTLEKYLPID 338 Query: 321 L 321 L Sbjct: 339 L 339 >gi|229915452|gb|ACQ90797.1| alpha subunit of RNA polymerase [Oocystis solitaria] Length = 356 Score = 222 bits (567), Expect = 5e-56, Method: Composition-based stats. Identities = 85/341 (24%), Positives = 161/341 (47%), Gaps = 36/341 (10%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + + + I P G TL N+LRR L+S + G AI A++I+G LHE S++ GV Sbjct: 19 IEENKNFYGRFILGPFEVGQGLTLANSLRRTLLSEISGLAIVAMEIEGALHEYSNLPGVQ 78 Query: 80 EDLTDIILNIKGINL--KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 E + DI+LN+K I L + D + +GPG+VTA D++ + I+ ++P I L Sbjct: 79 ESILDILLNLKQIVLVSRFEMDQPVFGFLKVQGPGIVTASDLKLPSSIQCVDPHQYIATL 138 Query: 138 DVDAVVRMELTVSKGHGYV--------------------------PAKHHRTENDPIGLI 171 + + ++ V + Y+ K + N ++ Sbjct: 139 SYNGFLSIKFFVCQKKNYIFLKNASLKKKKIYKLKKNKIQSPILEKKKSNFLINKTSNVV 198 Query: 172 TIDALYSPIKKVSYTVESAREG-QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 +ID + + KV+Y +E+ +++ + I T+GS+ ++ A++ + + Sbjct: 199 SIDPNFFSVNKVNYLIETCSLFLFEKPKEQIFLEIWTNGSLHPRQAINEAAKRIVNIFSP 258 Query: 231 FIN---FEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 F ++ + + + ++K F + L+LS+RS CL+ NI + +L+Q Sbjct: 259 FQETRFYKPGRLKSSKLFSLKRENFKKFTSLDIANLDLSLRSYTCLKRANIHTIDNLLQY 318 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPES 328 + ++L + NFG +SL E+ +L +GL NL D+ ++ Sbjct: 319 SSEELLLLKNFGTRSLEEVLNILQQIGL----NLRDFDKDT 355 >gi|168805075|gb|ACA28616.1| DNA-directed RNA polymerase subunit alpha [Thiomonas perometabolis] Length = 228 Score = 222 bits (567), Expect = 5e-56, Method: Composition-based stats. Identities = 100/228 (43%), Positives = 149/228 (65%), Gaps = 3/228 (1%) Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 G+ ED+ ++LN+KG+ LK+ +++ K G GVVTA DIQT +D+E++NPDHVI + Sbjct: 1 GLQEDVIGVLLNLKGVVLKLHNRDEVTLSLRKEGEGVVTAADIQTPHDVEIINPDHVIAH 60 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSYTVESAREG 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 = 222 bits (567), Expect = 5e-56, 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 LDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSYTVESAREG 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|295809866|emb|CBL85109.1| alpha subunit of RNA polymerase [Vibrio tapetis] Length = 247 Score = 222 bits (566), Expect = 5e-56, Method: Composition-based stats. Identities = 104/250 (41%), Positives = 161/250 (64%), 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-AVVRMELTVSKGHGYVPAKHH---RTENDPIG 169 V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA + 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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDIRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMANFG 299 ++L+ N G Sbjct: 238 VELLKTPNLG 247 >gi|150036722|emb|CAM98252.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. dextranicum] Length = 189 Score = 222 bits (566), Expect = 5e-56, 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|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 = 222 bits (566), Expect = 6e-56, Method: Composition-based stats. Identities = 103/283 (36%), Positives = 166/283 (58%), Gaps = 7/283 (2%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + P+ +G AH LGN++RR L+SSL GA+I V I GVLHE S+++ V ED+ +I+ N Sbjct: 13 KIQVSPVEKGMAHILGNSIRRFLLSSLSGASIIKVNISGVLHEYSTLEDVKEDVVEIVSN 72 Query: 89 IKGINLKMSGDSHKR-VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 +K + +K+ + K + + GVVTAGD +T IE++N D I L + + Sbjct: 73 LKKVAIKLDKNVSKVELELSVTKSGVVTAGDFKTTQGIEIINKDQPIATLTNEREFSLVA 132 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 TVS G TE + +G I +DA ++PIK+V++ + + L + + T Sbjct: 133 TVSVGRNVGILSALPTELEKVGDIAVDADFNPIKRVAFEIFDNGAS-----ETLEVFVKT 187 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G+I +V A + +Q+ +F++ P D + S +P LLK +++LEL+V Sbjct: 188 NGTIESLAAVTKALKYFCEQISVFVSLRVPSNGKTGDALLDSN-IDPILLKPIDDLELTV 246 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 RS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L Sbjct: 247 RSSNCLRAENIKYLGDLVQYSESQLIKIPNLGKKSLNEIKQIL 289 >gi|154424829|emb|CAL18517.1| RNA polymerase alpha subunit [Streptococcus alactolyticus] Length = 200 Score = 222 bits (565), Expect = 8e-56, 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|168805061|gb|ACA28609.1| DNA-directed RNA polymerase subunit alpha [Thiomonas sp. Ynys1] Length = 228 Score = 222 bits (565), Expect = 8e-56, Method: Composition-based stats. Identities = 99/228 (43%), Positives = 150/228 (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 LDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSYTVESAREG 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|154424857|emb|CAL18531.1| RNA polymerase alpha subunit [Streptococcus sanguinis] Length = 194 Score = 221 bits (564), Expect = 1e-55, 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|154424837|emb|CAL18521.1| RNA polymerase alpha subunit [Streptococcus pluranimalium] Length = 204 Score = 221 bits (564), Expect = 1e-55, Method: Composition-based stats. Identities = 84/203 (41%), Positives = 134/203 (66%) 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 QLGMFINFEEPKKEVKEDINVKS 249 L +F + E K +S Sbjct: 181 HLNLFTDLTEVAKATDVMKETES 203 >gi|150036836|emb|CAM98283.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax] Length = 215 Score = 221 bits (564), Expect = 1e-55, Method: Composition-based stats. Identities = 85/205 (41%), Positives = 131/205 (63%), Gaps = 2/205 (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 QDQLGMFINFEEPKKEVKEDINVKS 249 + L +F + E + ++V+ Sbjct: 181 SEHLNLFTDISSVAAETEVMVDVEQ 205 >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 = 221 bits (564), Expect = 1e-55, Method: Composition-based stats. Identities = 90/333 (27%), Positives = 168/333 (50%), Gaps = 5/333 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++P E + + + N + A P +A T+ + +RR+L+SS G A ++I+GV Sbjct: 6 VRPYIPEKLEIEEIAPNHIRLHAYPFEPHYAVTIAHPVRRLLLSSSVGYAPIGIKIEGVR 65 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVT-AGDIQTVNDIE 126 HE +++GV ED+ I+NIK + K++ D H++ + G + G+ + +I Sbjct: 66 HEFDTVRGVAEDVAPFIVNIKNLKFKVNEDMQQHEKFELHYEFNGPMELRGEHLSNENIT 125 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 VL+ D + N++ DA ++ + + KG G+V ++ R E I +DA ++P+K+ Y Sbjct: 126 VLSTDSHLANINSDAKLKFSILIHKGLGFVASETIREEIGSEY-IPLDADFTPVKRAVYD 184 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 +E+ +++K+ ++T+G I ++ A I+ Q+ +F E Sbjct: 185 IENVLHESNPNFEKIVFEVETNGQIEPMEAFKEAVAIMHSQMSVF-GAELSDVPTSNGRL 243 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 P LL VE L L R +NCL+ NI Y+G+L+ E+D+ + N G++S EI Sbjct: 244 NDDSPELKVLLSSVEILNLEHRPSNCLQKSNIKYIGELVLMNESDLKNIKNLGKRSFDEI 303 Query: 307 KGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G +LP ++ + K + + Sbjct: 304 TAKLNEVGYAVGADLPHELATTLSKRLAKLKGQ 336 >gi|289803215|ref|ZP_06533844.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 222 Score = 221 bits (564), Expect = 1e-55, 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|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 = 221 bits (563), Expect = 1e-55, Method: Composition-based stats. Identities = 107/322 (33%), Positives = 177/322 (54%), Gaps = 12/322 (3%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 E +++ + EPL G+ T+GN+LRRVL+SSL G AI++V+I+GV +E S+I Sbjct: 10 ENLIILKLTPEEGSFKIEPLYPGWGLTIGNSLRRVLLSSLEGYAISSVKIEGVNNEYSTI 69 Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKRV-----TIFKRGPGVVTAGDI-QTVNDIEVLN 129 KGV ED+T+IILN+K I K + I +TAGD+ + +N E++N Sbjct: 70 KGVIEDMTEIILNLKKIRFKKKIEDEDFESEEFHIIINNNKKEITAGDLGEFLNLFEIIN 129 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD +I N + + + L + +G GY+P++ ++ + IG I ID +++PIKKV Y +++ Sbjct: 130 PDLIILNKEKLISLNITLVIKRGIGYLPSEKNKDMPNMIGTIPIDTIFTPIKKVKYKIDN 189 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDI 245 + Y+ + + I TDGSI ++ AS +L N E K + + Sbjct: 190 CSINKNPFYESIILKIKTDGSINPRKALTRASNLLIRHFQCLSNEKILLEYKKPKKRNKY 249 Query: 246 NVKSLPFNPALLKKVEEL--ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + L L +EE LSVR+ NCL+ I GDL++ ++D+L++ NFGRKSL Sbjct: 250 DKNILKMRNLLKSSLEEEIDYLSVRTLNCLKSAKIFTWGDLVKSNKSDLLKLKNFGRKSL 309 Query: 304 VEIKGVLGTMGLFLGMNLPDWP 325 E+ + + ++ GM++ + Sbjct: 310 SELDKRMKKLNIYSGMDISIYK 331 >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 = 91/177 (51%), Positives = 127/177 (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 KHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 + ++ ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL++ + T+GSIT Sbjct: 121 EDNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDKLTLDVWTNGSITP 177 >gi|317447066|emb|CBX24362.1| DNA-directed RNA polymerase subunit alpha [Thiomonas perometabolis] Length = 201 Score = 221 bits (563), Expect = 1e-55, Method: Composition-based stats. Identities = 94/201 (46%), Positives = 134/201 (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 TVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 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|150187043|emb|CAK30158.1| RNA polymerase alpha subunit [Streptococcus anginosus] Length = 203 Score = 221 bits (563), Expect = 1e-55, Method: Composition-based stats. Identities = 86/202 (42%), Positives = 133/202 (65%) 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 LGMFINFEEPKKEVKEDINVKS 249 L +F N E K + Sbjct: 181 LDLFTNLTEVAKSTDVMKETEK 202 >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 = 220 bits (562), Expect = 2e-55, Method: Composition-based stats. Identities = 86/192 (44%), Positives = 126/192 (65%) 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 LGMFINFEEPKK 239 +F + + K Sbjct: 181 FKVFESADADTK 192 >gi|150186939|emb|CAK30132.1| RNA polymerase alpha subunit [Streptococcus equinus] Length = 185 Score = 220 bits (562), Expect = 2e-55, 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|119668367|emb|CAK95476.1| RNA polymerase alpha subunit [Lactobacillus rhamnosus] Length = 198 Score = 220 bits (561), Expect = 2e-55, 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|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 = 220 bits (561), Expect = 2e-55, Method: Composition-based stats. Identities = 87/330 (26%), Positives = 159/330 (48%), Gaps = 19/330 (5%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 ++ K + +E + I +PL RGF TLG ALRRVL+S++ A V+I Sbjct: 1 MEKFQKLDYLEVPSNSNTSDFENKFIIQPLERGFGTTLGVALRRVLLSNITSLAPFCVRI 60 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQ 120 +GV HE I+GV ED+ +I+N++ + D RV + G + + ++ Sbjct: 61 EGVTHEFRGIEGVVEDVPSLIMNLRKVRFSYDPELVKDDDIIRVELKADQVGEINSRYLE 120 Query: 121 TVN--DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR-----------TENDP 167 V+ ++EV++ + I + + +R+EL + G G+V ++ ++ T+ Sbjct: 121 VVDNLNVEVIDHNVHIAEVSQENALRLELYLRPGRGFVSSEENKALVSKLEAQLETKIKK 180 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 I +D+ +SP++KV+Y V + +KL + TDG++ +D++ A+ IL Sbjct: 181 GKFIAVDSNFSPVEKVNYVVSELNSSSIKIEEKLEFNVYTDGTVKPKDAIKQAADILIAH 240 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 N +E + ++ E + + N + +L LSVRS N LR + D+ + Sbjct: 241 FKEIGNVDEIRNDIFETAD-DKITDNQETDIDITQLGLSVRSLNALRRIGRTKVSDISKM 299 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + ++ + N G+KSL EI + G L Sbjct: 300 SYEELEQTKNLGKKSLDEIVQKIKEHGFEL 329 >gi|161511753|emb|CAP16887.1| DNA-directed RNA polymerase subunit alpha [Pediococcus damnosus] Length = 211 Score = 220 bits (561), Expect = 3e-55, Method: Composition-based stats. Identities = 92/211 (43%), Positives = 139/211 (65%), Gaps = 3/211 (1%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 LGN+ V + + GAA+T++QIDGVLHE SSI+GV ED+T IILNIK ++LK+ D K Sbjct: 2 LGNSCV-VFVVIITGAAVTSIQIDGVLHEFSSIEGVVEDVTQIILNIKKVSLKIESDDEK 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 + I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A ++ Sbjct: 61 SLEIDVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAILTADTGRGYVSADENK 120 Query: 163 --TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSIT ++ +L+ Sbjct: 121 ARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSITPSEATSLS 180 Query: 221 SRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++IL + L +F+N + K+ + + + Sbjct: 181 AKILTEHLALFVNLTDEAKDAEIMVEKEETH 211 >gi|72534426|emb|CAH59048.1| DNA-directed RNA polymerase alpha chain [Enterococcus sp. LMG 22681] Length = 213 Score = 220 bits (560), Expect = 3e-55, Method: Composition-based stats. Identities = 89/205 (43%), Positives = 130/205 (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 EEPKKEVKEDINVKSLPFNPALLKK 259 + K + + + L Sbjct: 189 TDEAKNAEIMVEKEETQKEKMLEMT 213 >gi|150186968|emb|CAK30138.1| RNA polymerase alpha subunit [Streptococcus mutans] Length = 192 Score = 220 bits (560), Expect = 3e-55, 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|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 = 219 bits (559), Expect = 4e-55, Method: Composition-based stats. Identities = 96/332 (28%), Positives = 169/332 (50%), Gaps = 8/332 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E++ P+++ + +EE N+ + P GF ++ + +RR L++S G A A++I+ Sbjct: 6 TEVLIPSDVSF----KEEGNKATIEVYPFEAGFGVSVAHPIRRTLIASTPGFAPIALKIE 61 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV HE S+KG+ ED+ I+N+K I K+ V GP + D+ ++ Sbjct: 62 GVKHEFDSLKGMLEDVASFIINLKNIRFKIKEGDEAVVDYVFVGPKEIKGSDLAND-LVD 120 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 ++ P+ I L+ +A +++ L + KG G+V A + + P G I +DA +SPIKKV Y Sbjct: 121 IVTPNEYIATLNEEAELKLTLIIRKGMGFV-AVENFRDEIPEGFIGLDAYFSPIKKVVYN 179 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 +E+ +++K+ ++TDG I+ D+ A +Q +F +E K E K + Sbjct: 180 IENILVEDDPNFEKVIFEVETDGQISPIDAFKNAVNNYLNQFSVFS--KEFKLEQKTSQS 237 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 V+ L + +E L L RS N L I ++G+L+ + + + N G KSL EI Sbjct: 238 VELDEVYNVLFEPIENLNLRSRSFNALDRAGIRFVGELVLMGKEKISNIKNLGTKSLEEI 297 Query: 307 KGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 L +G L LP ++IE+ + ++ Sbjct: 298 FDKLEEIGFPLNKTLPLDIKKAIEDKLSQLKE 329 >gi|150036708|emb|CAM98019.1| DNA-directed RNA polymerase alpha chain [Leuconostoc carnosum] Length = 199 Score = 219 bits (559), Expect = 4e-55, 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|161511717|emb|CAP16869.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus dextrinicus] Length = 205 Score = 219 bits (558), Expect = 5e-55, Method: Composition-based stats. Identities = 87/192 (45%), Positives = 133/192 (69%) 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 FEEPKKEVKEDI 245 + K + + Sbjct: 181 LSDEAKNTEIMV 192 >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 = 219 bits (557), Expect = 6e-55, Method: Composition-based stats. Identities = 89/333 (26%), Positives = 158/333 (47%), 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 ISSIKGVHEDLTDIILNIKGINLK-----MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 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 VVNHDAYLATINEDAHLEFSLIVQKGMGYVPSESIRGYISSDY-IPLDAYFTPIKKVVYN 185 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 +E+ +++KL I++DG + + + A R + Q+ +F + K + + Sbjct: 186 IENMLVDGNPNFEKLIFEIESDGQVDPQRAFQEAIRTMNAQMHIF---NTNIADYKGNAH 242 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 ++ L ++E L LS R NCL + Y+G+L+ ++ + N G+KS EI Sbjct: 243 LEEGLERDL-LMEIEGLNLSARCFNCLDKIGLKYVGELVLMDAYELKNIKNLGKKSYDEI 301 Query: 307 KGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G + S+E K +++ Sbjct: 302 AEKLEGLGYPVGSEISAEFRASLETKLDKIKNQ 334 >gi|150036732|emb|CAM98257.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. mesenteroides] Length = 186 Score = 219 bits (557), Expect = 7e-55, 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|150187039|emb|CAK30157.1| RNA polymerase alpha subunit [Streptococcus agalactiae ATCC 13813] Length = 188 Score = 219 bits (557), Expect = 7e-55, 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|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 = 219 bits (557), Expect = 7e-55, Method: Composition-based stats. Identities = 89/334 (26%), Positives = 158/334 (47%), Gaps = 25/334 (7%) Query: 9 LIKPNNIEYIVL---GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 + K +EY + N T +PL RG TLG ALRR+L+S++ A+ A++I Sbjct: 1 MEKMTKLEYQKVTKLNNSTSNVTAFTLQPLERGMGQTLGVALRRILLSNITSLALFAIKI 60 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQ 120 + V HE + G ED+ II+N++ + + + D +VT+ PG VT+ ++ Sbjct: 61 EDVNHEFQVVDGCVEDVATIIMNLRKVKFQYNPEFVKDDEIIKVTLKADQPGEVTSRLLE 120 Query: 121 T-VNDIEVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHR-------------TE 164 + IE+LN I +L + + +EL + G G++ + ++ ++ Sbjct: 121 VNNSSIEILNKSLEIAHLSANGKHKLNIELYLRPGRGFISNEENKKLLNNSSITTRMESK 180 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 I D+ +SPI+KV+YTVE ++L+ + TDG++ + ++ A IL Sbjct: 181 IKNGIFIATDSNFSPIEKVNYTVEELNSSSNKIEERLTFSFQTDGTVDPKSALQQACEIL 240 Query: 225 QDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDL 284 + N +E K V + + ++ N + L LSVRS N L+ + + Sbjct: 241 VGHFKLIGNVDEMKVNVFAEESEQTQETNDND-VDINSLNLSVRSLNALKRIGKTKISQV 299 Query: 285 IQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 + + ++ ++ N GRKSL EI+ L G L Sbjct: 300 AEMSLEELEQVKNLGRKSLDEIQQRLKEYGYELS 333 >gi|238810271|dbj|BAH70061.1| hypothetical protein [Mycoplasma fermentans PG18] Length = 339 Score = 218 bits (556), Expect = 9e-55, Method: Composition-based stats. Identities = 89/334 (26%), Positives = 158/334 (47%), Gaps = 25/334 (7%) Query: 9 LIKPNNIEYIVL---GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 + K +EY + N T +PL RG TLG ALRR+L+S++ A+ A++I Sbjct: 3 MEKMTKLEYQKVTKLNNSTSNVTAFTLQPLERGMGQTLGVALRRILLSNITSLALFAIKI 62 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQ 120 + V HE + G ED+ II+N++ + + + D +VT+ PG VT+ ++ Sbjct: 63 EDVNHEFQVVDGCVEDVATIIMNLRKVKFQYNPEFVKDDEIIKVTLKADQPGEVTSRLLE 122 Query: 121 T-VNDIEVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHR-------------TE 164 + IE+LN I +L + + +EL + G G++ + ++ ++ Sbjct: 123 VNNSSIEILNKSLEIAHLSANGKHKLNIELYLRPGRGFISNEENKKLLNNSSITTRMESK 182 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 I D+ +SPI+KV+YTVE ++L+ + TDG++ + ++ A IL Sbjct: 183 IKNGIFIATDSNFSPIEKVNYTVEELNSSSNKIEERLTFSFQTDGTVDPKSALQQACEIL 242 Query: 225 QDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDL 284 + N +E K V + + ++ N + L LSVRS N L+ + + Sbjct: 243 VGHFKLIGNVDEMKVNVFAEESEQTQETNDND-VDINSLNLSVRSLNALKRIGKTKISQV 301 Query: 285 IQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 + + ++ ++ N GRKSL EI+ L G L Sbjct: 302 AEMSLEELEQVKNLGRKSLDEIQQRLKEYGYELS 335 >gi|150187022|emb|CAK30153.1| RNA polymerase alpha subunit [Streptococcus thoraltensis] Length = 184 Score = 218 bits (556), Expect = 9e-55, 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|119662315|emb|CAJ33145.1| RNA polymerase alpha subunit [Lactobacillus iners DSM 13335] Length = 209 Score = 218 bits (556), Expect = 1e-54, Method: Composition-based stats. Identities = 92/208 (44%), Positives = 141/208 (67%) 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 ILQDQLGMFINFEEPKKEVKEDINVKSL 250 IL++ +F++ + + I + Sbjct: 181 ILEEHFKVFMSADMSDQFANVMIEKEDK 208 >gi|154424861|emb|CAL18533.1| RNA polymerase alpha subunit [Streptococcus suis] Length = 203 Score = 218 bits (555), Expect = 1e-54, 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|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 = 218 bits (555), Expect = 1e-54, Method: Composition-based stats. Identities = 83/311 (26%), Positives = 154/311 (49%), 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 EDLTDIILNIKGINLKMSGDSHKRVTIFK-----RGPGVVTAGDIQTVNDIEVLNPDHVI 134 ED+ I+ N+K + + + +I + G + A DI++ + ++++NPD I Sbjct: 74 EDVVTILNNLKRVRFFYNPSVFSQNSIHVASFLGQKAGQIYARDIESHSGLKIVNPDLYI 133 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRT---------ENDPIG-LITIDALYSPIKKVS 184 ++ ++ EL ++ G G+V + ++ E+ G ++ +D+ +SP+ + Sbjct: 134 ADVSKVGALKFELFITNGKGFVDFETNKKYVNEVISRLESQIEGSVLAVDSDFSPVLNAN 193 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y + +KL+ +I TDGSI +D+++ ++IL L + + E K + Sbjct: 194 YQAVEINSASPIIEEKLNFSIKTDGSIFAKDALSQGAKILIAHLNLLADVENLNKFSADF 253 Query: 245 INVKSLPFNPA--LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + + P ++ 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 (554), Expect = 1e-54, Method: Composition-based stats. Identities = 83/311 (26%), Positives = 154/311 (49%), 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 EDLTDIILNIKGINLKMSGDSHKRVTIFK-----RGPGVVTAGDIQTVNDIEVLNPDHVI 134 ED+ I+ N+K + + + +I + G + A DI++ + ++++NPD I Sbjct: 74 EDVVTILNNLKRVRFFYNPSVFSQNSIHVASFLGQKAGQIYARDIESHSGLKIVNPDLYI 133 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRT---------ENDPIG-LITIDALYSPIKKVS 184 ++ ++ EL ++ G G+V + ++ E+ G ++ +D+ +SP+ + Sbjct: 134 ADVSKVGALKFELFITNGKGFVDFETNKKYVNEVISLLESQIEGSVLAVDSDFSPVLNAN 193 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y + +KL+ +I TDGSI +D+++ ++IL L + + E K + Sbjct: 194 YQAVEINSASPIIEEKLNFSIKTDGSIFAKDALSQGAKILIAHLNLLADVENLNKFSADF 253 Query: 245 INVKSLPFNPA--LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + + P ++ L+LSVRS N LR + D+ + ++ D + N GRKS Sbjct: 254 FGDQEIKEEPIRRFSNSIDALDLSVRSLNALRRAQYYKISDIEKLSQDDFENIKNLGRKS 313 Query: 303 LVEIKGVLGTM 313 + EI L Sbjct: 314 VQEIMEKLQNY 324 >gi|119662833|emb|CAJ33209.1| RNA polymerase alpha subunit [Lactobacillus ingluviei] Length = 180 Score = 217 bits (554), Expect = 1e-54, 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 GYVPAKHHRTE-NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GY A ++ + IG++ ID++Y+PI++V+YTVE+ R GQ DYDKL++ + TDGS+T Sbjct: 121 GYNSADVNKARMDLAIGVLPIDSIYTPIERVNYTVENTRVGQSNDYDKLTLDVWTDGSLT 180 >gi|150036842|emb|CAM98286.1| DNA-directed RNA polymerase alpha chain [Leuconostoc carnosum] Length = 179 Score = 217 bits (553), Expect = 2e-54, 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|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 = 217 bits (553), Expect = 2e-54, Method: Composition-based stats. Identities = 93/218 (42%), Positives = 142/218 (65%), Gaps = 8/218 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|154424833|emb|CAL18519.1| RNA polymerase alpha subunit [Streptococcus parauberis] Length = 194 Score = 217 bits (553), Expect = 2e-54, 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|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 = 217 bits (553), Expect = 2e-54, Method: Composition-based stats. Identities = 101/321 (31%), Positives = 163/321 (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 LTDIILNIKGINLKM--SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 + I+N+K I K+ S 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 KVIFEVETDGQIDPIDAFKNAVNNYLNQFGVFS--KEFKLETKKVENVELPDEYNILFKP 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|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 = 217 bits (552), Expect = 2e-54, Method: Composition-based stats. Identities = 89/322 (27%), Positives = 154/322 (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 VNDIEVLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +EV+NP+ +C + + ++L G+ + +R + LI ID +SP+ Sbjct: 128 FAGVEVVNPELKLCEITEEGTSLEIDLYCMVDRGHRSSNENRERLSTLSLIPIDTTFSPV 187 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 V + V + + D+L + + T+GSI D+V A++IL + + Sbjct: 188 LLVDWKVSEEKTTKYGISDRLRLNVSTNGSIKALDAVWYAAKILISMFTKIAEHDVELFK 247 Query: 241 V-----KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 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|150187166|emb|CAK30185.1| RNA polymerase alpha subunit [Streptococcus marimammalium] Length = 210 Score = 216 bits (551), Expect = 3e-54, 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|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 = 216 bits (551), Expect = 3e-54, Method: Composition-based stats. Identities = 89/322 (27%), Positives = 154/322 (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 VNDIEVLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +EV+NP+ +C + + ++L G+ + +R + LI ID +SP+ Sbjct: 131 FAGVEVVNPELKLCEITEEGTSLEIDLYCMVDRGHRSSNENRERLSTLSLIPIDTTFSPV 190 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 V + V + + D+L + + T+GSI D+V A++IL + + Sbjct: 191 LLVDWKVSEEKTTKYGISDRLRLNVSTNGSIKALDAVWYAAKILISMFTKIAEHDVELFK 250 Query: 241 V-----KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 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|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 = 216 bits (551), Expect = 3e-54, Method: Composition-based stats. Identities = 85/314 (27%), Positives = 152/314 (48%), Gaps = 20/314 (6%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + T +PL RGFA+TLGN+LRR ++SS+ A+ V+I+GV HE S I V ED+ Sbjct: 18 SDFETTFELQPLERGFANTLGNSLRRTILSSVPSVAVFGVKIEGVEHEFSVIDKVREDVV 77 Query: 84 DIILNIKGINLKMSGD-----SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 I+ N+K + + + + R G +T DI + +E++N D V+ N Sbjct: 78 TILNNLKKLRFSFKKEVFLQNEIQVASFDGRKVGKITGADILVNSALEIVNKDQVVANTS 137 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGL-----------ITIDALYSPIKKVSYTV 187 ++ E+ ++ G G+V + ++ + +G I +D+ +S ++ V ++ Sbjct: 138 EVGALKFEMFLTYGRGFVDFETNKRKIQELGPALESKLGYGQIIAVDSDFSAVENVKFSS 197 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF---INFEEPKKEVKED 244 + +KL+ ++ TDG+I +D++A A++IL L + N + E+ Sbjct: 198 TELNSSNPIVEEKLTFSVKTDGTILAKDALAEAAKILIAHLKLVSDTANLDAEVDSFFEE 257 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + K + L+L+VRS N LR + DL++ T ++ + N G+KS+ Sbjct: 258 VKQKEEAP-KKNSADLTTLDLTVRSLNALRRAQYYKISDLLELTLEELENIKNLGKKSVE 316 Query: 305 EIKGVLGTMGLFLG 318 EI L L L Sbjct: 317 EIVEKLKEHNLELK 330 >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 = 216 bits (551), Expect = 3e-54, Method: Composition-based stats. Identities = 79/308 (25%), Positives = 147/308 (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 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG-----------LITIDALYSPIKKVS 184 +L + +L + G GY+ + ++T G + 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|119662283|emb|CAJ33128.1| RNA polymerase alpha subunit [Lactobacillus antri] Length = 203 Score = 216 bits (550), Expect = 4e-54, Method: Composition-based stats. Identities = 89/202 (44%), Positives = 139/202 (68%), Gaps = 2/202 (0%) Query: 52 MSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGP 111 ++SL GAAIT +QIDGVLHE S++KGV ED+T IILN+K ++LK++ + K + + +GP Sbjct: 1 IASLPGAAITTMQIDGVLHEFSTVKGVTEDVTQIILNLKKVSLKINSEDQKDLELDVKGP 60 Query: 112 GVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIG 169 VTAGDIQ +++ VLNPD I + A + +++T KG GY+ A ++ E+ IG Sbjct: 61 AEVTAGDIQGDSEVSVLNPDLHIATVADGAELHIKMTADKGRGYLSANDNKARMEDLAIG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 ++ ID++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGSIT ++V+L ++IL + L Sbjct: 121 VLPIDSIYTPIERVNYTVENARVGQRSDYDKLTLDVWTDGSITPTEAVSLGAKILTEHLA 180 Query: 230 MFINFEEPKKEVKEDINVKSLP 251 MF+N E + + + + Sbjct: 181 MFVNLTETAQNAQVMVEKEETH 202 >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 = 216 bits (550), Expect = 4e-54, Method: Composition-based stats. Identities = 94/334 (28%), Positives = 155/334 (46%), Gaps = 26/334 (7%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 I+ NW E K I + T I +PL +G A TLG A+RRVL+SS+ A Sbjct: 4 FIKINWTE-NKTKRI--------NDFSTSFIVQPLEKGLATTLGTAIRRVLLSSISSVAP 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|150187139|emb|CAK30179.1| RNA polymerase alpha subunit [Streptococcus peroris ATCC 700780] Length = 181 Score = 215 bits (549), Expect = 5e-54, 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|269784298|emb|CBH50794.1| alpha subunit of RNA polymerase [Vibrio sp. C 15.19] Length = 244 Score = 215 bits (549), Expect = 6e-54, Method: Composition-based stats. Identities = 103/247 (41%), Positives = 160/247 (64%), 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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMA 296 ++L+ Sbjct: 238 VELLKTP 244 >gi|119662381|emb|CAJ33179.1| RNA polymerase alpha subunit [Lactobacillus sakei subsp. sakei] Length = 184 Score = 215 bits (549), Expect = 6e-54, 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|154424761|emb|CAL18483.1| RNA polymerase alpha subunit [Streptococcus equinus] Length = 183 Score = 215 bits (549), Expect = 6e-54, 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|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 = 215 bits (549), Expect = 6e-54, Method: Composition-based stats. Identities = 63/236 (26%), Positives = 120/236 (50%), Gaps = 8/236 (3%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 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+ H +++ G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDLCIGLQIERNRGYLMKMPHNSQD---GSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 S G ++ L + I T+GS+T ++++ A R L D F++ EE ++++ Sbjct: 188 SYGSG-NEKHEILFLEIWTNGSLTPKEALHEACRNLIDLFIPFLHKEEETSPLEDN 242 >gi|295809864|emb|CBL85108.1| alpha subunit of RNA polymerase [Vibrio tapetis] Length = 244 Score = 215 bits (548), Expect = 7e-54, Method: Composition-based stats. Identities = 102/247 (41%), Positives = 159/247 (64%), 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-AVVRMELTVSKGHGYVPAKHH---RTENDPIG 169 V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA + 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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDIRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMA 296 ++L+ Sbjct: 238 VELLKTP 244 >gi|161511725|emb|CAP16873.1| DNA-directed RNA polymerase subunit alpha [Pediococcus acidilactici] Length = 199 Score = 215 bits (548), Expect = 7e-54, Method: Composition-based stats. Identities = 89/191 (46%), Positives = 125/191 (65%), 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 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDP 167 GP VTAGDI D+ VLNPD IC + LT G GY A ++ + 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|119668337|emb|CAK95467.1| RNA polymerase alpha subunit [Lactobacillus johnsonii] Length = 187 Score = 214 bits (546), Expect = 1e-53, 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|255645616|gb|ACU23302.1| unknown [Glycine max] Length = 269 Score = 214 bits (546), Expect = 1e-53, Method: Composition-based stats. Identities = 67/242 (27%), Positives = 126/242 (52%), Gaps = 5/242 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E + + I PL +G A T+G A+RRVL+ + G IT V+++ + Sbjct: 13 LQWKCVES-RIDSKRLYYGRFILSPLMKGQADTIGIAMRRVLLGEIEGTCITRVKLEKIP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + + +I +GPG VTA DI +E+++ Sbjct: 72 HEYSTIIGIEESVHEILMNLKEIVLRSNLYGTRDASICFKGPGYVTAQDIILPPSVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I N+ + +EL + + GY ++ G IDA + P++ V++++ S Sbjct: 132 NTQHIANVTEPVNLCIELKIERNRGYRIKTLKNFQD---GSYPIDATFMPVRNVNHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + L + I T+GS+T ++++ ASR L D F++ EE ++ + + + Sbjct: 189 Y-VNGNEKQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEDNFNLENNQHKVT 247 Query: 250 LP 251 LP Sbjct: 248 LP 249 >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 = 214 bits (546), Expect = 1e-53, Method: Composition-based stats. Identities = 108/337 (32%), Positives = 175/337 (51%), 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 N-----FEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 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|150036716|emb|CAM98021.1| DNA-directed RNA polymerase alpha chain [Fructobacillus durionis] Length = 197 Score = 214 bits (546), Expect = 1e-53, 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|154424855|emb|CAL18530.1| RNA polymerase alpha subunit [Streptococcus sanguinis] Length = 198 Score = 214 bits (545), Expect = 2e-53, 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|150186960|emb|CAK30137.1| RNA polymerase alpha subunit [Streptococcus infantis ATCC 700779] Length = 173 Score = 214 bits (545), Expect = 2e-53, 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|119668327|emb|CAK95463.1| RNA polymerase alpha subunit [Lactobacillus hilgardii] Length = 198 Score = 214 bits (545), Expect = 2e-53, Method: Composition-based stats. Identities = 93/198 (46%), Positives = 134/198 (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 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--ND 166 GP VTAGDIQ +D+ VLNPD I + A M LT ++G GYV A ++ 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|119662821|emb|CAJ33203.1| RNA polymerase alpha subunit [Lactobacillus parakefiri] Length = 203 Score = 214 bits (544), Expect = 2e-53, Method: Composition-based stats. Identities = 94/202 (46%), Positives = 135/202 (66%), Gaps = 4/202 (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 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDP 167 GP VTAGDIQ +D+ VLNPD I + A M LT +KG GYV A ++ 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 LGMFINFEEPKKEVKEDINVKS 249 L MF++ + K + + + Sbjct: 181 LEMFVDLTDEAKNTEIMVEKEE 202 >gi|119668333|emb|CAK95466.1| RNA polymerase alpha subunit [Lactobacillus intestinalis] Length = 191 Score = 214 bits (544), Expect = 2e-53, Method: Composition-based stats. Identities = 84/190 (44%), Positives = 126/190 (66%) 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 MFINFEEPKK 239 +F + + K Sbjct: 181 VFESADANTK 190 >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 = 214 bits (544), Expect = 2e-53, 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|119662285|emb|CAJ33129.1| RNA polymerase alpha subunit [Lactobacillus brevis] Length = 190 Score = 213 bits (543), Expect = 2e-53, Method: Composition-based stats. Identities = 87/190 (45%), Positives = 133/190 (70%), 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 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDP 167 GP +TAGDI D+++LNPD I + A M +T KG GYV A ++T + 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|154424863|emb|CAL18534.1| RNA polymerase alpha subunit [Streptococcus thoraltensis] Length = 200 Score = 213 bits (543), Expect = 3e-53, Method: Composition-based stats. Identities = 80/199 (40%), Positives = 130/199 (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 MFINFEEPKKEVKEDINVK 248 +F + E K + Sbjct: 181 LFTDLTEVAKATDVMKETE 199 >gi|150187144|emb|CAK30180.1| RNA polymerase alpha subunit [Streptococcus phocae] Length = 204 Score = 213 bits (543), Expect = 3e-53, 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|290489664|gb|ADD31216.1| RNA polymerase alpha subunit protein [Lonicera japonica] Length = 264 Score = 213 bits (542), Expect = 3e-53, Method: Composition-based stats. Identities = 64/251 (25%), Positives = 126/251 (50%), Gaps = 10/251 (3%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLR 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 FMPVRNANHSIHSYGNE-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHTEE 234 Query: 237 PKKEVKEDINV 247 ++++ + Sbjct: 235 ENLHLEDNQHT 245 >gi|154424865|emb|CAL18535.1| RNA polymerase alpha subunit [Streptococcus thoraltensis] Length = 203 Score = 213 bits (542), Expect = 3e-53, Method: Composition-based stats. Identities = 80/199 (40%), Positives = 130/199 (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 MFINFEEPKKEVKEDINVK 248 +F + E K + Sbjct: 181 LFTDLTEVAKATDVMKETE 199 >gi|150187007|emb|CAK30149.1| RNA polymerase alpha subunit [Streptococcus pluranimalium] Length = 200 Score = 213 bits (542), Expect = 4e-53, Method: Composition-based stats. Identities = 80/199 (40%), Positives = 130/199 (65%) 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 FINFEEPKKEVKEDINVKS 249 F + E K +S Sbjct: 181 FTDLTEVAKATDVMKETES 199 >gi|154424827|emb|CAL18516.1| RNA polymerase alpha subunit [Streptococcus parasanguinis] Length = 194 Score = 212 bits (541), Expect = 5e-53, 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|161511731|emb|CAP16876.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 199 Score = 212 bits (541), Expect = 5e-53, Method: Composition-based stats. Identities = 87/198 (43%), Positives = 127/198 (64%), Gaps = 2/198 (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 INFEEPKKEVKEDINVKS 249 +N + KE + + + Sbjct: 181 VNLNDQAKETEIMVEKEE 198 >gi|150187098|emb|CAK30170.1| RNA polymerase alpha subunit [Streptococcus criceti] Length = 181 Score = 212 bits (541), Expect = 5e-53, 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|154424755|emb|CAL18480.1| RNA polymerase alpha subunit [Streptococcus alactolyticus] Length = 196 Score = 212 bits (541), Expect = 5e-53, 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|168805063|gb|ACA28610.1| DNA-directed RNA polymerase subunit alpha [Thiomonas sp. WJ68] Length = 228 Score = 212 bits (539), Expect = 8e-53, Method: Composition-based stats. Identities = 96/228 (42%), Positives = 147/228 (64%), Gaps = 3/228 (1%) Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 G + + ++LN+KG+ LK+ +++ K G GVVTA DIQT +D+E++NP+HVI + Sbjct: 1 GKRQRVIGVLLNLKGVVLKLHNRDEVTLSLRKEGEGVVTAADIQTPHDVEIINPEHVIAH 60 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTEND---PIGLITIDALYSPIKKVSYTVESAREG 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 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N GR Sbjct: 181 PILLRPVDELELTVRSANCLKAENIYYIGDLIQRSETELLKTPNLGRM 228 >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 = 212 bits (539), Expect = 9e-53, Method: Composition-based stats. Identities = 69/275 (25%), Positives = 132/275 (48%), Gaps = 21/275 (7%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++ +E V + + PL +G A T+G A+RR L+ + G IT + + V Sbjct: 13 LQWKCVESRVDSKRLH-YGRFVLSPLMKGQADTIGIAMRRALLEEMEGTCITRAKSEKVP 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + + +I +GP +TA DI +E+++ Sbjct: 72 HEYSTIVGIEESVHEILMNLKEIVLRSNLYGTREASICVKGPKTITAEDIILPASVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + + L + + GY + +++ G IDA++ P++ ++++ S Sbjct: 132 TTQHIATLTEPLDLYIGLQIQRDRGYRMRPTNNSQD---GSYPIDAVFMPVRNANHSIYS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G + L + I T+GS+T ++++ ASR L D F++ EE ++E+ + + Sbjct: 189 YGNG-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEKDINLEENKSRFT 247 Query: 250 LPFNPALLK----------------KVEELELSVR 268 LP K +++LEL R Sbjct: 248 LPLFTFHDKLVNLTKNKKEIGLKCIFIDQLELPSR 282 >gi|289524824|emb|CBJ94468.1| alpha subunit of RNA polymerase [Vibrio sp. Cmf 6.5] Length = 241 Score = 212 bits (539), Expect = 9e-53, Method: Composition-based stats. Identities = 103/244 (42%), Positives = 158/244 (64%), Gaps = 8/244 (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 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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDVRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADML 293 ++L Sbjct: 238 VELL 241 >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 = 211 bits (538), Expect = 1e-52, Method: Composition-based stats. Identities = 74/319 (23%), Positives = 141/319 (44%), Gaps = 13/319 (4%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV- 68 ++ ++ + PL +G A+T+ A+RR L+ + G +IT +I+ Sbjct: 13 LQWKCLDSKTESKRYH-YGRFSLSPLLKGQANTIAIAIRRTLLGEVEGTSITYAKIEKTT 71 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +H+ S++ G+ E + DI+LN+K I LK + +I GP VTA DI + I+++ Sbjct: 72 VHDYSTMSGIKESVHDILLNLKEIVLKSELYGIHKASICTVGPRNVTAQDIILPSSIKII 131 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + LT+ + GY + GL IDA P++ V++++ Sbjct: 132 DGTQHIASLTKSVPFNVMLTIERNQGYAIPSQSSRRH-KNGLFPIDAPCMPVRNVNFSIH 190 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN-- 246 S + + L I T+G +T ++ A L D + ++ EE K+ Sbjct: 191 SYKSE-NDIREMLIFEIWTNGGLTPREAFYEACWKLIDLIVPLLHMEEDMNGAKDFFALP 249 Query: 247 ----VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L + +LELS ++++C + I + D + + + + +KS Sbjct: 250 ILTRMDKLGKALFQHLFMNQLELSSKNSSCFQQTFIYRLSDFLNYSRQNSKTFEDLDKKS 309 Query: 303 LVEIKGVLGTMGLFLGMNL 321 IK ++ G+NL Sbjct: 310 ---IKKIMEFFQKRFGINL 325 >gi|119662333|emb|CAJ33155.1| RNA polymerase alpha subunit [Lactobacillus oris] Length = 200 Score = 211 bits (537), Expect = 1e-52, Method: Composition-based stats. Identities = 86/199 (43%), Positives = 136/199 (68%), 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 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLIT 172 TAGDIQ +++ VLNPD I + A + +++T KG GY+ A ++ 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|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 = 211 bits (537), Expect = 1e-52, Method: Composition-based stats. Identities = 62/256 (24%), Positives = 124/256 (48%), Gaps = 8/256 (3%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLR 56 M+++ + ++ + ++ I PL +G A T+G A+RR L+ L Sbjct: 1 MVREKVKVSTSTRTRQWKCVESRTDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGELE 60 Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 G IT + + + HE S+I G+ E + +I++N+K I L+ + + I +GPG VTA Sbjct: 61 GTCITRAKSEKIPHEYSTIVGIQESVHEILMNLKEIVLRGNLYGTRNAFICAKGPGYVTA 120 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 DI +E+++ + +L + + L + + GY +N G IDA+ Sbjct: 121 QDIILPPSVEIVDNTQHVASLTEPIDLCIGLQIERNRGYGIKT---PKNFHDGSYPIDAV 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 + P++ ++++ + L + I T+GS+T ++++ ASR L D F++ +E Sbjct: 178 FMPVRNANHSIHCYGND-NEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIHFLHAKE 236 Query: 237 PKKEVKEDINVKSLPF 252 ++ + + +L F Sbjct: 237 ENLHLENNQHDVTLHF 252 >gi|119672793|emb|CAK95480.1| RNA polymerase alpha subunit [Lactobacillus salivarius] Length = 199 Score = 211 bits (537), Expect = 2e-52, 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|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 = 210 bits (535), Expect = 2e-52, Method: Composition-based stats. Identities = 91/315 (28%), Positives = 157/315 (49%), Gaps = 3/315 (0%) 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 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVT-AGDIQTVNDIEVL 128 HE SI+G+ ED++ I N+K I + ++ V + G + + + ++V+ Sbjct: 66 HEFDSIRGIVEDVSHFISNLKNIRFLIKDETLDSVQVHYEFKGPMVLSANELANESVDVV 125 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ + ++ +A + L V KG GYVP++ R + I +DA ++P+KK Y +E Sbjct: 126 NPEAYLATINENASISFSLIVQKGIGYVPSESIRGKIAEDY-IPLDAYFTPVKKAIYEIE 184 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + +Y+K+ I+TDG I + A ++ Q+ +F + I Sbjct: 185 NVLVEDNPNYEKIIFDIETDGQIEPLTAFKEAISVMHKQMSIFGVDLSATPNGSKSIAED 244 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 S L+ K++ L LS R NCL + Y+G+L+ +E ++ + N G+KS EI Sbjct: 245 SGEL-KTLMIKIDTLNLSARCFNCLDRSGLKYVGELVIMSENELKNIKNMGKKSYDEITE 303 Query: 309 VLGTMGLFLGMNLPD 323 L +G +G + + Sbjct: 304 KLEELGYPVGGEIAE 318 >gi|150036800|emb|CAM98036.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax] Length = 196 Score = 210 bits (535), Expect = 3e-52, 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|150036776|emb|CAM98267.1| DNA-directed RNA polymerase alpha chain [Weissella viridescens] Length = 175 Score = 210 bits (534), Expect = 3e-52, 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|119662831|emb|CAJ33208.1| RNA polymerase alpha subunit [Lactobacillus mucosae] Length = 180 Score = 210 bits (534), Expect = 3e-52, Method: Composition-based stats. Identities = 86/180 (47%), Positives = 126/180 (70%), Gaps = 2/180 (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 HHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 ++ IG + ID++Y+PI++V+YTVE+ R GQ D+DKL++ + TDGS+T ++ Sbjct: 121 QNKLRLSGLEIGTLPIDSIYTPIERVNYTVENTRVGQSNDFDKLTLDVWTDGSLTPTAAI 180 >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 = 209 bits (533), Expect = 4e-52, Method: Composition-based stats. Identities = 82/316 (25%), Positives = 147/316 (46%), Gaps = 17/316 (5%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + Q + T +PL RG +T+GNALRR ++SS+ A++ A++I + HE S + V Sbjct: 14 IQQVSDFETTFELKPLERGLGNTIGNALRRTILSSVSSASVFAIKIANIDHEFSVLDNVV 73 Query: 80 EDLTDIILNIKGINLKMSG-----DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 ED+ I+ N+K I + D ++V+ G + A DI +E++N D I Sbjct: 74 EDVVSILNNLKKIRFRYHEELFDNDQIQKVSFSGDKAGNIYAKDIDNTGGLEIVNQDQYI 133 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTE----------NDPIGLITIDALYSPIKKVS 184 ++ ++ E+ + G G+ + ++ + +I +D+ +SP+ KV Sbjct: 134 ASVGKVGALKFEMFIIGGKGFTDFETNKKRVSDLAGKLQSDLLGTIIAVDSDFSPVVKVH 193 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y + ++L + + TDG+I +D++A A++IL L + N E + Sbjct: 194 YEANELNSSNPIVEERLVLNLKTDGTIFAKDALAEAAKILIAHLQLVSNTENLDQIADNF 253 Query: 245 INVKSLPFN--PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 L + L+LSVRS N LR + D+ T+ ++ + N G+KS Sbjct: 254 FEESRYHEEQPKKNLIDLSALDLSVRSLNALRRAQYYKVSDIQDLTQEELENIKNLGKKS 313 Query: 303 LVEIKGVLGTMGLFLG 318 + EI L G+ L Sbjct: 314 VQEILDKLKEQGIELK 329 >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 = 209 bits (533), Expect = 4e-52, Method: Composition-based stats. Identities = 78/335 (23%), Positives = 148/335 (44%), Gaps = 47/335 (14%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 PL G A T+G A+RR L+ + IT+ + G HE S++KG+ E + DI+ Sbjct: 26 YGRFAVYPLFPGQAITIGTAIRRALLGEVHSTCITSAYVVGASHEYSTLKGIRESIHDIL 85 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+K I K + + GPG+VTA I+ ++V++ I L++ + + Sbjct: 86 LNLKDIVFKSDTLERQEGILLFNGPGIVTAQHIKLPPVVQVVDNTQYIARLEMPTSIEIH 145 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +T+ T G +DA P++ ++Y++ S EG + + L + + Sbjct: 146 ITLENTKTCTSLNTMPT---TKGRFILDAALKPVRNMNYSIHSLGEGDMR-QEMLVLEVW 201 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFE----------------EPKKEVKEDINVKSL 250 T+GS+T ++ ++ AS+ L D L + E + E ++ + Sbjct: 202 TNGSLTPQEVISQASQNLNDLLKPLLKVERYFQAKQNIHKKRMFTPTQSENLNMDQIEMI 261 Query: 251 PFNPALLKK--------------------------VEELELSVRSTNCLRGENIVYMGDL 284 N + + +++L++SVR++NCL+ I + L Sbjct: 262 GGNKLIDQPLLPADSHLNSSLSLNIDNLVHLEGISIDDLQISVRASNCLKKVGIYTIRQL 321 Query: 285 IQRTEADMLRMANFGRKSLVEI-KGVLGTMGLFLG 318 + T+ D+ ++ N G+KS+ +I + + G LG Sbjct: 322 LSYTQQDLFQIKNLGKKSVEQIVIAIRKSYGHILG 356 >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 = 209 bits (533), Expect = 4e-52, 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|119668331|emb|CAK95465.1| RNA polymerase alpha subunit [Lactobacillus iners] Length = 201 Score = 209 bits (533), Expect = 4e-52, 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|150036710|emb|CAM98249.1| DNA-directed RNA polymerase alpha chain [Leuconostoc carnosum] Length = 189 Score = 209 bits (532), Expect = 5e-52, 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|161511713|emb|CAP16867.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 207 Score = 209 bits (532), Expect = 5e-52, 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|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 = 209 bits (532), Expect = 5e-52, Method: Composition-based stats. Identities = 74/326 (22%), Positives = 138/326 (42%), Gaps = 19/326 (5%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG--V 68 + +EY V + PL RG T+G+ALRR L+ + G +T V+ V Sbjct: 14 QWKCLEYRVESKRSH-YGRFSLSPLLRGQGGTIGSALRRTLLRDVEGTNVTHVKFFNKRV 72 Query: 69 LHEIS--SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 H S +I G+ E + DII+N++ I + + I+ GP VTA DI I+ Sbjct: 73 KHLFSSSTILGIEESVHDIIMNLREIVFRCELHGIHKAYIYTVGPKNVTAQDIILPPFIQ 132 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +++ I ++ + + L + K G H I + Y P++ V+Y Sbjct: 133 IVDGTQHIASITKPIHLHVTLKIEKNWGETTESIHPITKYFTRYIPTEIFYMPVRSVTYN 192 Query: 187 VESAREGQVL-DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN---FEEPKKEVK 242 V ++ + YD L + T+G +T ++++ A L D + ++ VK Sbjct: 193 VYFYKDEYDIHIYDILIFELWTNGELTPKEALYEACWRLIDLIIPLLDVPLLHVEGSGVK 252 Query: 243 EDINVK-------SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 E I + + +++L L + + LR +I + D + ++ D+ + Sbjct: 253 ESIPLPIVSNMNRTQEDLFVQHLFIDQLGLPSKISKSLRESHIYRVSDFMNYSQQDLKNL 312 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNL 321 + +K I+ L + + G+NL Sbjct: 313 E-YSKK--ESIEQTLEILHKYFGINL 335 >gi|150187001|emb|CAK30147.1| RNA polymerase alpha subunit [Streptococcus ovis] Length = 202 Score = 209 bits (532), Expect = 6e-52, Method: Composition-based stats. Identities = 81/198 (40%), Positives = 128/198 (64%) 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 EPKKEVKEDINVKSLPFN 253 + K + ++ + Sbjct: 181 DVAKAAEVMKETETASDD 198 >gi|119662391|emb|CAJ33185.1| RNA polymerase alpha subunit [Lactobacillus amylophilus] Length = 174 Score = 209 bits (532), Expect = 6e-52, 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|119662377|emb|CAJ33177.1| RNA polymerase alpha subunit [Lactobacillus paraplantarum] Length = 176 Score = 209 bits (531), Expect = 6e-52, Method: Composition-based stats. Identities = 87/176 (49%), Positives = 127/176 (72%), 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 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPI 168 P VTAGDI D+EVLNPD IC + A M +T + G GYV A+ ++ ++ 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|72534423|emb|CAH59047.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 190 Score = 209 bits (531), Expect = 7e-52, 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|150036726|emb|CAM98254.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. dextranicum] Length = 189 Score = 209 bits (531), Expect = 7e-52, 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|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 = 209 bits (531), Expect = 7e-52, Method: Composition-based stats. Identities = 108/219 (49%), Positives = 150/219 (68%), Gaps = 10/219 (4%) Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--------TENDPIGLITIDALYSPIKK 182 D +IC L + + M + V+ G GY+P ++ +E D IG I ++ALYSP+ + Sbjct: 1 DLLICTLGQNVELNMTIYVASGKGYLPVTKYKENELLKLMSEQDLIGFIPVNALYSPVNR 60 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI--NFEEPKKE 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|161511775|emb|CAP16898.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 193 Score = 208 bits (529), Expect = 1e-51, 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|161511711|emb|CAP16866.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 209 Score = 208 bits (529), Expect = 1e-51, 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|119662373|emb|CAJ33175.1| RNA polymerase alpha subunit [Lactobacillus panis] Length = 190 Score = 208 bits (529), Expect = 1e-51, Method: Composition-based stats. Identities = 86/190 (45%), Positives = 134/190 (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 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLIT 172 TA DIQ +++ +LNPD I + A + +++T KG GY+ A ++ 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|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 = 207 bits (527), Expect = 2e-51, Method: Composition-based stats. Identities = 91/333 (27%), Positives = 158/333 (47%), Gaps = 26/333 (7%) Query: 9 LIKPNNIEYIVLGQE----EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + + + ++Y+ + N +PL RGF +T+ ALRRVL+S++ A+ A++ Sbjct: 1 MERMSKLDYLQVSNSAINNNLNEVTFSLKPLERGFGNTVAVALRRVLLSNVTSLALFAIK 60 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-----SHKRVTIFKRGPGVVTAGDI 119 I GV HE +I G+ ED+T II+N++ + K + + + TI PG+VT+ I Sbjct: 61 ISGVSHEFQTIPGIVEDVTAIIMNLRKVKFKYNPEFVKDGEIIKATIKAEQPGIVTSKSI 120 Query: 120 Q-TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG--------- 169 + T +E++N I N+ + +EL + G G++ + ++ Sbjct: 121 EITNPSVEIINKSQEIANIQKG-SLVIELFLRPGRGFISNESNKKFIQNDSLFASKIESN 179 Query: 170 -----LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 I +D+ +SP++K SYTV ++L TI TDG+I + ++ A +IL Sbjct: 180 IKKGLFIAVDSNFSPVEKCSYTVRELNTSSNKIEEELLFTIKTDGTIDAKSAINQACKIL 239 Query: 225 QDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDL 284 + + K +V E+ VK+ + +L LSVRS N L+ ++ Sbjct: 240 VAHFMAVGDVDSMKLDVFEEEKVKNDEPIEND-VDINQLGLSVRSLNALKRIGKTKASEV 298 Query: 285 IQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 T ++ + N GRKSL EI+ L G L Sbjct: 299 AAMTWEELEQTKNLGRKSLDEIQECLKVNGFTL 331 >gi|150186935|emb|CAK30131.1| RNA polymerase alpha subunit [Streptococcus macedonicus] Length = 203 Score = 207 bits (527), Expect = 2e-51, 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|119662803|emb|CAJ33193.1| RNA polymerase alpha subunit [Lactobacillus mali] Length = 196 Score = 207 bits (526), Expect = 3e-51, Method: Composition-based stats. Identities = 79/195 (40%), Positives = 130/195 (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 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDAL 176 IQ +D+EVLN D IC + A + +T + G GYV A ++ ++ 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|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 = 207 bits (526), Expect = 3e-51, Method: Composition-based stats. Identities = 90/333 (27%), Positives = 160/333 (48%), Gaps = 26/333 (7%) Query: 9 LIKPNNIEYIVLGQE----EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + + + ++Y+ + N +PL RGFA+T+ ALRRVL+S++ A+ A++ Sbjct: 1 MKRMSKLDYLQVSNSAINNNLNEVTFSLKPLERGFANTVAVALRRVLLSNITSLALFAIK 60 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-----SHKRVTIFKRGPGVVTAGDI 119 I GV HE +I G+ ED+T II+N++ + K + + + TI PGVVT+ I Sbjct: 61 ISGVSHEFQTIPGIVEDVTAIIMNLRKVKFKYNPEFVKDGEIIKATIKAEQPGVVTSKSI 120 Query: 120 Q-TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG--------- 169 + + +E++N I N+ A + +EL + G G++ + ++ Sbjct: 121 EISNPSVEIINKSQEIANIQKGA-LVIELFLRPGRGFISNESNKKFIQNDSLFASKIESN 179 Query: 170 -----LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 I +D+ +SP++K SYTV+ ++L TI TDG++ + ++ A +IL Sbjct: 180 IKKGLFIAVDSNFSPVEKCSYTVKELNTSSNKIEEELLFTIKTDGTVDAKSAINQACKIL 239 Query: 225 QDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDL 284 + + K +V E+ + + + +L LSVRS N L+ ++ Sbjct: 240 VAHFMTVGDVDAMKIDVFEEEKINNDEPIEND-VDINQLGLSVRSLNALKRIGKTKASEV 298 Query: 285 IQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 T ++ + N GRKSL EI+ L G L Sbjct: 299 AAMTWEELEQTKNLGRKSLDEIQECLKLNGFTL 331 >gi|150036824|emb|CAM98043.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gasicomitatum] Length = 179 Score = 207 bits (526), Expect = 3e-51, 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|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 = 206 bits (525), Expect = 3e-51, Method: Composition-based stats. Identities = 90/333 (27%), Positives = 160/333 (48%), Gaps = 26/333 (7%) Query: 9 LIKPNNIEYIVLGQE----EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + + + ++Y+ + N +PL RGFA+T+ ALRRVL+S++ A+ A++ Sbjct: 1 MERMSKLDYLQVSNSAINNNLNEVTFSLKPLERGFANTVAVALRRVLLSNITSLALFAIK 60 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-----SHKRVTIFKRGPGVVTAGDI 119 I GV HE +I G+ ED+T II+N++ + K + + + TI PGVVT+ I Sbjct: 61 ISGVSHEFQTIPGIVEDVTAIIMNLRKVKFKYNPEFVKDGEIIKATIKAEQPGVVTSKSI 120 Query: 120 Q-TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG--------- 169 + + +E++N I N+ A + +EL + G G++ + ++ Sbjct: 121 EISNPSVEIINKSQEIANIQKGA-LVIELFLRPGRGFISNESNKRFIQNDSLFASKIESN 179 Query: 170 -----LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 I +D+ +SP++K SYTV+ ++L TI TDG++ + ++ A +IL Sbjct: 180 IKKGLFIAVDSNFSPVEKCSYTVKELNTSSNKIEEELLFTIKTDGTVDAKSAINQACKIL 239 Query: 225 QDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDL 284 + + K +V E+ + + + +L LSVRS N L+ ++ Sbjct: 240 VAHFMTVGDVDTMKIDVFEEERINNDEPIEND-VDINQLGLSVRSLNALKRIGKTKASEV 298 Query: 285 IQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 T ++ + N GRKSL EI+ L G L Sbjct: 299 AAMTWEELEQTKNLGRKSLDEIQECLKLNGFTL 331 >gi|119668357|emb|CAK95473.1| RNA polymerase alpha subunit [Lactobacillus pontis] Length = 179 Score = 206 bits (524), Expect = 4e-51, Method: Composition-based stats. Identities = 84/178 (47%), Positives = 128/178 (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 AKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 A ++ E+ IG++ ID++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T Sbjct: 121 ANDNKARMEDLAIGVLPIDSIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLTP 178 >gi|71056848|emb|CAH58979.1| DNA-directed RNA polymerase alpha chain [Enterococcus haemoperoxidus] Length = 199 Score = 205 bits (523), Expect = 6e-51, 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|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 = 205 bits (523), Expect = 6e-51, Method: Composition-based stats. Identities = 87/318 (27%), Positives = 154/318 (48%), Gaps = 19/318 (5%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + +PL RGFA TLG ALRRVL+S++ A V+I+GV HE I G Sbjct: 12 VPSSTTSDFEGTFNLQPLERGFATTLGVALRRVLLSNITSLAPFCVRIEGVTHEFQGITG 71 Query: 78 VHEDLTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQTVN--DIEVLNP 130 V ED+ +I+N++ + D +V + G + + ++ V+ ++EV++ Sbjct: 72 VIEDVPSLIMNLRKVRFSYDPELVKDDEIIKVELKADQIGEINSRYLEVVDNLNVEVIDH 131 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHR-----------TENDPIGLITIDALYSP 179 + I ++ ++ +R+EL + G G+V ++ ++ T+ I +D+ +SP Sbjct: 132 NIHIADVALENSLRLELYLRPGRGFVSSEENKALVSKLETQLETKIKKGKFIAVDSNFSP 191 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 ++KV+Y V V +KL + TDG++ +D++ A+ IL + N +E K Sbjct: 192 VEKVNYVVSELNSSSVKIEEKLEFNVITDGTVKPKDAIKQAAEILISHFKVIGNVDEIKD 251 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + E K L + + +L LSVRS N LR ++ + T ++ + N G Sbjct: 252 SIFETSEDKVLDVQEQDI-DINQLGLSVRSLNALRRIGKTKASEVAKMTYDELEQTKNLG 310 Query: 300 RKSLVEIKGVLGTMGLFL 317 +KSL EI + G L Sbjct: 311 KKSLDEIITKIKEHGFEL 328 >gi|150186978|emb|CAK30140.1| RNA polymerase alpha subunit [Streptococcus sanguinis SK1] Length = 194 Score = 205 bits (522), Expect = 7e-51, Method: Composition-based stats. Identities = 81/194 (41%), Positives = 123/194 (63%) Query: 53 SSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG 112 +SL GAA+T++ I+GVLHE +I GV ED+ IILN+KGI +K K + + GP Sbjct: 1 ASLPGAAVTSINIEGVLHEFDTISGVREDVMQIILNVKGIAVKSYVQDEKIIELDVEGPA 60 Query: 113 VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT 172 VTAGDI T +DIE++NPDH + + A + +TV+ G GYVPA ++ ++ P+G + Sbjct: 61 EVTAGDILTDSDIEIINPDHYLFTIGEGASFKATMTVNSGRGYVPADENKKDDAPVGTLA 120 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 +D++Y+P+ KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L +F Sbjct: 121 VDSIYTPVTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLNLFT 180 Query: 233 NFEEPKKEVKEDIN 246 N E Sbjct: 181 NLTEVAIAADVMKE 194 >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 = 204 bits (520), Expect = 1e-50, Method: Composition-based stats. Identities = 78/337 (23%), Positives = 156/337 (46%), Gaps = 16/337 (4%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 V + + T + EPL RG+A+T+G LRR L+SS+ A A++I+ V HE +I G+ Sbjct: 13 VAEKVNDFNTTFVIEPLARGYANTMGTVLRRTLLSSITSVAPFAIKINNVEHEFQTISGL 72 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFK-----RGPGVVTAGDIQTVNDIEVLNPDHV 133 ED ++ NI+ I + + ++ + K G + A DI V+ +E++N D Sbjct: 73 KEDAITLVRNIRNIRFVYNEEIFEKENLAKISFKTNKEGEIFASDIPEVSGLEIVNKDQY 132 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG-----------LITIDALYSPIKK 182 I N+ + +L + KG G++ + ++ G + +D+ +SP+KK Sbjct: 133 IANIAKGGSLEFDLFLRKGRGFIDFEENKNVISQYGSRLESSIKNGQFLAMDSDFSPVKK 192 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 + + E L ++L + I+TD +++ ++++ A++I+ + N + Sbjct: 193 CAISFEELNSSSKLIEERLKIKIETDCTVSAKEAIEQAAKIIVAHFQIIGNINALETIEL 252 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + N + + +L LSVRS N LR + +++ ++ ++ + N G+KS Sbjct: 253 FEENKEKKEREIKSTTPITKLGLSVRSENALRRAKYNTVEEVLGLSDEELSNIKNLGKKS 312 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 + +I +G + IE L + + Sbjct: 313 IQDIIEKRNEWKERIGYDDGQSDNFIIESLDQLNNSE 349 >gi|119662823|emb|CAJ33204.1| RNA polymerase alpha subunit [Lactobacillus coleohominis DSM 14060] Length = 173 Score = 204 bits (520), Expect = 1e-50, 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 GYVPAKHHRTE-NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 GY A ++ + IG++ ID++Y+PI++V+YTVE+ R GQ DY+KL++ + Sbjct: 121 GYSSADDNKARMDLAIGVLPIDSIYTPIERVNYTVENTRVGQNNDYNKLTLDV 173 >gi|150186985|emb|CAK30142.1| RNA polymerase alpha subunit [Streptococcus gallolyticus subsp. gallolyticus] Length = 204 Score = 204 bits (519), Expect = 2e-50, Method: Composition-based stats. Identities = 80/200 (40%), Positives = 127/200 (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 EPKKEVKEDINVKSLPFNPA 255 E K + + Sbjct: 181 EVAKNTDVMKETEKVNDEKV 200 >gi|150036724|emb|CAM98253.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. mesenteroides] Length = 181 Score = 204 bits (519), Expect = 2e-50, Method: Composition-based stats. Identities = 80/181 (44%), Positives = 118/181 (65%), Gaps = 2/181 (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 Query: 229 G 229 G Sbjct: 181 G 181 >gi|150036714|emb|CAM98250.1| DNA-directed RNA polymerase alpha chain [Leuconostoc citreum] Length = 186 Score = 204 bits (519), Expect = 2e-50, 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|119663530|emb|CAK22336.1| RNA polymerase alpha subunit [Lactobacillus kitasatonis] Length = 171 Score = 204 bits (519), Expect = 2e-50, 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|119662835|emb|CAJ33210.1| RNA polymerase alpha subunit [Lactobacillus rossiae] Length = 173 Score = 204 bits (519), Expect = 2e-50, Method: Composition-based stats. Identities = 86/173 (49%), Positives = 125/173 (72%), Gaps = 2/173 (1%) Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 QIDGVLHE S+++GV ED+T IILN+K ++LKM+ D K + I +GP VTAGDIQT Sbjct: 1 QIDGVLHEFSTVEGVVEDVTQIILNMKKVSLKMATDEEKGMDIDVKGPATVTAGDIQTDA 60 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIK 181 D+EV+NPD IC + A M LT +KG GYV A ++ ++ PIG++ ID++Y+PI+ Sbjct: 61 DVEVMNPDLYICTVADGATFHMHLTANKGRGYVSADENKARQDDMPIGVLPIDSIYTPIE 120 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 +V+Y VE+ R GQ DYDKL++ + TDGSIT ++++LA++IL + L MF++ Sbjct: 121 RVNYQVENTRVGQRDDYDKLTLDVWTDGSITPSEAISLAAKILTEHLAMFVDL 173 >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 = 78/337 (23%), Positives = 156/337 (46%), Gaps = 16/337 (4%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 V + + T + EPL RG+A+T+G LRR L+SS+ A A++I+ V HE +I G+ Sbjct: 13 VAEKVNDFNTTFVIEPLARGYANTMGTVLRRTLLSSITSVAPFAIKINNVEHEFETISGL 72 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFK-----RGPGVVTAGDIQTVNDIEVLNPDHV 133 ED ++ NI+ I + + ++ + K G + A DI V+ +E++N D Sbjct: 73 KEDAITLVRNIRNIRFVYNEEIFEKENLAKISFKTNKEGEIFASDIPEVSGLEIVNKDQY 132 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG-----------LITIDALYSPIKK 182 I N+ + +L + KG G++ + ++ G + +D+ +SP+KK Sbjct: 133 IANIAKGGSLEFDLFLRKGRGFIDFEENKNVISQYGSRLESSIKNGQFLAMDSDFSPVKK 192 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 + + E L ++L + I+TD +++ ++++ A++I+ + N + Sbjct: 193 CAISFEELNSSSKLIEERLKIKIETDCTVSAKEAIEQAAKIIVAHFQIIGNINALETIEL 252 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + N + + +L LSVRS N LR + +++ ++ ++ + N G+KS Sbjct: 253 FEENKEKKEREIKSTTPITKLGLSVRSENALRRAKYNTVEEVLGLSDEELSNIKNLGKKS 312 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 + +I +G + IE L + + Sbjct: 313 IQDIIEKRNEWKERIGYDDGQSDNFIIESLDQLNNSE 349 >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 = 204 bits (518), Expect = 2e-50, Method: Composition-based stats. Identities = 92/374 (24%), Positives = 158/374 (42%), Gaps = 72/374 (19%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 ++ + + PL A T+G A+RR L+S + G +I + I G +HE Sbjct: 14 WKCVDDQPDHNRRLHYSRFALSPLLVDQAMTIGVAIRRALLSEVEGISIISANIVGAVHE 73 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMS--------GDSHKRVTIFKRGPGVVTAGDIQTVN 123 S++ GV E + +I+LN+K I +K + R +IF +GPGVVTA I+ + Sbjct: 74 YSTLDGVRESVDEILLNLKQIVIKGAKGASITPLDHKEYRASIFAQGPGVVTAEHIKFPS 133 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 I ++PD I L + + +EL + +G AK IDA ++P++K Sbjct: 134 SILAVDPDQSIATLLNETQLCIELFIRQG----IAKQLTRTKKNHQGFFIDANFTPVQKA 189 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF------------ 231 ++++ S + + L L + I T+ ++T +++ A L + Sbjct: 190 NFSIHSVGDPKGLQQ-LLLLEIWTNKTLTPAEALYQAHASLLNLFHQISPPLLHKELSPS 248 Query: 232 --------------------------------INFEEPKKEVKEDINVKSLPFNPALLKK 259 N KE++ + +KS + K Sbjct: 249 KNILNQNSDSNSLGGSSFGRVVSLETRRDSTQTNNSSIPKEIQPSVRLKSYTDTNLSIDK 308 Query: 260 ------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 ++ELELS R +NCL+ NI + DL+ T+ D+L++ NFGRKS+ ++ Sbjct: 309 QMNDSVNKENLSIDELELSPRISNCLKKANINTIADLLNYTQEDLLKIKNFGRKSVEQVS 368 Query: 308 GVLGTMGLFLGMNL 321 VL M L Sbjct: 369 LVLR---KRFNMEL 379 >gi|119662341|emb|CAJ33159.1| RNA polymerase alpha subunit [Lactobacillus parabuchneri] Length = 200 Score = 204 bits (518), Expect = 2e-50, Method: Composition-based stats. Identities = 89/199 (44%), 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 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLIT 172 TAGDIQ +D+ VLNPD I + A M LT +KG GYV A ++ 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|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 = 203 bits (517), Expect = 3e-50, Method: Composition-based stats. Identities = 73/306 (23%), Positives = 149/306 (48%), Gaps = 16/306 (5%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 V + + T + EPL RG+ +T+G +RR L+SS+ A A++I V HE ++I+G+ Sbjct: 13 VAEKVSDFNTTFVIEPLMRGYGNTIGTVIRRTLLSSITSVAPFAIKISHVEHEFTAIEGL 72 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFK-----RGPGVVTAGDIQTVNDIEVLNPDHV 133 ED ++ NI+ I + ++ + K G V A DI+T+ ++++N D Sbjct: 73 REDAITLVANIRKIRFAYDPELFEKDNLAKISFKSTKEGEVHASDIETIPGLDIVNKDQY 132 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG-----------LITIDALYSPIKK 182 I + + + EL + G GYV + ++ G + +D+ +SPIKK Sbjct: 133 IATISKNGSLEFELYLRTGRGYVSFEDNKKTILEYGPKLESKIKNGQFLAMDSDFSPIKK 192 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+ E + ++L + ++TDG++ ++ + A++I+ + N + Sbjct: 193 VAILFEELNSTSNIIEERLKIKVETDGTVEAKNVMEEAAKIIVAHFQIIGNIDALGTIDL 252 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 D + P + +++L L++RS N LR + ++++ ++ ++ + N G+KS Sbjct: 253 FDDQKEKHEKTPKVSVSIDKLNLTIRSLNALRRAGFNNVDEIMKLSDEELSNIKNLGKKS 312 Query: 303 LVEIKG 308 + +I Sbjct: 313 VQDIID 318 >gi|150187112|emb|CAK30173.1| RNA polymerase alpha subunit [Streptococcus equinus] Length = 191 Score = 203 bits (516), Expect = 4e-50, 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|639724|gb|AAA61684.1| RNA polymerase alpha subunit [Chlamydia muridarum] Length = 322 Score = 202 bits (515), Expect = 5e-50, Method: Composition-based stats. Identities = 74/307 (24%), Positives = 148/307 (48%), Gaps = 16/307 (5%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 V + + T + EPL RG+A+T+G LRR L+SS+ A A++I+ V HE +I G+ Sbjct: 13 VAEKVNDFNTTFVIEPLARGYANTMGTVLRRTLLSSITSVAPFAIKINNVEHEFQTISGL 72 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFK-----RGPGVVTAGDIQTVNDIEVLNPDHV 133 ED ++ NI+ I + + ++ + K G + A DI V+ +E++N D Sbjct: 73 KEDAITLVRNIRNIRFVYNEEIFEKENLAKISFKTNKEGEIFASDIPEVSGLEIVNKDQY 132 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG-----------LITIDALYSPIKK 182 I N+ + +L + KG G++ + ++ G + +D+ +SP+KK Sbjct: 133 IANIAKGGSLEFDLFLRKGRGFIDFEENKNVISQYGSRLESSIKNGQFLAMDSDFSPVKK 192 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 + + E L ++L + I+TD +++ ++++ A++I+ + N + Sbjct: 193 CAISFEELNSSSKLIEERLKIKIETDCTVSAKEAIEQAAKIIVAHFQIIGNINALETIEL 252 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + N + + +L LSVRS N LR + +++ ++ ++ + N G+KS Sbjct: 253 FEENKEKKEREIKSTTPITKLGLSVRSENALRRAKYNTVEEVLGLSDEELSNIKNLGKKS 312 Query: 303 LVEIKGV 309 + +I Sbjct: 313 IQDIIEK 319 >gi|119672797|emb|CAK95482.1| RNA polymerase alpha subunit [Lactobacillus animalis] Length = 190 Score = 202 bits (514), Expect = 6e-50, Method: Composition-based stats. Identities = 79/189 (41%), Positives = 124/189 (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 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKK 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|154424853|emb|CAL18529.1| RNA polymerase alpha subunit [Streptococcus salivarius] Length = 199 Score = 201 bits (512), Expect = 1e-49, 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|150036832|emb|CAO03476.1| DNA-directed RNA polymerase alpha chain [Leuconostoc carnosum] Length = 174 Score = 201 bits (512), Expect = 1e-49, 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|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 = 201 bits (512), Expect = 1e-49, Method: Composition-based stats. Identities = 87/250 (34%), Positives = 141/250 (56%), Gaps = 11/250 (4%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + IKP +E I E I +PL RG+ T+GNALRRVL+SSL G AI V+I G Sbjct: 5 KFIKPFFVEEI---DENPISGKFIIKPLERGYGITVGNALRRVLLSSLPGTAIVNVKIQG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDS---HKRVTIFKRGPGVVTAGDIQTVND 124 V E ++I GV+ED+ IILN+K I + +S +++ + +GP +TA + Sbjct: 62 VEQEFTTIPGVYEDVMTIILNLKKIVFAVDDESDDFEEKLELIAKGPQRLTASSFELPAG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSPIKKV 183 ++++NPDH I L D M +T+ KG GYV AK ++ + +G+I ID+L++P+ V Sbjct: 122 VKIINPDHYITTLSDDVCFHMTVTLKKGIGYVGAKDNKVHGENQVGVIAIDSLFTPVVNV 181 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VE ++ + D+L++ I T+G++ ++++A A+ IL D + + + V+ Sbjct: 182 SYQVE----KKLGNKDELTIEITTNGALLAKEALATAASILVDHFNVLVELSQKPAHVEF 237 Query: 244 DINVKSLPFN 253 K N Sbjct: 238 VSESKKEAHN 247 >gi|119672795|emb|CAK95481.1| RNA polymerase alpha subunit [Lactobacillus saerimneri] Length = 170 Score = 201 bits (512), Expect = 1e-49, 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|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 = 200 bits (510), Expect = 2e-49, Method: Composition-based stats. Identities = 82/343 (23%), Positives = 154/343 (44%), Gaps = 51/343 (14%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + + P+ G T+GN LRR+L++ L G + +I+GV E S++ G+ E + Sbjct: 19 TDCYGRLSFGPVNPGQGLTIGNTLRRILLNDLPGIGVIGAEINGVQSEFSTLPGIRESVI 78 Query: 84 DIILNIKGINLKMSGDSHKRVTIFK--------------RGPGVVTAGDIQTVNDIEVLN 129 +I LN++ + + ++V K P VVTA D+ + E ++ Sbjct: 79 EIFLNLRELIFTPTATCAQKVKQTKPFVYAKLNSELKIDNFPYVVTAKDLHIP-EYEFVD 137 Query: 130 PDHVICNL---DVDAVVRMELTVSKGHGYVPAKH-----------------HRTENDPIG 169 P+ I + ++ L + +G GY K N Sbjct: 138 PNQQIATILSPTAAENFKLTLLIGQGRGYQSWKKLPGVPQLMDQRFFEQFDSTQTNSKSV 197 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL- 228 IDA++ PI++V++TV+ +D + + + T+GSI D+V A+++ + Sbjct: 198 TFPIDAIFMPIRQVNFTVQ----EHSVDGEYIYFEVWTNGSINPFDAVKSAAKVGMKLMT 253 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKK-----------VEELELSVRSTNCLRGEN 277 ++ + + E ++ F K +E+LELS+R+ NCL+ N Sbjct: 254 ACLTTLQDQQVYLDESKLPETPNFVQVNYNKMESESNFDQIFIEQLELSLRAYNCLKRAN 313 Query: 278 IVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 I+ + DL Q++ D++++ NFG+KS E++ L T G+ L + Sbjct: 314 ILTLADLSQQSFRDLMKLRNFGQKSADEVRAALSTYGIELKED 356 >gi|119672815|emb|CAK95519.1| RNA polymerase alpha subunit [Lactobacillus gasseri] Length = 165 Score = 200 bits (510), Expect = 2e-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|119662397|emb|CAJ33188.1| RNA polymerase alpha subunit [Lactobacillus vaccinostercus] Length = 174 Score = 200 bits (510), Expect = 2e-49, Method: Composition-based stats. Identities = 84/174 (48%), Positives = 129/174 (74%), 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 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPI 168 P VTAGDI+ D+EVLNP+ I + A + +++T + G GYV A ++ ++ 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|150187056|emb|CAK30161.1| RNA polymerase alpha subunit [Streptococcus cristatus ATCC 51100] Length = 172 Score = 200 bits (509), Expect = 2e-49, 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|154424727|emb|CAL18466.1| RNA polymerase alpha subunit [Streptococcus gallolyticus] Length = 184 Score = 200 bits (509), Expect = 2e-49, 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|150187178|emb|CAK30188.1| RNA polymerase alpha subunit [Streptococcus acidominimus] Length = 174 Score = 200 bits (509), Expect = 3e-49, Method: Composition-based stats. Identities = 78/174 (44%), Positives = 121/174 (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 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 +Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + LG Sbjct: 121 IYTPVKKVNYQVEPARVGSNDGFDKLTLEIMTNGTIIPEDALGLSARILMEHLG 174 >gi|154424731|emb|CAL18468.1| RNA polymerase alpha subunit [Streptococcus thermophilus] Length = 179 Score = 199 bits (507), Expect = 4e-49, Method: Composition-based stats. Identities = 78/179 (43%), Positives = 123/179 (68%) 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 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L +F + Sbjct: 121 YTPVKKVNYQVEPARVGSNDGFDKLTIEIVTNGTIIPEDALGLSARILIEHLNLFTDLT 179 >gi|154424721|emb|CAL18463.1| RNA polymerase alpha subunit [Streptococcus thermophilus] Length = 169 Score = 199 bits (505), Expect = 6e-49, 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|150186992|emb|CAK30144.1| RNA polymerase alpha subunit [Streptococcus minor] Length = 189 Score = 199 bits (505), Expect = 8e-49, Method: Composition-based stats. Identities = 77/189 (40%), Positives = 124/189 (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 KEVKEDINV 247 K + Sbjct: 181 KSAEVMKEA 189 >gi|71056955|emb|CAH59038.1| DNA-directed RNA polymerase alpha chain [Enterococcus avium] Length = 177 Score = 199 bits (505), Expect = 8e-49, Method: Composition-based stats. Identities = 82/175 (46%), Positives = 120/175 (68%) Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 +QIDGVLHE S+IKGV ED+ IILNIKG+ LK+ + K + I GP VTAGDI Sbjct: 3 IQIDGVLHEFSTIKGVREDVVQIILNIKGLALKLFAEEEKTLEIDITGPATVTAGDIIVD 62 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 +D+E+LN D IC + A LTV G GYV A ++ E+ PIG++ +D++Y+P++K Sbjct: 63 SDVEILNKDMYICTVAEGATFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRK 122 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 V+Y VE+ R G+ D+DKL+M I TDGSI +++++LA++IL + L +F+N + Sbjct: 123 VNYQVENTRVGRRDDFDKLTMEIWTDGSIIAQEALSLAAKILTEHLDIFVNLTDE 177 >gi|154424795|emb|CAL18500.1| RNA polymerase alpha subunit [Streptococcus gordonii] Length = 183 Score = 198 bits (504), Expect = 8e-49, Method: Composition-based stats. Identities = 78/182 (42%), Positives = 120/182 (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 KK 239 K Sbjct: 181 AK 182 >gi|145586271|emb|CAM91230.1| RNA polymerase alpha-subunit [Lactobacillus plantarum subsp. argentoratensis] Length = 176 Score = 198 bits (504), Expect = 9e-49, Method: Composition-based stats. Identities = 82/176 (46%), Positives = 121/176 (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 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKV 183 EVLNPD IC + A M +T + G GYV A+ ++ ++ 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|154424805|emb|CAL18505.1| RNA polymerase alpha subunit [Streptococcus hyovaginalis] Length = 183 Score = 198 bits (504), Expect = 1e-48, 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|119662827|emb|CAJ33206.1| RNA polymerase alpha subunit [Lactobacillus gastricus] Length = 172 Score = 197 bits (502), Expect = 2e-48, Method: Composition-based stats. Identities = 81/172 (47%), Positives = 121/172 (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 TENDPI--GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 + D G++ ID++Y+PI +V+YTVE+ R GQ DYDKL++ + T+GS+T Sbjct: 121 SNMDMSAIGVLPIDSIYTPIDRVNYTVENTRVGQSNDYDKLTLDVWTNGSLT 172 >gi|119668323|emb|CAK95461.1| RNA polymerase alpha subunit [Lactobacillus gasseri] Length = 166 Score = 197 bits (500), Expect = 2e-48, 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|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 = 197 bits (500), Expect = 3e-48, Method: Composition-based stats. Identities = 83/351 (23%), Positives = 142/351 (40%), Gaps = 45/351 (12%) Query: 8 ELIKPN---NIEYIV--LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 I PN +E + ++ ++ PL G TLGN RR+L++ L G AITA Sbjct: 2 NFIVPNSSAKLECVEFRENNPRDHYARLVLGPLAPGQGVTLGNTFRRLLLNDLPGVAITA 61 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS----HKRVTI----------FK 108 +++ E ++ G+ E + +I LN++ I + +TI Sbjct: 62 AKLNETRTEFMTLPGIRESVVEIFLNLRDIVFFNTFPDVLAPQGTITISPRPQTDESKSF 121 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD---AVVRMELTVSKGHGYVPA------- 158 P V+ AGD+Q I ++P I L + L S G+ Sbjct: 122 HTPRVICAGDMQLPEGITCVDPTQPIATLMNGDTAFNLTFILEQSTGYRVWKKPTQSYGT 181 Query: 159 --------KHHRTENDPIGLI-TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 + + E G+ ID + P+K V++ V + + I T+G Sbjct: 182 GFYPSPQIESVQIEQVKSGVFQPIDGNFMPVKNVNFAVHEV----QPHGEYIHFEITTNG 237 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKE---DINVKSLPFNPALLKKVEELELS 266 SI ++ A IL + + P + E ++ +E+LELS Sbjct: 238 SIHPHNAFKHAGAILTEITRATLQDPRPVVGIDEASTPVDTAVAQKAYFENIAIEQLELS 297 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +R+ NCL+ I+ + DL + + + +L + NFG+KS E+ L T G+ L Sbjct: 298 LRAYNCLKRAQILTLADLSRESYSSLLALRNFGQKSAEEVAKALETYGIEL 348 >gi|150187174|emb|CAK30187.1| RNA polymerase alpha subunit [Streptococcus devriesei] Length = 161 Score = 196 bits (498), Expect = 5e-48, 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|290489674|gb|ADD31221.1| RNA polymerase alpha subunit protein [Rhododendron simsii] Length = 262 Score = 196 bits (498), Expect = 5e-48, Method: Composition-based stats. Identities = 75/253 (29%), Positives = 122/253 (48%), Gaps = 11/253 (4%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLR 56 M QKN + P +++ + ++ PL RG A TLG A+RR L+ + Sbjct: 1 MSQKNRRGF--PRRLQWKCVESRVDSKRLYYGRFSLFPLRRGEAETLGIAMRRALLGEIE 58 Query: 57 GAAITAVQI--DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVV 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 T D G D Sbjct: 119 TARDIMVAPYVEIIDNTQHIASLTKRIDLYMKLEIQKNRGYQIKSPKNTLQD--GSYPTD 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 EEPKKEVKEDINV 247 EE + E+ + Sbjct: 236 EEENVHLDENQHK 248 >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 = 195 bits (496), Expect = 7e-48, Method: Composition-based stats. Identities = 94/376 (25%), Positives = 151/376 (40%), 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 EVLNPDHVICNLDVDAVVRMELTVSKGHGYV---------------PAKHHRTENDPI-- 168 +V++P I L A + E+ +S+G GY P END Sbjct: 124 KVVDPSQYIATLASGASLEFEIQLSQGSGYRLRRTSLVPPGFTLPPPRDPLEPENDSKSE 183 Query: 169 --------------------------GLITIDALYSPIKKVSYTVESAREGQVLDY---- 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++ L +E L+LSVRS NCL+ NI +G LI T ++L++ N Sbjct: 304 LIEPEKKPTTKTIAKE-IALTPIESLDLSVRSFNCLKRANITNVGKLIAYTRQELLQLKN 362 Query: 298 FGRKSLVEIKGVLGTM 313 FG KS E+ VL + Sbjct: 363 FGTKSASEVVDVLNSR 378 >gi|154424813|emb|CAL18509.1| RNA polymerase alpha subunit [Streptococcus intermedius] Length = 177 Score = 195 bits (496), Expect = 8e-48, Method: Composition-based stats. Identities = 78/177 (44%), Positives = 121/177 (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 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 +P+KKV+Y VE AR G +DKL++ I TDG+I ED++ L++RIL + L +F N Sbjct: 121 TPVKKVNYQVEPARVGSNDSFDKLTLEIMTDGTIIPEDALGLSARILTEHLDLFTNL 177 >gi|119668311|emb|CAK95456.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. lactis] Length = 191 Score = 195 bits (496), Expect = 8e-48, Method: Composition-based stats. Identities = 72/191 (37%), Positives = 115/191 (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 KKEVKEDINVK 248 + + + + Sbjct: 181 AEIGEVMVEQE 191 >gi|108792429|emb|CAJ44677.1| RNA polymerase alpha subunit [Lactobacillus acidipiscis] Length = 187 Score = 195 bits (496), Expect = 9e-48, Method: Composition-based stats. Identities = 77/186 (41%), Positives = 122/186 (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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSY 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|108792431|emb|CAJ44678.1| RNA polymerase alpha subunit [Lactobacillus acidipiscis] Length = 196 Score = 195 bits (495), Expect = 1e-47, Method: Composition-based stats. Identities = 79/196 (40%), Positives = 125/196 (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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSY 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|154424743|emb|CAL18474.1| RNA polymerase alpha subunit [Streptococcus salivarius] Length = 201 Score = 195 bits (495), Expect = 1e-47, 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|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 (495), Expect = 1e-47, Method: Composition-based stats. Identities = 83/197 (42%), Positives = 128/197 (64%), Gaps = 6/197 (3%) Query: 138 DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 + M + V +G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q Sbjct: 1 MKTTSISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQ 60 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+P Sbjct: 61 RTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP---EVKEEKPEFDP 117 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + G Sbjct: 118 ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRG 177 Query: 315 LFLGMNLPDWPPESIEE 331 L LGM L +WPP SI + Sbjct: 178 LSLGMRLENWPPASIAD 194 >gi|119662281|emb|CAJ33127.1| RNA polymerase alpha subunit [Lactobacillus animalis KCTC 3501] Length = 167 Score = 194 bits (494), Expect = 1e-47, Method: Composition-based stats. Identities = 83/167 (49%), Positives = 116/167 (69%), 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 VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGL 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|150186998|emb|CAK30146.1| RNA polymerase alpha subunit [Streptococcus orisratti] Length = 199 Score = 194 bits (494), Expect = 1e-47, Method: Composition-based stats. Identities = 74/197 (37%), Positives = 125/197 (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 KEVKEDINVKSLPFNPA 255 K V+ + Sbjct: 181 KATDVMKEVEKVNDEKV 197 >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 = 194 bits (493), Expect = 2e-47, Method: Composition-based stats. Identities = 84/314 (26%), Positives = 149/314 (47%), Gaps = 29/314 (9%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL---------HEISSIKG 77 L P G T+ N LRR L++++ G IT+V+ + HE S+I G Sbjct: 47 YALFQLGPFSHGQGLTIANGLRRTLLNNIIGFGITSVKFEPKWVDISKEVFIHEYSTIPG 106 Query: 78 VHEDLTDIILNIKGINLKMSGD-----SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 + E + +II N+K I ++ + + I + PGV+ A I+ +++LN + Sbjct: 107 IWESIFEIIENLKKIKIRRENSPFEPFEKQVIRITQDKPGVLRADSIKLPPFLKILNQNQ 166 Query: 133 VICNL-DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 I ++ + ++ + +T+ + N+ I + + PIK V+Y +++ Sbjct: 167 PIVSMMSSNLILDIIITIE------AQTGNHLCNNQ--FIHVSEVCLPIKWVNYVIKTDP 218 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE---EPKKEVKEDINVK 248 + L I TDG+IT +++++ A+ I D F + E K VKE + + Sbjct: 219 LLGSKSPESLFFEISTDGTITPQEALSKAADICIDLYSCFSTAQKELEVKSIVKEKVTEE 278 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 +E L LSVR+ NCL+ NI + DL+ ++++D+L M NFG+KS E+ Sbjct: 279 VKEEIITNKVTIENLGLSVRAYNCLKRANIYTVTDLLTKSKSDLLAMKNFGKKSADEVYE 338 Query: 309 VLGTMGLFLGMNLP 322 L LG++LP Sbjct: 339 ALQN---RLGIDLP 349 >gi|108792433|emb|CAJ44679.1| RNA polymerase alpha subunit [Lactobacillus acidipiscis] Length = 194 Score = 194 bits (493), Expect = 2e-47, Method: Composition-based stats. Identities = 78/194 (40%), Positives = 123/194 (63%), Gaps = 2/194 (1%) Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE SSI GV ED+T IILN+K + LK++ + + + I GP VTAGDIQ +++EV Sbjct: 1 VLHEFSSIDGVLEDVTTIILNLKKVALKLNSEDVQTLEIDVTGPMEVTAGDIQGSSEVEV 60 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSY 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 NVKSLPFNPALLKK 259 + L Sbjct: 181 EKEETHKEKMLEMT 194 >gi|154424757|emb|CAL18481.1| RNA polymerase alpha subunit [Streptococcus anginosus] Length = 184 Score = 194 bits (492), Expect = 2e-47, 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|150187117|emb|CAK30174.1| RNA polymerase alpha subunit [Streptococcus infantarius subsp. infantarius ATCC BAA-102] Length = 187 Score = 193 bits (490), Expect = 4e-47, 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|150187170|emb|CAK30186.1| RNA polymerase alpha subunit [Streptococcus iniae] Length = 183 Score = 193 bits (490), Expect = 4e-47, 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|150187135|emb|CAK30178.1| RNA polymerase alpha subunit [Streptococcus oralis ATCC 35037] Length = 177 Score = 192 bits (489), Expect = 5e-47, Method: Composition-based stats. Identities = 76/177 (42%), Positives = 119/177 (67%) 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 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 P+ KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L +F N Sbjct: 121 PVTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLT 177 >gi|154424765|emb|CAL18485.1| RNA polymerase alpha subunit [Streptococcus canis] Length = 188 Score = 192 bits (488), Expect = 7e-47, Method: Composition-based stats. Identities = 75/188 (39%), Positives = 123/188 (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 VKEDINVK 248 + + Sbjct: 181 TEVMKETE 188 >gi|150187076|emb|CAK30165.1| RNA polymerase alpha subunit [Streptococcus ferus] Length = 191 Score = 192 bits (488), Expect = 7e-47, Method: Composition-based stats. Identities = 78/189 (41%), Positives = 124/189 (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 VKEDINVKS 249 + + Sbjct: 181 TEVMKETEK 189 >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 = 191 bits (486), Expect = 1e-46, Method: Composition-based stats. Identities = 85/358 (23%), Positives = 145/358 (40%), Gaps = 55/358 (15%) Query: 9 LIKPN---NIEYIVLGQEEEN--RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 I PN +E + ++ ++ P+ G TLGN RR+L++ L G AITA Sbjct: 3 FIVPNSSAKLECVEFREKNPRTQYARLVLGPVAPGQGVTLGNTFRRLLLNDLPGVAITAA 62 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS----HKRVTIF------------ 107 +++ E ++ G+ E + +I LN++ I + +TI Sbjct: 63 KLNDARTEFVTLPGIRESVVEIFLNLRDIVFFNTFPDVLAPQGTITIDPSVHEGPTDAGE 122 Query: 108 ----KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV-VRMEL--------------T 148 P V+ AGD+Q + ++P I L + T Sbjct: 123 GFELSTSPRVICAGDMQLPEGVYCVDPTQPIATLMNAHTPFHLSFILEQATGYRVWKKPT 182 Query: 149 VSKGHGYVPAKHH---RTENDPIGLI-TIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 G G+ P + + E GL ID + P++ V++ V + + Sbjct: 183 QPYGRGFYPPRQTAAPQMEQVKSGLFQPIDGNFMPVRTVNFKVHD----GPPHGEYIHFE 238 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKK-----EVKEDINVKSLPFNPALLKK 259 I T+GSI + A IL + +EP+ EV + +V + Sbjct: 239 ITTNGSIHPHAAFKHAGAILTEITR--ATLQEPRPLVGMDEVSQPADVPNNQMAYFETIA 296 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+LELS+R+ NCL+ I+ + DL + + +L + NFG+KS E+ L T G+ L Sbjct: 297 IEQLELSLRAYNCLKRAQILTLADLSRESYQSLLALRNFGQKSAEEVAKALETYGIEL 354 >gi|150186920|emb|CAK30128.1| RNA polymerase alpha subunit [Streptococcus pasteurianus] Length = 177 Score = 191 bits (486), Expect = 1e-46, 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|119662389|emb|CAJ33184.1| RNA polymerase alpha subunit [Lactobacillus alimentarius] Length = 165 Score = 191 bits (485), Expect = 1e-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|150186996|emb|CAK30145.1| RNA polymerase alpha subunit [Streptococcus mitis] Length = 160 Score = 191 bits (485), Expect = 1e-46, 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|119663532|emb|CAK22337.1| RNA polymerase alpha subunit [Lactobacillus sharpeae] Length = 164 Score = 191 bits (485), Expect = 2e-46, 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|151416842|emb|CAO78492.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gelidum] Length = 164 Score = 190 bits (483), Expect = 2e-46, Method: Composition-based stats. Identities = 75/163 (46%), Positives = 109/163 (66%), Gaps = 2/163 (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--ENDPIGLITIDALYSPIKKVSYTVESAREG 193 GY A ++ + PIG++ +D++Y+PI++V+Y VE+ R G Sbjct: 121 RGYSSADENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVG 163 >gi|150036712|emb|CAM98020.1| DNA-directed RNA polymerase alpha chain [Leuconostoc citreum] Length = 181 Score = 190 bits (483), Expect = 3e-46, 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|154424773|emb|CAL18489.1| RNA polymerase alpha subunit [Streptococcus cristatus] Length = 182 Score = 190 bits (483), Expect = 3e-46, 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|296044726|gb|ADG85772.1| RpoA [Vibrio sp. WH134] Length = 200 Score = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 87/199 (43%), Positives = 134/199 (67%), Gaps = 5/199 (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 ASRILQDQLGMFINFEEPK 238 A+ IL +QL F++ + + Sbjct: 181 AATILAEQLDAFVDLRDVR 199 >gi|119663524|emb|CAK22333.1| RNA polymerase alpha subunit [Lactobacillus graminis] Length = 160 Score = 189 bits (481), Expect = 4e-46, Method: Composition-based stats. Identities = 67/160 (41%), Positives = 109/160 (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 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 D+DKL++ + T+GSI+ ++++LA++I+ + L +F++ Sbjct: 121 RNDFDKLTLDVWTNGSISPREAISLAAKIMTEHLAIFVDL 160 >gi|154424779|emb|CAL18492.1| RNA polymerase alpha subunit [Streptococcus dysgalactiae subsp. equisimilis] Length = 179 Score = 189 bits (481), Expect = 4e-46, 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|150186909|emb|CAK30125.1| RNA polymerase alpha subunit [Streptococcus pneumoniae] Length = 171 Score = 189 bits (480), Expect = 5e-46, 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|150036742|emb|CAM98025.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. dextranicum] Length = 178 Score = 189 bits (479), Expect = 8e-46, 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|119672811|emb|CAK95486.1| RNA polymerase alpha subunit [Lactobacillus farciminis] Length = 172 Score = 189 bits (479), Expect = 8e-46, Method: Composition-based stats. Identities = 69/172 (40%), Positives = 116/172 (67%) 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +Y VE+ R G+ D+DKL++ I T+GSI ++++L+++IL + L F+N Sbjct: 121 NYQVENTRVGKRNDFDKLTIDIWTNGSIGPREAISLSAKILTEHLNSFVNLT 172 >gi|154424809|emb|CAL18507.1| RNA polymerase alpha subunit [Streptococcus iniae] Length = 174 Score = 188 bits (478), Expect = 9e-46, 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|154424771|emb|CAL18488.1| RNA polymerase alpha subunit [Streptococcus cristatus] Length = 181 Score = 188 bits (478), Expect = 9e-46, 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|150187152|emb|CAK30182.1| RNA polymerase alpha subunit [Streptococcus vestibularis ATCC 49124] Length = 190 Score = 188 bits (478), Expect = 9e-46, 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|119668305|emb|CAK95454.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. bulgaricus] Length = 173 Score = 188 bits (477), Expect = 1e-45, 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|119662331|emb|CAJ33154.1| RNA polymerase alpha subunit [Lactobacillus nagelii] Length = 175 Score = 188 bits (477), Expect = 1e-45, 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|154424783|emb|CAL18494.1| RNA polymerase alpha subunit [Streptococcus equi subsp. equi] Length = 171 Score = 187 bits (476), Expect = 2e-45, 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|154424823|emb|CAL18514.1| RNA polymerase alpha subunit [Streptococcus mutans] Length = 176 Score = 187 bits (476), Expect = 2e-45, Method: Composition-based stats. Identities = 76/175 (43%), Positives = 118/175 (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 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 Y VE AR G ++DKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 YQVEPARVGSNDNFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAK 175 >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 = 187 bits (476), Expect = 2e-45, Method: Composition-based stats. Identities = 78/311 (25%), Positives = 143/311 (45%), Gaps = 17/311 (5%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + T EPL RGF T+G ALRR L+SS+ A++I V E +I + ED+ Sbjct: 18 NDYETTFKIEPLERGFGSTIGTALRRTLLSSITSVVPFAIKIKDVDQEFDTISDIVEDVQ 77 Query: 84 DIILNIKGINLKMSGDSHKRVTIFK----RGPGVVTAGDIQTV--NDIEVLNPDHVICNL 137 I+LN+K I+L + + I++ +T+ D++ +IE++N D I Sbjct: 78 MIMLNVKNIHLVYDENIFEDNKIYRGVIETKNEKITSSDLKFPENPEIEIVNKDLEIATN 137 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPI-----------GLITIDALYSPIKKVSYT 186 + ME+ G GY+ + ++ + + ID+ +SP++KV Sbjct: 138 NGQKPFVMEVYFHVGRGYISFEDNKKLIEEKVALLNSTIKRGKFLAIDSDFSPVEKVKVK 197 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 V+ + ++L + I T G+I ++ ++ A++IL L + + + + Sbjct: 198 VQEINSSSLNIEEELEIEIKTKGTIDTKNILSQAAQILIAHLQVIGDVKNLDAVDVFEQK 257 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + + L+LSVRS N L+ + + D++ TE D++ + N G+KS+ EI Sbjct: 258 KQEKVEPSIHSVDITSLDLSVRSINALKRQGYTKLADILTLTEDDLVAVKNLGKKSVEEI 317 Query: 307 KGVLGTMGLFL 317 L + L Sbjct: 318 IQKLKEYNVTL 328 >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 = 187 bits (476), Expect = 2e-45, Method: Composition-based stats. Identities = 68/178 (38%), Positives = 115/178 (64%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 ++ +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL+ Sbjct: 1 MKATMTVAKNRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLT 60 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + I T+G+I ED++ L++R+L + L +F + E K + + + L + +EE Sbjct: 61 IEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKATEVMKETEKVNDEKVLDRTIEE 120 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 L+LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K L +GL L + Sbjct: 121 LDLSVRSYNCLKRAGINTIFDLTEKTEPEMMKVRNLGRKSLEEVKIKLADLGLGLKND 178 >gi|154424759|emb|CAL18482.1| RNA polymerase alpha subunit [Streptococcus anginosus] Length = 184 Score = 187 bits (475), Expect = 2e-45, Method: Composition-based stats. Identities = 73/181 (40%), Positives = 114/181 (62%) 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 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 AR G +DKL++ I TDG+I ED++ L++RIL + L +F N E K + Sbjct: 121 PARVGSNDGFDKLTLEIMTDGTIIPEDALGLSARILTEHLDLFTNLTEVAKSTDVMKETE 180 Query: 249 S 249 Sbjct: 181 K 181 >gi|154424723|emb|CAL18464.1| RNA polymerase alpha subunit [Streptococcus gallolyticus] Length = 175 Score = 187 bits (474), Expect = 2e-45, Method: Composition-based stats. Identities = 74/175 (42%), Positives = 118/175 (67%) 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 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + Sbjct: 121 KKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLT 175 >gi|154424787|emb|CAL18496.1| RNA polymerase alpha subunit [Streptococcus ferus] Length = 177 Score = 187 bits (474), Expect = 3e-45, 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|119662327|emb|CAJ33151.1| RNA polymerase alpha subunit [Lactobacillus lindneri] Length = 191 Score = 187 bits (474), Expect = 3e-45, Method: Composition-based stats. Identities = 78/191 (40%), Positives = 120/191 (62%), 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 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKV 183 +LNPD I + A + M +T +KG GYV A+ ++ ++ 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|154424791|emb|CAL18498.1| RNA polymerase alpha subunit [Streptococcus gallolyticus subsp. gallolyticus] Length = 172 Score = 187 bits (474), Expect = 3e-45, Method: Composition-based stats. Identities = 74/172 (43%), Positives = 116/172 (67%) 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + Sbjct: 121 NYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLT 172 >gi|119662359|emb|CAJ33168.1| RNA polymerase alpha subunit [Lactobacillus sanfranciscensis] Length = 186 Score = 187 bits (474), Expect = 3e-45, Method: Composition-based stats. Identities = 83/186 (44%), Positives = 130/186 (69%), 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 KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TEN 165 GP VTA DI T ++ +LNPD I + A + M +T +KG G+V A+ ++ ++ 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|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 = 186 bits (473), Expect = 3e-45, Method: Composition-based stats. Identities = 74/171 (43%), Positives = 116/171 (67%) 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 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 +Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + Sbjct: 121 NYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDL 171 >gi|154424785|emb|CAL18495.1| RNA polymerase alpha subunit [Streptococcus ferus] Length = 175 Score = 186 bits (472), Expect = 4e-45, Method: Composition-based stats. Identities = 76/175 (43%), Positives = 120/175 (68%) 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 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 KKV+Y VE AR G +YDKL++ I T+G+I ED++ L++R+L + L +F + Sbjct: 121 KKVNYQVEPARVGSKDNYDKLTIEIMTNGTIIPEDALGLSARVLMEHLNLFTDLT 175 >gi|150036720|emb|CAM98251.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. cremoris] Length = 176 Score = 186 bits (472), Expect = 5e-45, Method: Composition-based stats. Identities = 74/176 (42%), Positives = 113/176 (64%), Gaps = 2/176 (1%) Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 VQIDGV+HE S++ GV ED+T IILN+K + L + D + + I +GP VTA D+Q Sbjct: 1 NTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIESDDERSLEIDIQGPADVTAADLQ 60 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYS 178 D+EVLNPD I + + M +T KG GY A ++ + PIG++ +D++Y+ Sbjct: 61 GGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYTSADENKKLRDEMPIGVLAVDSIYT 120 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L ++IL + LG+F++ Sbjct: 121 PIERVNYQVENTRIGARDDYDKLTFDIWTNGSIKPSDALSLGAKILAEHLGLFMDI 176 >gi|154424735|emb|CAL18470.1| RNA polymerase alpha subunit [Streptococcus pasteurianus] Length = 168 Score = 186 bits (472), Expect = 5e-45, 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|154424811|emb|CAL18508.1| RNA polymerase alpha subunit [Streptococcus intermedius] Length = 168 Score = 185 bits (471), Expect = 6e-45, 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|119668329|emb|CAK95464.1| RNA polymerase alpha subunit [Lactobacillus iners] Length = 188 Score = 185 bits (470), Expect = 8e-45, Method: Composition-based stats. Identities = 81/186 (43%), Positives = 123/186 (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 INVKSL 250 I + Sbjct: 182 IEKEDK 187 >gi|150187130|emb|CAK30177.1| RNA polymerase alpha subunit [Streptococcus macacae NCTC 11558] Length = 178 Score = 185 bits (470), Expect = 8e-45, 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|154424835|emb|CAL18520.1| RNA polymerase alpha subunit [Streptococcus phocae] Length = 153 Score = 185 bits (470), Expect = 9e-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|23013214|ref|ZP_00053138.1| COG0202: DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Magnetospirillum magnetotacticum MS-1] Length = 159 Score = 185 bits (469), Expect = 1e-44, Method: Composition-based stats. Identities = 99/153 (64%), Positives = 125/153 (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 KVENTRVGQVTDYDKLNMTVETNGAVTPDDAVALAARILQDQLQLFINFEEPTAVVEEE- 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|150036752|emb|CAM98261.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis] Length = 187 Score = 185 bits (469), Expect = 1e-44, 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|154424789|emb|CAL18497.1| RNA polymerase alpha subunit [Streptococcus gallolyticus subsp. gallolyticus] Length = 169 Score = 184 bits (468), Expect = 2e-44, 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|154424825|emb|CAL18515.1| RNA polymerase alpha subunit [Streptococcus parasanguinis] Length = 167 Score = 184 bits (467), Expect = 2e-44, 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|270265493|emb|CBI68383.1| RNA polymerase alpha-subunit [Vibrio tapetis] Length = 200 Score = 184 bits (467), Expect = 2e-44, Method: Composition-based stats. Identities = 86/203 (42%), Positives = 129/203 (63%), Gaps = 7/203 (3%) Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAKHH---RTENDPIG 169 V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA + 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++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 121 AFVDLRDIRVPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 177 Query: 290 ADMLRMANFGRKSLVEIKGVLGT 312 ++L+ N G KSL EIK VL + Sbjct: 178 VELLKTPNLGNKSLTEIKDVLAS 200 >gi|23012374|ref|ZP_00052476.1| COG0202: DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Magnetospirillum magnetotacticum MS-1] Length = 146 Score = 184 bits (467), Expect = 2e-44, 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|154424775|emb|CAL18490.1| RNA polymerase alpha subunit [Streptococcus dysgalactiae subsp. dysgalactiae] Length = 169 Score = 183 bits (465), Expect = 3e-44, 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|150036840|emb|CAM98285.1| DNA-directed RNA polymerase alpha chain [Leuconostoc argentinum KCTC 3773] Length = 190 Score = 183 bits (465), Expect = 3e-44, 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|154424869|emb|CAL18537.1| RNA polymerase alpha subunit [Streptococcus uberis] Length = 170 Score = 183 bits (464), Expect = 4e-44, 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|300379501|gb|ADK08381.1| DNA-directed RNA polymerase alpha subunit [Lactobacillus reuteri] Length = 166 Score = 182 bits (463), Expect = 5e-44, Method: Composition-based stats. Identities = 77/166 (46%), Positives = 119/166 (71%), Gaps = 2/166 (1%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAA+T++QIDGVLHE S++KGV ED+T IILN+K ++LK+ + K + + +GP VTA Sbjct: 1 GAAVTSMQIDGVLHEFSTVKGVTEDVTQIILNLKKVSLKIDSEDQKDLELDVKGPAEVTA 60 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITID 174 DIQ N++ +LNPD I + A + ++LT KG GY+ A ++ ++ IG++ ID Sbjct: 61 SDIQGDNEVTILNPDLHIATVADGAELHIKLTADKGRGYLSANDNKARMDDLAIGVLPID 120 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 ++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T ++V+L Sbjct: 121 SIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLTPTEAVSLG 166 >gi|119662293|emb|CAJ33133.1| RNA polymerase alpha subunit [Lactobacillus coryniformis subsp. torquens KCTC 3535] Length = 161 Score = 182 bits (463), Expect = 6e-44, Method: Composition-based stats. Identities = 62/161 (38%), Positives = 103/161 (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 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 +GSI+ ++++LA++IL + L +F+N + K + + + Sbjct: 121 NGSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKE 161 >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 = 182 bits (462), Expect = 6e-44, Method: Composition-based stats. Identities = 77/166 (46%), Positives = 119/166 (71%), Gaps = 2/166 (1%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAAIT++QIDGVLHE S+++GV ED+T IILN+K ++LK+ + K + + +GP VTA Sbjct: 1 GAAITSMQIDGVLHEFSTVEGVTEDVTQIILNLKKVSLKLDSEDQKNLELDVKGPAEVTA 60 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITID 174 DIQ N++ +LNPD I + A + ++LT KG GY+ A ++ ++ IG++ ID Sbjct: 61 SDIQGDNEVTILNPDLHIATVADGAELHIKLTADKGRGYLSANDNKARMDDLAIGVLPID 120 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 ++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T ++V+L Sbjct: 121 SIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLTPTEAVSLG 166 >gi|117575081|emb|CAJ84780.1| RNA polymerase alpha subunit [Lactobacillus amylophilus] Length = 159 Score = 182 bits (462), Expect = 7e-44, Method: Composition-based stats. Identities = 67/158 (42%), Positives = 105/158 (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 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 G+ DYDKL+M + TDGSIT D+++ ++IL + L Sbjct: 121 VGRNNDYDKLTMEVWTDGSITPNDALSFGAKILTEHLN 158 >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 = 182 bits (461), Expect = 9e-44, Method: Composition-based stats. Identities = 78/166 (46%), Positives = 119/166 (71%), Gaps = 2/166 (1%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAAIT++QIDGVLHE S++KGV ED+T IILN+K ++LK+ + K + + +GP VTA Sbjct: 1 GAAITSMQIDGVLHEFSTVKGVTEDVTQIILNLKKVSLKLDSEDQKNLELDVKGPAEVTA 60 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITID 174 DIQ N++ +LNPD I + A + ++LT KG GY+ A ++ ++ IG++ ID Sbjct: 61 SDIQGDNEVTILNPDLHIATVADGAELHIKLTADKGRGYLSANDNKARMDDLAIGVLPID 120 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 ++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T ++V+L Sbjct: 121 SIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLTPTEAVSLG 166 >gi|119663528|emb|CAK22335.1| RNA polymerase alpha subunit [Lactobacillus malefermentans] Length = 175 Score = 182 bits (461), Expect = 9e-44, 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|161511741|emb|CAP16881.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 179 Score = 182 bits (461), Expect = 1e-43, Method: Composition-based stats. Identities = 69/177 (38%), Positives = 112/177 (63%), Gaps = 2/177 (1%) Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 +I+GV ED+T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ Sbjct: 1 TIEGVVEDVTQIILNLKKVSLKVESDEEKSLEINVMGPANVTAGDIVGDGDVTILNPELP 60 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAR 191 IC + LT KG GY A ++ + PIG++ ID++Y+PI++V+Y VE+ R Sbjct: 61 ICTVAEGTTFHAVLTAEKGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTR 120 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 GQ DYDKL++ + TDGS+ ++++L+++IL + L +F+N ++ K+ + + K Sbjct: 121 VGQRDDYDKLTLDVWTDGSLAASEAISLSAKILTEHLTIFVNLDDQAKDTEIMVEKK 177 >gi|150036826|emb|CAM98280.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gasicomitatum] Length = 186 Score = 182 bits (461), Expect = 1e-43, 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|150187014|emb|CAK30151.1| RNA polymerase alpha subunit [Streptococcus sinensis] Length = 171 Score = 182 bits (461), Expect = 1e-43, Method: Composition-based stats. Identities = 73/170 (42%), Positives = 113/170 (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 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L Sbjct: 121 VTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLN 170 >gi|154424807|emb|CAL18506.1| RNA polymerase alpha subunit [Streptococcus lutetiensis] Length = 167 Score = 181 bits (459), Expect = 1e-43, 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|269929683|gb|ACZ53737.1| RNA polymerase alpha subunit [Lactobacillus reuteri] Length = 166 Score = 181 bits (459), Expect = 2e-43, Method: Composition-based stats. Identities = 77/166 (46%), Positives = 120/166 (72%), Gaps = 2/166 (1%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAAIT++QIDGVLHE S+++GV ED+T IILN+K ++LK+ ++ K + + +GP VTA Sbjct: 1 GAAITSMQIDGVLHEFSTVEGVTEDVTQIILNLKKVSLKLDSENQKNLELDVKGPAEVTA 60 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITID 174 DIQ N++ +LNPD I + A + ++LT KG GY+ A ++ ++ IG++ ID Sbjct: 61 SDIQGDNEVTILNPDLHIATVADGAELHIKLTADKGRGYLSANDNKARMDDLAIGVLPID 120 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 ++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T ++V+L Sbjct: 121 SIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLTPTEAVSLG 166 >gi|119668351|emb|CAK95512.1| RNA polymerase alpha subunit [Lactobacillus pentosus] Length = 160 Score = 180 bits (458), Expect = 2e-43, Method: Composition-based stats. Identities = 73/160 (45%), Positives = 110/160 (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 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVE 188 D IC + A M +T + G GYV A+ ++ ++ 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|150187149|emb|CAK30181.1| RNA polymerase alpha subunit [Streptococcus ratti] Length = 178 Score = 180 bits (457), Expect = 2e-43, 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|154424799|emb|CAL18502.1| RNA polymerase alpha subunit [Streptococcus hyointestinalis] Length = 167 Score = 180 bits (457), Expect = 2e-43, 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|269929829|gb|ACZ53810.1| RNA polymerase alpha subunit [Lactobacillus reuteri mlc3] Length = 166 Score = 180 bits (457), Expect = 3e-43, Method: Composition-based stats. Identities = 77/166 (46%), Positives = 119/166 (71%), Gaps = 2/166 (1%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAAIT++QIDGVLHE S+++GV ED+T IILN+K ++LK+ + K + + +GP VTA Sbjct: 1 GAAITSMQIDGVLHEFSTVEGVTEDVTQIILNLKKVSLKLDSEDQKNLELDVKGPAEVTA 60 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITID 174 DIQ N++ +LNPD I + A + ++LT KG GY+ A ++ ++ IG++ ID Sbjct: 61 SDIQGDNEVTILNPDLHITTVADGAELHIKLTADKGRGYLSANDNKARMDDLAIGVLPID 120 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 ++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T ++V+L Sbjct: 121 SIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLTPTEAVSLG 166 >gi|154424815|emb|CAL18510.1| RNA polymerase alpha subunit [Streptococcus minor] Length = 174 Score = 180 bits (457), Expect = 3e-43, Method: Composition-based stats. Identities = 68/174 (39%), Positives = 111/174 (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 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 +DKL++ I T+G+ ED++ L++RIL + LG+F + + K + + Sbjct: 121 NDGFDKLTLEIMTNGTTNPEDALGLSARILMEHLGLFTDLTDVAKSAEVMKEAE 174 >gi|161511737|emb|CAP16879.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 171 Score = 180 bits (457), Expect = 3e-43, 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|154424777|emb|CAL18491.1| RNA polymerase alpha subunit [Streptococcus dysgalactiae subsp. dysgalactiae] Length = 185 Score = 180 bits (456), Expect = 4e-43, 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|150187010|emb|CAK30150.1| RNA polymerase alpha subunit [Streptococcus pyogenes] Length = 184 Score = 179 bits (454), Expect = 5e-43, Method: Composition-based stats. Identities = 68/182 (37%), Positives = 113/182 (62%) Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 +I GV ED+ IILN+KG+ +K + K + + GP VTAGDI T +DIE++NPDH Sbjct: 1 TIPGVREDVMQIILNVKGLAVKSYVEDEKIIELEVEGPAEVTAGDILTDSDIELVNPDHY 60 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 + + +R +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G Sbjct: 61 LFTIAEGHSLRATMTVAKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVG 120 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 +DKL++ I T+G+I ED++ L++R+L + L +F + E K + + + Sbjct: 121 SNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKATEVMKETEKVNDE 180 Query: 254 PA 255 Sbjct: 181 KV 182 >gi|154424767|emb|CAL18486.1| RNA polymerase alpha subunit [Streptococcus constellatus subsp. constellatus] Length = 171 Score = 179 bits (454), Expect = 6e-43, 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|119662379|emb|CAJ33178.1| RNA polymerase alpha subunit [Lactobacillus pentosus] Length = 158 Score = 179 bits (454), Expect = 6e-43, Method: Composition-based stats. Identities = 71/157 (45%), Positives = 107/157 (68%), Gaps = 2/157 (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 DAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 A M +T + G GYV A+ ++ ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D Sbjct: 62 GAHFHMRMTANTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNYQVETTRVGQRDD 121 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 +DKL++ + T+GSIT ++++L+++IL D L +F+N Sbjct: 122 FDKLTLDVWTNGSITPSEAISLSAKILTDHLSIFVNL 158 >gi|150186916|emb|CAK30127.1| RNA polymerase alpha subunit [Streptococcus oligofermentans] Length = 170 Score = 178 bits (452), Expect = 9e-43, 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|150036738|emb|CAM98024.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. dextranicum] Length = 171 Score = 178 bits (452), Expect = 1e-42, 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|154424819|emb|CAL18512.1| RNA polymerase alpha subunit [Streptococcus mitis] Length = 171 Score = 178 bits (452), Expect = 1e-42, 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|119662807|emb|CAJ33195.1| RNA polymerase alpha subunit [Lactobacillus pantheris] Length = 165 Score = 178 bits (452), Expect = 1e-42, 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|119662401|emb|CAJ33190.1| RNA polymerase alpha subunit [Lactobacillus frumenti] Length = 162 Score = 178 bits (452), Expect = 1e-42, Method: Composition-based stats. Identities = 70/162 (43%), Positives = 111/162 (68%), 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 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVES 189 I + A + +++T KG GY+ A ++ ++ 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|150036780|emb|CAM98033.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. cremoris] Length = 153 Score = 178 bits (452), Expect = 1e-42, 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|154424737|emb|CAL18471.1| RNA polymerase alpha subunit [Streptococcus oligofermentans] Length = 168 Score = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 68/167 (40%), Positives = 106/167 (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 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 G +DKL++ I T+G+I ED++ L++RIL + L +F + E Sbjct: 121 VGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLNLFTDLTEVA 167 >gi|119662853|emb|CAJ33219.1| RNA polymerase alpha subunit [Lactobacillus farciminis KCTC 3681] Length = 164 Score = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 66/163 (40%), Positives = 112/163 (68%) 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 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 V+Y VE+ R G+ D+DKL++ I T+GSI ++++L+++IL Sbjct: 122 VNYQVENTRVGKRNDFDKLTIDIWTNGSIGPREAISLSAKILT 164 >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 = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 65/223 (29%), Positives = 100/223 (44%), Gaps = 8/223 (3%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV--QIDGVLH 70 IE + E I P G A+TLG A+RR L+ L GA IT + + H Sbjct: 14 RCIEPK-VDNERSYYGRFIISPPKIGQANTLGIAMRRALLGELEGACITPAGSPPERINH 72 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDS-HKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 E ++I GV E + DI++N+K I LK + S + I GP VTA DI + ++ Sbjct: 73 EYTAIAGVRESVHDILMNLKEIVLKTNPFSAAQEAHIPIVGPRKVTAQDIVLPPSVGTMD 132 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P I + + L V +G G+ G + DA++ PI+ +Y++ Sbjct: 133 PTQHIATITRKIHSSIGLRVERGCGFR---KRNMIEYQKGSLPPDAVFMPIRHANYSIHR 189 Query: 190 AR-EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 G + + L + TDGS T +++ ASR L + F Sbjct: 190 LGSHGGGIMKEMLLLEARTDGSPTPREAIYEASRNLANLFSPF 232 >gi|161511733|emb|CAP16877.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 180 Score = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 67/176 (38%), Positives = 110/176 (62%), Gaps = 2/176 (1%) Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 +I+GV ED+T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ Sbjct: 1 TIEGVVEDVTQIILNLKKVSLKVESDEEKSLEINVMGPANVTAGDIVGDGDVTILNPELP 60 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAR 191 IC + LT KG GY A ++ + PIG++ ID++Y+PI++V+Y VE+ R Sbjct: 61 ICTVAEGTTFHAVLTAEKGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTR 120 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 GQ DYDKL++ + TD S+ ++++L+++IL + L +F+N ++ K+ + + Sbjct: 121 VGQRDDYDKLTLDVWTDXSLAASEAISLSAKILTEHLTIFVNLDDQVKDTEIMVET 176 >gi|42906|emb|CAA23646.1| unnamed protein product [Escherichia coli] Length = 159 Score = 177 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 72/161 (44%), Positives = 104/161 (64%), Gaps = 4/161 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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-DVDAVVRMELTVSKGHGYVPAKHH 161 D+E++ P HVIC+L D +A + M + V +G GYVPA Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASTR 158 >gi|311990456|gb|ADQ26358.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii] Length = 185 Score = 177 bits (450), Expect = 2e-42, 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|117575083|emb|CAJ84781.1| RNA polymerase alpha subunit [Lactobacillus amylophilus] Length = 171 Score = 177 bits (449), Expect = 2e-42, Method: Composition-based stats. Identities = 65/170 (38%), Positives = 107/170 (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 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 KL+M + TDGSIT D+++ ++IL + L +F+N + + + Sbjct: 121 KLTMEVWTDGSITPNDALSFGAKILTEHLNVFMNTNLETEFTDVMVEKED 170 >gi|150187052|emb|CAK30160.1| RNA polymerase alpha subunit [Streptococcus constellatus subsp. pharyngis] Length = 150 Score = 177 bits (448), Expect = 3e-42, Method: Composition-based stats. Identities = 69/149 (46%), Positives = 106/149 (71%) 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 NDPIGLITIDALYSPIKKVSYTVESAREG 193 + P+G + +D++Y+P+KKV+Y VE AR G Sbjct: 121 DSPVGTLAVDSIYTPVKKVNYQVEPARVG 149 >gi|154424763|emb|CAL18484.1| RNA polymerase alpha subunit [Streptococcus canis] Length = 173 Score = 176 bits (447), Expect = 4e-42, 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|150036718|emb|CAM98022.1| DNA-directed RNA polymerase alpha chain [Fructobacillus durionis] Length = 178 Score = 176 bits (446), Expect = 5e-42, 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|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 = 176 bits (446), Expect = 5e-42, Method: Composition-based stats. Identities = 70/156 (44%), Positives = 100/156 (64%), Gaps = 4/156 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPN----ITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILNIKGI +K + K + + GP +TAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKIIELDVEGPAEITAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 +NPDH + + + ++ +TV+ G GYVPA ++ Sbjct: 119 VNPDHYLFTIGEGSSLKATMTVNSGRGYVPADENKK 154 >gi|119662345|emb|CAJ33161.1| RNA polymerase alpha subunit [Lactobacillus pontis] Length = 160 Score = 176 bits (446), Expect = 5e-42, Method: Composition-based stats. Identities = 66/160 (41%), Positives = 110/160 (68%), Gaps = 2/160 (1%) Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+T IILN+K ++LK++ + K + + +GP VTA DIQ ++ +LNPD I Sbjct: 1 GVTEDVTQIILNLKKVSLKINSEDQKDLELDVKGPAEVTAADIQGDGEVTILNPDLHIAT 60 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 + A + +++T KG GY+ A ++ E+ IG++ ID++Y+PI++V+YTVE+AR GQ Sbjct: 61 VADGAELHIKMTADKGRGYLSANDNKARMEDLAIGVLPIDSIYTPIERVNYTVENARVGQ 120 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 DYDKL++ + TDGS+T ++V+L ++IL + L +F++ Sbjct: 121 RNDYDKLTLDVWTDGSLTPTEAVSLGAKILTEHLAIFVDL 160 >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|162751067|gb|ABY19888.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 175 bits (445), Expect = 7e-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|254755535|ref|ZP_05207569.1| DNA-directed RNA polymerase subunit alpha [Bacillus anthracis str. Vollum] Length = 150 Score = 175 bits (445), Expect = 7e-42, Method: Composition-based stats. Identities = 56/149 (37%), Positives = 93/149 (62%) 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 MLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 M+++ N GRKSL E+K L +GL L + Sbjct: 121 MMKVRNLGRKSLEEVKHKLEELGLGLRKD 149 >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 = 175 bits (445), Expect = 7e-42, Method: Composition-based stats. Identities = 79/298 (26%), Positives = 130/298 (43%), 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 + E + + + Sbjct: 194 GTFESLELIVYTNLAVDPVEVIRQAANFLSEEFR--KVAEAKEAAAGEVVVEEQAISDEK 251 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 L VE L LS L NI + DL+ E + + G L EI+ L Sbjct: 252 LDASVEMLNLSRAVLTHLEKANINTIRDLVDVLEHN-ESIPGIGAVRLEEIRNKLAAY 308 >gi|119662839|emb|CAJ33212.1| RNA polymerase alpha subunit [Lactobacillus acidophilus] Length = 151 Score = 175 bits (444), Expect = 8e-42, 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|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|162751111|gb|ABY19910.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 175 bits (444), Expect = 9e-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 AIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSMRAVMTVKKG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYS 178 +GYVPA ++ + PIG I +D++Y+ Sbjct: 121 YGYVPADENKVDGWPIGTIAVDSIYT 146 >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 = 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 YGYVPADENKVDGAPIGTIAVDSIYT 146 >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|162751026|gb|ABY19868.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 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|162751022|gb|ABY19866.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 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|291533601|emb|CBL06714.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Megamonas hypermegale ART12/1] Length = 179 Score = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 71/157 (45%), Positives = 101/157 (64%), Gaps = 2/157 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E+ + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDG Sbjct: 3 EIEKP-KIEIVEIS-EDNRYGKFVCEPLERGYGTTLGNSLRRILLSSLEGAAITSIKIDG 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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 LN D I +D ++ME+ V +G GY PA ++ + Sbjct: 121 LNKDLHIATVDETGSLKMEMVVERGRGYTPADKNKNQ 157 >gi|119662843|emb|CAJ33214.1| RNA polymerase alpha subunit [Lactobacillus bifermentans] Length = 142 Score = 174 bits (442), Expect = 1e-41, 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|162751121|gb|ABY19915.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 174 bits (442), Expect = 2e-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|162751167|gb|ABY19938.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] Length = 146 Score = 174 bits (442), Expect = 2e-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|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|162751051|gb|ABY19880.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 173 bits (440), Expect = 3e-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|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 = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 75/175 (42%), Positives = 111/175 (63%), Gaps = 8/175 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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---HHRTENDPIGLI 171 D+E++NP+HVIC+L +A + M + V +G GYVPA H + PIG + Sbjct: 118 HDGDVEIVNPEHVICHLTSDNAAIAMRIKVERGRGYVPASARIHTEEDERPIGRL 172 >gi|162751135|gb|ABY19922.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 173 bits (439), Expect = 3e-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|162751171|gb|ABY19940.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 173 bits (439), Expect = 3e-41, 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|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 = 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++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|119668277|emb|CAK95449.1| RNA polymerase alpha subunit [Lactobacillus acidophilus] Length = 150 Score = 172 bits (437), Expect = 6e-41, 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|154424801|emb|CAL18503.1| RNA polymerase alpha subunit [Streptococcus hyointestinalis] Length = 162 Score = 172 bits (437), Expect = 6e-41, 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|150187031|emb|CAK30155.1| RNA polymerase alpha subunit [Streptococcus urinalis 2285-97] Length = 169 Score = 172 bits (436), Expect = 7e-41, Method: Composition-based stats. Identities = 65/169 (38%), Positives = 108/169 (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 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 KL++ I T+G+I ED++ L++R+L + L +F + E K + + Sbjct: 121 KLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKATEVMKETE 169 >gi|162751006|gb|ABY19858.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 172 bits (436), Expect = 7e-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|150187084|emb|CAK30167.1| RNA polymerase alpha subunit [Streptococcus hyovaginalis] Length = 165 Score = 172 bits (436), Expect = 8e-41, 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|119662399|emb|CAJ33189.1| RNA polymerase alpha subunit [Lactobacillus equi] Length = 170 Score = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 62/170 (36%), Positives = 104/170 (61%), Gaps = 2/170 (1%) Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 ILN+K + LKM + + + I GP VTAGDI+ +D+EVLN D I + + + Sbjct: 1 ILNLKKVALKMDSEESQTLEIDVVGPLEVTAGDIKGPSDVEVLNDDLYIATVAEGHSLHV 60 Query: 146 ELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 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|154424725|emb|CAL18465.1| RNA polymerase alpha subunit [Streptococcus gallolyticus] Length = 158 Score = 171 bits (433), Expect = 2e-40, 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|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 = 170 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 74/169 (43%), Positives = 114/169 (67%), Gaps = 3/169 (1%) Query: 163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 + PIG + +DA +SP+++++Y+VESAR Q D DKL + ++T+G++ E+++ AS Sbjct: 8 DDERPIGRLLLDASFSPVERIAYSVESARVEQRTDLDKLIIDMETNGTLDREEAIRRAST 67 Query: 223 ILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMG 282 IL +QL F++ + + + F+P LL+ V++LEL+VRS NCL+ E I Y+G Sbjct: 68 ILAEQLDAFVDLRDVTEPE---EKEEKPEFDPILLRPVDDLELTVRSANCLKAEQIQYIG 124 Query: 283 DLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 DL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP S+ E Sbjct: 125 DLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASLAE 173 >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 = 170 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 75/315 (23%), Positives = 139/315 (44%), Gaps = 21/315 (6%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 Q + ++ + L RGF +TL ALRR+L+S++ G A V+I+GV HE ++++ V E Sbjct: 17 SQNNSYKKVLKIKGLERGFGNTLAVALRRILLSNITGIAPFCVRIEGVEHEFTALEKVSE 76 Query: 81 DLTDIILNIKGINLKMSGDSHK-----RVTIFKRGPGVVTAGDIQTV--NDIEVLNPDHV 133 D+ I+ N+K + L D K ++++ +T+ + +EV N D Sbjct: 77 DIVTILSNLKKVVLNYDEDYVKDNQIIKLSLNANEDNRITSNHLTVTNAPRVEVQNKDVE 136 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRT-------------ENDPIGLITIDALYSPI 180 I L V+++E+ + G GYV + ++ I +D+++SP+ Sbjct: 137 IATLSKPGVLKLEMFLRAGRGYVDFEDNKKFIEEKEKELKELSSLSKGAFIAMDSVFSPV 196 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 V++ V + ++L + ++T +T E ++ LA +IL + + + Sbjct: 197 VNVAWKVTELNTASLKIEEQLELELETKLGVTPESAIKLACKILVAHFQTIGDLTDLDSD 256 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + K ++ L LS+RS N L I + +L + + N G Sbjct: 257 -EIFQSEKQSLEKEEDDMEIRLLNLSMRSQNALAKSGIKTLNELASYPIEKLKEIKNLGE 315 Query: 301 KSLVEIKGVLGTMGL 315 KS EI L G Sbjct: 316 KSREEIIRKLNEYGK 330 >gi|162751155|gb|ABY19932.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] Length = 146 Score = 170 bits (432), Expect = 2e-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|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 = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 64/261 (24%), Positives = 114/261 (43%), Gaps = 12/261 (4%) Query: 6 WQELI------KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 W EL + +E + PL +G A+TL A+R+ L+ ++G Sbjct: 3 WNELKTAESSPRWKCLESRTDSKRSH-YGRFSISPLFKGQANTLAIAIRKTLLQEVKGTY 61 Query: 60 ITAVQID-GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGD 118 IT + +LHE SSI G+ E + DI++N+K I L+ +I GP VTA D Sbjct: 62 ITYARFQKNILHEYSSIIGIKESVHDILMNLKQIVLRSELYGIHEASICTVGPKNVTAQD 121 Query: 119 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYS 178 I + I++++ I +L + L + K Y + ++ ID + Sbjct: 122 IILPSSIQIIDDTQHIASLTKRIPFNVTLKIEKKKRYTIENMKQPKD---IFFPIDGVSL 178 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P++ V++++ S + + + L I T+G +T +++ A L D + + E+ Sbjct: 179 PVQNVNFSIHSYKSSDNI-QEMLIFEIWTNGGLTPRETIYEACWSLLDLIIPLLCVEQNI 237 Query: 239 KEVKEDINVKSLPFNPALLKK 259 K ++ N SL KK Sbjct: 238 KNSQKKPNPLSLVTKDRNKKK 258 >gi|154424733|emb|CAL18469.1| RNA polymerase alpha subunit [Streptococcus pasteurianus] Length = 173 Score = 169 bits (429), Expect = 5e-40, 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|150186957|emb|CAK30136.1| RNA polymerase alpha subunit [Streptococcus hyointestinalis] Length = 171 Score = 169 bits (429), Expect = 5e-40, 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|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 = 169 bits (428), Expect = 6e-40, 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|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 = 169 bits (428), Expect = 6e-40, Method: Composition-based stats. Identities = 72/162 (44%), Positives = 105/162 (64%), Gaps = 5/162 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQINSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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-AVVRMELTVSKGHGYVPAKHH 161 D+E+ NP+HVIC+L D A + M + V +G GYVPA Sbjct: 118 HDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASAR 159 >gi|161511735|emb|CAP16878.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 161 Score = 168 bits (427), Expect = 7e-40, 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|154424741|emb|CAL18473.1| RNA polymerase alpha subunit [Streptococcus thermophilus] Length = 155 Score = 168 bits (426), Expect = 1e-39, 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|154424849|emb|CAL18527.1| RNA polymerase alpha subunit [Streptococcus ratti] Length = 170 Score = 167 bits (424), Expect = 2e-39, 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|161511739|emb|CAP16880.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 166 Score = 167 bits (424), Expect = 2e-39, 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|207092984|ref|ZP_03240771.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori HPKX_438_AG0C1] Length = 235 Score = 167 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 72/234 (30%), Positives = 122/234 (52%), Gaps = 4/234 (1%) Query: 106 IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 +GP + A D+ + + IE++NP+ + ++ DA + L + KG GYVP++ + E Sbjct: 2 YSFKGPMELRARDLNSEH-IEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSE-NTREL 59 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 P G + +D ++PIKKV Y +E+ +Y+K+ I+TDG I + A +++ Sbjct: 60 MPEGYMPLDGSFTPIKKVVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMS 119 Query: 226 DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLI 285 QLG+F E P ++ + L K+E + LS R NCL I Y+G+L+ Sbjct: 120 KQLGVFG--ERPIANMEYSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELV 177 Query: 286 QRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 +E ++ + N G+KS EI L +G +G L ES+++ +K EDK Sbjct: 178 LMSEEELKGVKNMGKKSYDEIAEKLNDLGYPVGTELSLEQRESLKKRLEKLEDK 231 >gi|154424841|emb|CAL18523.1| RNA polymerase alpha subunit [Streptococcus pneumoniae] Length = 150 Score = 167 bits (423), Expect = 2e-39, 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|289524820|emb|CBJ94466.1| alpha subunit of RNA polymerase [Vibrio sp. C15.18] Length = 173 Score = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 75/176 (42%), Positives = 113/176 (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++ + + + F+P LL+ V+ Sbjct: 61 VIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE---EKEEKPEFDPILLRPVD 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|119663526|emb|CAK22334.1| RNA polymerase alpha subunit [Lactobacillus paracollinoides] Length = 154 Score = 167 bits (422), Expect = 3e-39, 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|165932201|emb|CAP66258.1| RNA polymerase alpha subunit [Lactobacillus oligofermentans] Length = 151 Score = 166 bits (421), Expect = 4e-39, Method: Composition-based stats. Identities = 69/151 (45%), Positives = 104/151 (68%), 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 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTV 187 PD + + + M++T + G GYV A +++ 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|154424843|emb|CAL18524.1| RNA polymerase alpha subunit [Streptococcus porcinus] Length = 148 Score = 166 bits (421), Expect = 4e-39, 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|269991336|emb|CAX12520.1| DNA-directed RNA polymerase alpha chain [Fucus vesiculosus] Length = 368 Score = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 77/347 (22%), Positives = 146/347 (42%), 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 LTDIILNIKGINLKMSGDSHKRVT--IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 L +IILN+K I + S + + 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 ESLIEIEVKIEAGKSYILAKDQKLEGA-LDFIPIDSNFAPVLKVNWYIISLPQDGESINE 194 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA---- 255 +L + I T+G++ ++ A ++ L E + E + + Sbjct: 195 ELHLEIYTNGTLLPHQALLQARTMIGYMLSPISTIEFSCLDTYEKEEIHDTNHIKSLTYI 254 Query: 256 -------------------------------------------------LLKKVEELELS 266 + ++ L LS Sbjct: 255 TDPISRDQNKTVLRSNLIKNKSKFEKINLDKINQVSIDEQKLIKNIVDLEYESLKNLGLS 314 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 R N L NI ++ DLI + ++ + G KS+ EIK L Sbjct: 315 NRIINALNKVNINFISDLIHYPSSSLINIVGLGPKSVEEIKNKLNQF 361 >gi|154424729|emb|CAL18467.1| RNA polymerase alpha subunit [Streptococcus gallolyticus] Length = 167 Score = 166 bits (420), Expect = 5e-39, 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|150186949|emb|CAK30134.1| RNA polymerase alpha subunit [Streptococcus dysgalactiae subsp. dysgalactiae] Length = 161 Score = 164 bits (416), Expect = 1e-38, 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|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 = 163 bits (413), Expect = 3e-38, Method: Composition-based stats. Identities = 84/230 (36%), Positives = 131/230 (56%), Gaps = 6/230 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +K + + + + L EPL G+ T+GN LRRVL+SSL G AI++V+I+GV Sbjct: 3 FLKFKQSKNLRVLKLTPEEGLFKIEPLFPGWGVTIGNTLRRVLLSSLEGYAISSVKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNI-----KGINLKMSGDSHKRVTIFKRGPGVVTAGDI-QTV 122 HE S+IKGV ED+T+IILN+ K K + +S 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 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 V Y +++ + +Y+ L + I TDGSI D++ AS IL L MFI Sbjct: 183 VKYKIDNCSINKNSNYESLLLEIKTDGSINPRDALTNASNILIQHLKMFI 232 >gi|119662809|emb|CAJ33196.1| RNA polymerase alpha subunit [Lactobacillus perolens] Length = 138 Score = 163 bits (413), Expect = 3e-38, 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|119672803|emb|CAK95517.1| RNA polymerase alpha subunit [Lactobacillus alimentarius] Length = 149 Score = 163 bits (413), Expect = 3e-38, 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|150036750|emb|CAM98028.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gelidum KCTC 3527] Length = 153 Score = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 62/153 (40%), Positives = 96/153 (62%), Gaps = 2/153 (1%) Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 ++ GV ED+T IILN+K + L + D + + + +GP VTA D+Q D+EVLNPD Sbjct: 1 TVDGVVEDVTQIILNLKKVVLAIDSDEERSLEVDIQGPADVTAADLQAGADVEVLNPDLH 60 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAR 191 I + + M +T KG GY A ++ + PIG++ +D++Y+PI++V+Y VE+ R Sbjct: 61 IATVAAGKSLHMTITAFKGRGYSSADENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTR 120 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 G DYDKL+ I T+GSI D+++L S+IL Sbjct: 121 VGSRDDYDKLTFDIWTNGSIKPSDALSLGSKIL 153 >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 = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 84/230 (36%), Positives = 131/230 (56%), Gaps = 6/230 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +K + + + + L EPL G+ T+GN LRRVL+SSL G AI++V+I+GV Sbjct: 3 FLKFKQSKNLRVLKLTPEEGLFKIEPLFPGWGVTIGNTLRRVLLSSLEGYAISSVKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNI-----KGINLKMSGDSHKRVTIFKRGPGVVTAGDI-QTV 122 HE S+IKGV ED+T+IILN+ K K + +S 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 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 V Y +++ + +Y+ L + I TDGSI D++ AS IL L MFI Sbjct: 183 VKYKIDNCSINKNSNYESLLLEIKTDGSINPRDALTNASNILIQHLKMFI 232 >gi|119662801|emb|CAJ33192.1| RNA polymerase alpha subunit [Lactobacillus kefiri] Length = 153 Score = 162 bits (411), Expect = 5e-38, Method: Composition-based stats. Identities = 75/150 (50%), Positives = 99/150 (66%), Gaps = 4/150 (2%) Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE S+IKGV ED+T IILN+K I+LK+ G D + + I GP VTAGDIQ D+ Sbjct: 3 VLHEFSTIKGVVEDVTQIILNVKKISLKLDGPEDEEENLEIDVIGPADVTAGDIQADGDV 62 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKV 183 VLNPD I + A M LT +KG GYV A ++ PIG++ +D++Y+PI++V Sbjct: 63 TVLNPDLHIATVAEGATFHMRLTANKGRGYVSAVENKKRSSEMPIGVLPVDSIYTPIERV 122 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITG 213 +Y VES R GQ D+DKL++ I TDGSIT Sbjct: 123 NYQVESTRVGQRDDFDKLTLDIWTDGSITP 152 >gi|154424817|emb|CAL18511.1| RNA polymerase alpha subunit [Streptococcus minor] Length = 167 Score = 162 bits (410), Expect = 7e-38, Method: Composition-based stats. Identities = 61/166 (36%), Positives = 103/166 (62%) 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 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 +G+ ED++ L++RIL + LG+F + + K + + + Sbjct: 121 NGTTNPEDALGLSARILMEHLGLFTDLTDVAKSAEVMKEAEPASDD 166 >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 = 162 bits (409), Expect = 9e-38, 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|161511745|emb|CAP16883.1| DNA-directed RNA polymerase subunit alpha [Pediococcus inopinatus] Length = 141 Score = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 70/141 (49%), Positives = 100/141 (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 IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--T 163 I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A ++ Sbjct: 61 IDVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAILTADTGRGYVSADENKARK 120 Query: 164 ENDPIGLITIDALYSPIKKVS 184 ++ PIG++ ID++Y+PI++V+ Sbjct: 121 DDMPIGVLPIDSIYTPIERVN 141 >gi|58758774|gb|AAW81778.1| RNA polymerase alpha subunit [Andreaea rupestris] Length = 195 Score = 160 bits (406), Expect = 2e-37, Method: Composition-based stats. Identities = 52/199 (26%), Positives = 92/199 (46%), Gaps = 7/199 (3%) Query: 1 MIQKNW---QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRG 57 MIQ ++++ +E V + + P G A+T+G A+RR L+ + G Sbjct: 1 MIQNEIPISAQVLQWRCVESKVDSERLH-YSRFAISPFRCGQANTVGIAMRRALLGEIEG 59 Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 IT + V HE S+I G+ E + DI++N K I LK + ++ I GP +TA Sbjct: 60 TCITCAKFKKVTHEYSTILGIQESVHDILINSKEIVLKSNSYETQKAFISILGPKKITAQ 119 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 DI +++++ I L + +E + K GY ++ + GL +DA++ Sbjct: 120 DIILPPSVKIIDTTQYIATLTKAIHLDIESEIEKDCGYRIQDSKKSTD---GLFFVDAVF 176 Query: 178 SPIKKVSYTVESAREGQVL 196 PI+ +Y++ S Sbjct: 177 MPIRNANYSIHSFENKNKT 195 >gi|119663522|emb|CAK22332.1| RNA polymerase alpha subunit [Lactobacillus acetotolerans] Length = 140 Score = 159 bits (403), Expect = 4e-37, 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|229915533|gb|ACQ90877.1| alpha subunit of RNA polymerase [Pedinomonas minor] Length = 365 Score = 159 bits (403), Expect = 5e-37, Method: Composition-based stats. Identities = 70/353 (19%), Positives = 137/353 (38%), Gaps = 56/353 (15%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + QE + P G A T+ N+LRR L+S +G + AV+IDG +HE S ++G+ Sbjct: 14 MEQETSWYSRFEIGPFQAGQALTVANSLRRTLLSDQQGVFLAAVEIDGAIHEYSRLEGLK 73 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRG-----------PGVVTAGDIQTVNDIEVL 128 E + DI+LN++ +++ ++ D+ K + F P V A D++ IE Sbjct: 74 ESILDILLNLRQVSVLLTDDTSKTASEFANQETFVGYFDLQGPMEVKAKDLKFPKQIECG 133 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE----------------NDPIGLIT 172 NP+ I L + + + G + + Sbjct: 134 NPNQHIATLTRNCTFQGRFLILTNPGLTFKNQSIGDPLLFTKQVAKLEIGNRLLEKNWLY 193 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 ++ + + I++V+Y VE + + + + + T+G+I + ++ A L Sbjct: 194 VNPITNAIRRVNYVVEQFGDVWE-QKEVVVLEVWTNGTIHPKQAIHSACTKLSTLFSSLS 252 Query: 233 NFEEPK-------------------------KEVKEDINVKSLPFNP---ALLKKVEELE 264 + K + E +S + + L+ Sbjct: 253 SVNTTAFKFPASVARFKKVKTDSGADGNLTVKPMTEFSGQESPAGDKLTILFDLDIANLQ 312 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS+++ L+ I +G+L+Q ++D+ R+ N + EI+ L GL Sbjct: 313 LSLKTYLVLKNAKIQNIGNLLQYNKSDLTRLLNLANSQIEEIETALNVFGLAF 365 >gi|254751247|ref|ZP_05203285.1| DNA-directed RNA polymerase subunit alpha [Bacillus anthracis str. Vollum] Length = 136 Score = 159 bits (402), Expect = 6e-37, 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-KIETVELN-EDAKYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 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|161511743|emb|CAP16882.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 158 Score = 159 bits (402), Expect = 6e-37, Method: Composition-based stats. Identities = 61/154 (39%), Positives = 96/154 (62%), Gaps = 2/154 (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 LSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 L++ + TDGS+ ++++L+++IL + L +F+ Sbjct: 121 LTLDVWTDGSLAASEAISLSAKILTEHLXIFVTL 154 >gi|117575077|emb|CAJ84778.1| RNA polymerase alpha subunit [Lactobacillus amylophilus] Length = 138 Score = 159 bits (402), Expect = 6e-37, 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|154424769|emb|CAL18487.1| RNA polymerase alpha subunit [Streptococcus criceti] Length = 168 Score = 159 bits (402), Expect = 7e-37, Method: Composition-based stats. Identities = 60/168 (35%), Positives = 108/168 (64%) Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+KG+ +K + K + + +GP VTAGD+ T +DIE++NPDH + + ++ Sbjct: 1 LNVKGLAVKSYVEDEKTIELDVQGPAEVTAGDVLTDSDIEIINPDHYLFTIAEGHSLKAT 60 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +TV+K GYVPA+ +++++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I Sbjct: 61 MTVAKNRGYVPAEGNKSDSAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIM 120 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 T+G+I ED++ L++R+L + L +F + E K + +S+ + Sbjct: 121 TNGTIIPEDALGLSARVLIEHLNLFTDLTEIAKTTEVMKETESVSNDQ 168 >gi|56807381|ref|ZP_00365362.1| COG0202: DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Streptococcus pyogenes M49 591] Length = 145 Score = 158 bits (399), Expect = 2e-36, 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|161511751|emb|CAP16886.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus dextrinicus] Length = 138 Score = 157 bits (397), Expect = 2e-36, 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|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 = 156 bits (395), Expect = 4e-36, 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 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVT---IFKRGPGVVTAG--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 = 78.1 bits (191), Expect = 2e-12, Method: Composition-based stats. Identities = 24/81 (29%), Positives = 41/81 (50%) Query: 233 NFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + + + ++E + +EEL LSVR+ N L+ NI + DL+Q + D+ Sbjct: 316 DDSKSEPSIEEKRENVTSNERNLSQMPIEELILSVRAYNGLKRANIHSVSDLVQYSIKDL 375 Query: 293 LRMANFGRKSLVEIKGVLGTM 313 + NFG+KSL E+ L + Sbjct: 376 KDIKNFGKKSLDEVVASLKNL 396 >gi|150036734|emb|CAM98258.1| DNA-directed RNA polymerase alpha chain [Leuconostoc citreum] Length = 145 Score = 156 bits (394), Expect = 5e-36, 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|262286213|gb|ACY41680.1| RNA polymerase alpha subunit [Streptococcus anginosus SK52] Length = 140 Score = 155 bits (391), Expect = 1e-35, 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|262286211|gb|ACY41679.1| RNA polymerase alpha subunit [Streptococcus intermedius] Length = 140 Score = 154 bits (390), Expect = 2e-35, 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|119662339|emb|CAJ33158.1| RNA polymerase alpha subunit [Lactobacillus paralimentarius] Length = 134 Score = 153 bits (388), Expect = 3e-35, 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|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 = 153 bits (387), Expect = 3e-35, 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|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 = 153 bits (387), Expect = 4e-35, Method: Composition-based stats. Identities = 66/143 (46%), Positives = 97/143 (67%), Gaps = 1/143 (0%) Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PIK+V++ VE+AR G+V DYDKL++ + TDGS+T ++V+ ++ IL++ L + I EE K Sbjct: 1 PIKRVNFHVENARVGRVTDYDKLNLEVWTDGSVTPLEAVSSSASILREHLAICIPSEEMK 60 Query: 239 KEVKEDINVKSL-PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + + ++ 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|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 = 153 bits (386), Expect = 4e-35, 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|150186925|emb|CAK30129.1| RNA polymerase alpha subunit [Streptococcus thermophilus] Length = 145 Score = 153 bits (386), Expect = 5e-35, Method: Composition-based stats. Identities = 60/144 (41%), Positives = 97/144 (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 DTDGSITGEDSVALASRILQDQLG 229 T+G+I ED++ L++R+L + L Sbjct: 121 VTNGTIIPEDALGLSARVLIEHLN 144 >gi|150036846|emb|CAM98288.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 169 Score = 153 bits (386), Expect = 5e-35, 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|150186973|emb|CAK30139.1| RNA polymerase alpha subunit [Streptococcus porcinus] Length = 161 Score = 153 bits (386), Expect = 5e-35, Method: Composition-based stats. Identities = 57/159 (35%), Positives = 98/159 (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 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 I ED++ L++R+L + L +F + E K + Sbjct: 121 IIPEDALGLSARVLIEHLNLFTDLTEVAKATDVMKETEK 159 >gi|150186930|emb|CAK30130.1| RNA polymerase alpha subunit [Streptococcus salivarius] Length = 141 Score = 152 bits (383), Expect = 1e-34, 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|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 = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 53/113 (46%), Positives = 77/113 (68%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T Sbjct: 15 TDNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVT 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 +IILN+K + + D + + K+GPG VTAGDI + V NP I + Sbjct: 75 EIILNLKSLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPGMHIAH 127 >gi|48374282|gb|AAT41971.1| putative RNA polymerase alpha subunit [Fremyella diplosiphon Fd33] Length = 155 Score = 151 bits (382), Expect = 1e-34, Method: Composition-based stats. Identities = 50/156 (32%), Positives = 87/156 (55%), Gaps = 8/156 (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 + + DI P +P +EEL+LSVR+ NCL+ + + DL+ Sbjct: 61 FNPLKDISLEPTDTGSDI-----PDDPTAQIPIEELQLSVRAYNCLKRAQVNSVADLLDY 115 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 T+ D+L + NFG+KS E+ L LG+ LP Sbjct: 116 TQEDLLEIKNFGQKSAEEVVEALQR---RLGITLPQ 148 >gi|161511777|emb|CAP16899.1| DNA-directed RNA polymerase subunit alpha [Pediococcus stilesii] Length = 141 Score = 150 bits (380), Expect = 2e-34, 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|150187079|emb|CAK30166.1| RNA polymerase alpha subunit [Streptococcus parasanguinis ATCC 15912] Length = 150 Score = 150 bits (378), Expect = 4e-34, Method: Composition-based stats. Identities = 58/149 (38%), Positives = 92/149 (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 SRILQDQLGMFINFEEPKKEVKEDINVKS 249 +RIL + L +F N E V + Sbjct: 121 ARILTEHLNLFTNLTEIAIATDVMKEVDT 149 >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 = 149 bits (377), Expect = 5e-34, Method: Composition-based stats. Identities = 79/314 (25%), Positives = 147/314 (46%), Gaps = 8/314 (2%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 ++ I + R+++ E F +LGN ++RV+ + I ++I + E Sbjct: 9 TLKKISIKNISFFRSIIRIETFNNSFCDSLGNFIKRVIFLTTNSYKIIYLKIYKIKSEFY 68 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 + G+ E+ I+ N+ I +K++ D+ + I K+GP ++TA DI + +I + NP+ + Sbjct: 69 DLPGIIENTQTILKNLDNIIIKINNDNVANLIIKKKGPCIITAKDIFSDKNITIFNPNKI 128 Query: 134 ICNLDVDAVVRMELTVSK--GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 I N+ + V + Y + + + +I ++ SPI ++Y + Sbjct: 129 IANVSNNIVFYCIMKCVNSLFKNY-TDEFFQFKIFKENIIFLNNFKSPIISLNYYINKKI 187 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL- 250 + L KL I+T+GSI D ++ + +F KK K ++ K+ Sbjct: 188 FNKKLK--KLFFDIETNGSIKPVDCFKNCIFYIKKYFDLIFSFIGFKKYKKINVEKKNNL 245 Query: 251 --PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 N L + L+LS+RS NCL+ NI +GDLI+ ++ +++ + N G+KS EI Sbjct: 246 NLKINSVYLNSINNLKLSIRSLNCLKNNNIFLIGDLIKISKNNLINIPNLGKKSYNEILN 305 Query: 309 VLGTMGLFLGMNLP 322 L GL L + Sbjct: 306 SLKNFGLNLNSKIE 319 >gi|119662829|emb|CAJ33207.1| RNA polymerase alpha subunit [Lactobacillus ingluviei] Length = 132 Score = 149 bits (377), Expect = 5e-34, Method: Composition-based stats. Identities = 54/130 (41%), Positives = 83/130 (63%), Gaps = 1/130 (0%) Query: 107 FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-N 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 DQLGMFINFE 235 L MF+N Sbjct: 121 SHLTMFVNLT 130 >gi|108792413|emb|CAJ33201.1| RNA polymerase alpha subunit [Lactobacillus acidipiscis] Length = 133 Score = 148 bits (375), Expect = 8e-34, Method: Composition-based stats. Identities = 53/133 (39%), Positives = 89/133 (66%), Gaps = 2/133 (1%) Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITI 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|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 = 148 bits (375), Expect = 9e-34, Method: Composition-based stats. Identities = 68/339 (20%), Positives = 143/339 (42%), Gaps = 35/339 (10%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 I+ + + P+ T+ NALRR L++ +IT V I+ + HE Sbjct: 21 TRIDENTVDHTPQLYACFQLGLFPKNQGLTIANALRRTLLTESTECSITGVLIEDIKHEY 80 Query: 73 SSIKGVHEDLTDIILNIKGINLKM--SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 S++KG+ E + DI++N+K I S + + ++GP V+ A +++ + + +NP Sbjct: 81 SNLKGIKETVFDILMNLKKIIFFSGQSFFKTQVSFLSEKGPIVLKAKNLKLPSFLFCINP 140 Query: 131 DHVICNLDVDAVVRMELTVSK---------GHGYVPA----------KHHRTENDPIGLI 171 D I L+ ++ + M + + + H Y K + T+N + Sbjct: 141 DQYITTLETNSKINMTIFIDQSTPKNFSYFTHCYYSNFSNNFFPFKLKKNFTQNQQSNFL 200 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +D + PI ++Y ++ + + L I T+GS+ + A + L L F Sbjct: 201 FLDTQFCPISNLNYKIK----KKESQKEILFFEIWTNGSVHPNFILKKAIKNLLLNLIPF 256 Query: 232 INFEEPKKEVK--EDINVKSLPFNPALLKKVEELEL-----SVRSTNCLRGENIVYMGDL 284 + K E + E+ ++ + ++K+ +L+L S+ + L+ NI+ +GDL Sbjct: 257 HSLRNSKIEFEDYENKKIQKIVSQKKFIQKLIKLDLTNFPISLETYQSLKKLNILTIGDL 316 Query: 285 IQRTEADMLRM-ANFGRKSLVEIKGVLGTMGLFLGMNLP 322 + + ++ +E+ + + + L Sbjct: 317 YRLKMQ--KNIPKTLTKQEFLEVHRLFKYLKFYFSNKLK 353 >gi|119029438|gb|ABL59935.1| DNA-directed RNA polymerase alpha subunit [uncultured bacterium] Length = 219 Score = 148 bits (374), Expect = 1e-33, Method: Composition-based stats. Identities = 78/205 (38%), Positives = 124/205 (60%), Gaps = 7/205 (3%) Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIF-KRGPGVVTAGD 118 + ++IDGVLH+ S++ G+ ED+ +++LN+K + ++ D + F K PG V A D Sbjct: 16 LHRIKIDGVLHDYSALDGLQEDVVEVLLNLKELAFNIASDENTVAINFEKSSPGPVLASD 75 Query: 119 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDAL 176 ++IEV NP+ VICN+ ++MELT +G GY A + + IG++ +DA Sbjct: 76 FADQSNIEVFNPNLVICNVTSGV-LKMELTAQRGRGYELAVNRDVDRNEKSIGVLQLDAS 134 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 YSP+KKVSY VE AR G D DKL + ++T+G+I+ ED++ ++S ILQ QL F+N + Sbjct: 135 YSPVKKVSYNVEVARFGGRADLDKLVIDLETNGAISPEDAIRISSTILQQQLLAFVNLD- 193 Query: 237 PKKEVKEDINVKSLPFNPALLKKVE 261 ++ ++ K F+P L K E Sbjct: 194 --SKLLKEPTKKEEEFDPILCDKGE 216 >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 = 147 bits (370), Expect = 3e-33, 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|150187003|emb|CAK30148.1| RNA polymerase alpha subunit [Streptococcus parauberis] Length = 161 Score = 146 bits (369), Expect = 4e-33, 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|150186905|emb|CAK30124.1| RNA polymerase alpha subunit [Streptococcus gallinaceus] Length = 138 Score = 146 bits (369), Expect = 4e-33, 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|119662291|emb|CAJ33132.1| RNA polymerase alpha subunit [Lactobacillus collinoides] Length = 135 Score = 144 bits (364), Expect = 2e-32, 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|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 = 144 bits (364), Expect = 2e-32, 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|154424739|emb|CAL18472.1| RNA polymerase alpha subunit [Streptococcus oligofermentans] Length = 136 Score = 144 bits (363), Expect = 2e-32, 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|13560647|gb|AAK30140.1|AF346704_1 DNA-directed RNA polymerase [Fucus vesiculosus] Length = 226 Score = 143 bits (361), Expect = 3e-32, Method: Composition-based stats. Identities = 57/212 (26%), Positives = 113/212 (53%), Gaps = 3/212 (1%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E + L + +T+GN LRR L+S+L G I V+ G+ +E + ++GV ED Sbjct: 16 NTNEFYGHFVFTALKKSQGNTIGNVLRRTLLSNLYGFRIVGVRFAGINNEFALLEGVRED 75 Query: 82 LTDIILNIKGINLKMSGDSHKRVT--IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 L +IILN+K I + S + + 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 ESLIEIEVKIEAGKSYILAKDQKLEGA-LDFIPIDSNFAPVLKVNWYIISLPQDGESINE 194 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +L + I T+G++ ++ A ++ L Sbjct: 195 ELHLEIYTNGTLLPHQALLQARTMIGYMLSPI 226 >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 = 143 bits (361), Expect = 4e-32, Method: Composition-based stats. Identities = 65/233 (27%), Positives = 119/233 (51%), Gaps = 13/233 (5%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q+N E I N +E +EN I +PL G ++GN RR+L++ + IT Sbjct: 1 MQENL-EFI--NLLEV-----PDENFGKYIIKPLNLGMGVSIGNLFRRILLTQMPRTNIT 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 ALPDEITLVNPSQYIATITNDSTLEFELKIESEKKSNLAN-NQAIFESSDFLEVDKITSP 171 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 I+++ + V ++ + ++L + I TDGSIT D++ + +++Q+ Sbjct: 172 IRQILFDV--YKKSETETQEELVLQIWTDGSITPIDALITSVKLVQNLFTQIT 222 >gi|167010108|ref|ZP_02275039.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. holarctica FSC200] Length = 224 Score = 143 bits (360), Expect = 5e-32, Method: Composition-based stats. Identities = 61/228 (26%), Positives = 122/228 (53%), Gaps = 9/228 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I+ Sbjct: 4 ENLLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKIN 60 Query: 67 -GVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVND 124 G + + + E + DIILN+K +++ ++ D +T G + +++ Sbjct: 61 DGKVTSLEDVIPCDETVADIILNVKSLSVTLAEDVETGTITFELSGSEEEIFSEEAKLSE 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + IC+ + +++E V KG G+ PA+ + + G +DA +SP+ Sbjct: 121 GLAITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQDNFKD----GEFLLDATFSPVVFCD 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 + ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL + Sbjct: 177 FEIKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIV 224 >gi|21039418|gb|AAM33638.1| RpoA [Pseudomonas putida] Length = 127 Score = 142 bits (357), Expect = 1e-31, Method: Composition-based stats. Identities = 58/130 (44%), Positives = 86/130 (66%), Gaps = 3/130 (2%) Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 Q D DKL + ++T+G++ E+++ A+ ILQ QL F++ + + V + + Sbjct: 1 VEQRTDLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDSEPVVVEQEDE--- 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|21039420|gb|AAM33639.1| RpoA [Escherichia coli] Length = 127 Score = 141 bits (356), Expect = 1e-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|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 = 141 bits (356), Expect = 1e-31, Method: Composition-based stats. Identities = 55/166 (33%), Positives = 88/166 (53%), Gaps = 2/166 (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 HEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 E + DI+LN+K I LK + I+ +GPGV+ AGDI + I+ ++P+ I Sbjct: 87 RESVLDILLNLKQIVLKSKKSVKRAQTAYIYCQGPGVIRAGDIILPSSIQCVDPEQYIAT 146 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 L D +++M++ + +G Y+ + D + +D K+ Sbjct: 147 LSSDGILKMKVIIRQGKNYLVQTPNSLFFDEVSEFVLDKNNLAEKR 192 Score = 39.2 bits (90), Expect = 0.98, Method: Composition-based stats. Identities = 13/61 (21%), Positives = 23/61 (37%) Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 D + + I T+GSI ++ A++ L + F N + K E + Sbjct: 453 KDIIILEIWTNGSILPRTALKHATQNLSNLFIKFQNAKMMKNSFFETNKTYTQTIRQLYE 512 Query: 258 K 258 K Sbjct: 513 K 513 >gi|313622252|gb|EFR92762.1| DNA-directed RNA polymerase subunit alpha [Listeria innocua FSL J1-023] Length = 129 Score = 140 bits (354), Expect = 2e-31, Method: Composition-based stats. Identities = 53/123 (43%), Positives = 82/123 (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 SRI 223 + Sbjct: 121 ANS 123 >gi|213612396|ref|ZP_03370222.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] Length = 117 Score = 140 bits (353), Expect = 3e-31, Method: Composition-based stats. Identities = 54/120 (45%), Positives = 78/120 (65%), Gaps = 3/120 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 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|218755235|ref|ZP_03534031.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis GM 1503] Length = 118 Score = 139 bits (351), Expect = 4e-31, 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|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 = 139 bits (351), Expect = 5e-31, Method: Composition-based stats. Identities = 70/257 (27%), Positives = 103/257 (40%), Gaps = 43/257 (16%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + + E RG A T+ NALRR L+ L +T V IDGV+HE SSI GV Sbjct: 16 IQSQGEMYARFHLGTFFRGQALTVANALRRTLLGELPYLIVTKVHIDGVVHEFSSIPGVQ 75 Query: 80 EDLTDIILNIKGINLKMSGDSHK---------RVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E + DI+LN+K + +S +V + RGP VTA D++ + + P Sbjct: 76 ESVLDILLNLKRLTFTISNKKFNIFSNSWLKTKVFLKIRGPAKVTAADLKLPPHLACVWP 135 Query: 131 DHVICNLDVDAVVRMELT-------------------------------VSKGHGYVPAK 159 +H I L +A + L KG G K Sbjct: 136 NHYIATLSSNAELACVLELAVVHPKQKISIAKNEVGSKNKIFGKVTNDVFEKGKGTESKK 195 Query: 160 HHRTENDPIGLI-TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 + I ++D YSPI+KV+Y + + +Y L + I TDGSI + ++ Sbjct: 196 ILTDSIEKNKKIFSLDTNYSPIRKVNYVIYELDSKKNSEY--LVLEIVTDGSIEPKQALR 253 Query: 219 LASRILQDQLGMFINFE 235 A + L F Sbjct: 254 FAFKQLTKLFYEFTQIS 270 >gi|119662387|emb|CAJ33182.1| RNA polymerase alpha subunit [Lactobacillus acidifarinae] Length = 132 Score = 139 bits (351), Expect = 5e-31, 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|150036730|emb|CAM98256.1| DNA-directed RNA polymerase alpha chain [Leuconostoc citreum] Length = 133 Score = 139 bits (351), Expect = 5e-31, 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|218755234|ref|ZP_03534030.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis GM 1503] Length = 153 Score = 137 bits (346), Expect = 2e-30, 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|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 = 136 bits (343), Expect = 4e-30, Method: Composition-based stats. Identities = 88/355 (24%), Positives = 148/355 (41%), Gaps = 52/355 (14%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 Q + K ++ +L E + L + T+GN LRRVL+S+L G IT V++ Sbjct: 1 MQNMSKCKCVDSDLLSPSEL-YGHFVFTSLEQSEGSTIGNMLRRVLLSNLYGLKITGVRL 59 Query: 66 DGVLH-EISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTV 122 V H E + + GV ED ++ILN+K I LK + +GP VVTAG I+ Sbjct: 60 PDVTHNEFNLLDGVREDFLEVILNLKEIILKDENKYGQSYHGLLKIQGPAVVTAGSIKFS 119 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 I+VLNP++ + + D+ V + L + G YV AK + E + ID+ ++P+ K Sbjct: 120 KGIKVLNPNNYLLTISDDSFVEIHLKLEHGKAYVLAKDQKLEG-STYFLPIDSNFAPVLK 178 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+ V++ + +L + I T+GS+ ++ A ++ L E P Sbjct: 179 VNSYVKTLPQHIENTDVELHLEIFTNGSLLPHQALLQAKNMIGYMLSTVNKMEFPCLSQV 238 Query: 243 EDIN------------------------------------VKSLPFNPALLKKVEELE-- 264 ++ LLK+V E++ Sbjct: 239 VSEETKSIVKIENIQKKIYKKKEKTVQAKIFQSGEKKAKCIEEPTPEELLLKRVNEMDSG 298 Query: 265 ------LSVRSTNCLRGENIVYMGDLIQRTEA---DMLRMANFGRKSLVEIKGVL 310 LS R L+ NI + +L+ + ++ + G KS+ EI+ L Sbjct: 299 SLDCLKLSDRIVKALKKANINFTWELMDYDSSGPPYLIDIKGLGPKSVAEIEKSL 353 >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 = 136 bits (343), Expect = 4e-30, 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|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 = 136 bits (343), Expect = 4e-30, Method: Composition-based stats. Identities = 59/269 (21%), Positives = 105/269 (39%), Gaps = 70/269 (26%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 P G T+ NALRR L+S L A+T++QI V+H+ +I+G+ E + D++ Sbjct: 109 YGQFYIGPFFIGQGLTIANALRRTLLSELSSLAVTSIQIQDVVHQYQTIQGLQESVFDLL 168 Query: 87 LNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 LN+K I LK + + +GP ++ A D+ I+ ++P+ I L D ++ Sbjct: 169 LNMKDIVLKSKTTIPVPQIGYLQVQGPCIIKAKDLLLPPFIQCVDPEQYIATLSEDGILN 228 Query: 145 MELTVSKGHGY---------------------------VPAKHHRTE----NDPIGLITI 173 M+ + +G V + +R N + I Sbjct: 229 MKFVIRQGKHSLTHVTPGYDSFTQKYDQHSYNSTCDTNVHSNKNRNSLSLLNTYSKHLII 288 Query: 174 DALYSPIKKVSYTVESAREGQVLDYDKLSMTI---------------------------- 205 DA ++P+ KV+Y +E VLD+D+L Sbjct: 289 DASFNPVIKVNYIIE------VLDFDQLFFEKDSVKLESNDSNNFYCNEEKTLIKKEIII 342 Query: 206 ---DTDGSITGEDSVALASRILQDQLGMF 231 T+GSI+ ++ ++ + L Sbjct: 343 LEIWTNGSISPITALKVSIQKLISVFLKI 371 >gi|119672809|emb|CAK95485.1| RNA polymerase alpha subunit [Lactobacillus mucosae] Length = 121 Score = 136 bits (342), Expect = 5e-30, Method: Composition-based stats. Identities = 49/121 (40%), Positives = 77/121 (63%), Gaps = 2/121 (1%) Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALY 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|119662287|emb|CAJ33130.1| RNA polymerase alpha subunit [Lactobacillus buchneri] Length = 125 Score = 136 bits (342), Expect = 6e-30, Method: Composition-based stats. Identities = 48/124 (38%), Positives = 76/124 (61%), Gaps = 2/124 (1%) Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTV 187 PD I + A M LT +KG GYV A ++ 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|119672817|emb|CAK95488.1| RNA polymerase alpha subunit [Lactobacillus johnsonii] Length = 115 Score = 135 bits (341), Expect = 7e-30, Method: Composition-based stats. Identities = 57/114 (50%), Positives = 78/114 (68%) Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 K I GP +VTA D++ +DIEVLNPD IC++ + M + + G GYVPA Sbjct: 1 EEKIAEIDVTGPAIVTAADLKVDSDIEVLNPDQYICSIADGGHLHMNVAIKTGRGYVPAS 60 Query: 160 HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 ++T++ PIG+I +D+L+SPIKKV+Y VESAR G+ DYDKL++ I TDGSIT Sbjct: 61 ENKTDDMPIGVIPVDSLFSPIKKVNYQVESARVGKRDDYDKLTLEIWTDGSITP 114 >gi|324533916|gb|ADY49343.1| DNA-directed RNA polymerase subunit alpha [Ascaris suum] Length = 179 Score = 134 bits (338), Expect = 2e-29, Method: Composition-based stats. Identities = 52/179 (29%), Positives = 100/179 (55%), Gaps = 5/179 (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 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE----VKEDINVKSLPFNPALLKK- 259 I+T+G+I+ E++++ ++ I+++ + + N EE + ++ + V + N + Sbjct: 61 IETNGTISPEEALSYSAHIMKEHMMLVENIEEAINQSQVFIESKVEVDTQIVNETDNQNA 120 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E L++S R+ N L+ I + DL +T+ ++ + N G K++ EI+ L +G L Sbjct: 121 IETLDISNRAYNGLKKAGIDTIEDLCNKTKKEIAAVDNIGAKTVDEIQKQLQELGYVLK 179 >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 = 134 bits (337), Expect = 2e-29, Method: Composition-based stats. Identities = 59/268 (22%), Positives = 103/268 (38%), Gaps = 48/268 (17%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE V Q RG A T GN++RR L+S + G +T V+I G HE Sbjct: 10 SCIESRVQDQGSL-YARFHIGTFFRGQALTFGNSIRRALLSEMPGFLMTDVRIQGATHEF 68 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRV-------TIFKRGPGVVTAGDIQTVNDI 125 + + V E + +I+LN+K +++ + GPG V A DI+ + Sbjct: 69 AVLPDVEETVLEILLNLKKTVFVPRIPKNQKFETFQGFGFLKNNGPGKVRAADIRLPETV 128 Query: 126 EVLNPDHVICNLDVDAVVRMEL-------------------------TVSKG-------- 152 + ++P+ I L A + + G Sbjct: 129 QCVSPEVHIATLTSGAELSLRFNLQFRNFSQLEKREGTFKSKTVAQAKTEDGNVQDTTNE 188 Query: 153 -----HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + + + + + + +D + P++KV+Y ++S +Y + + I T Sbjct: 189 LPTLEKNSLFFQQLQNKRNSKDQLFLDTVPMPVQKVNYVIKSLNAKNGSEY--IILEIWT 246 Query: 208 DGSITGEDSVALASRILQDQLGMFINFE 235 DGS+ ++SV A R L D F N Sbjct: 247 DGSLYPQESVEFALRNLTDLFFQFANIS 274 >gi|207109275|ref|ZP_03243437.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori HPKX_438_CA4C1] Length = 176 Score = 134 bits (337), Expect = 2e-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 AVKVMSKQLGVFG--ERPIANMEYSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIK 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|154424749|emb|CAL18477.1| RNA polymerase alpha subunit [Streptococcus pyogenes] Length = 128 Score = 133 bits (335), Expect = 4e-29, 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|222446775|gb|ACM51431.1| RNA polymerase alpha subunit [Caulerpa filiformis] Length = 301 Score = 133 bits (334), Expect = 5e-29, Method: Composition-based stats. Identities = 55/242 (22%), Positives = 97/242 (40%), Gaps = 21/242 (8%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + P T N+LRR L+ +QI GV HE SS+ GV Sbjct: 9 KIEKTGQFYGCFKIGPFQTHSGMTFANSLRRTLLEDNSRYIFDTIQISGVEHEYSSLIGV 68 Query: 79 HEDLTDIILNIKGINLKMSGD--------SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E + DII N++ + ++S + + GPG++ A I D + P Sbjct: 69 RESVIDIIFNLQKLIFEVSDKVHLVGKDPKPQIAFLNFTGPGILRAQHIHLPKDFHFVYP 128 Query: 131 DHVICNLDVDAVVRMEL-----TVSKGHGYVPAKHHRTENDPI-----GLITIDALYSPI 180 D I L+VD + +L K + + +K P + +D+ + I Sbjct: 129 DQYIATLEVDGKLNFKLFFSPKIFQKKYKSLHSKSGSGRQMPPSVLLENYLFLDSDFCSI 188 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR-ILQDQLGMFINFEEPKK 239 ++V+YT++S Q + + I T+GSI + ++ IL D ++ K Sbjct: 189 ERVNYTIQSGN--QNPKEEFILFEIWTNGSIHPQKAIYQGINEILLDFFPYSFEIQKRNK 246 Query: 240 EV 241 + Sbjct: 247 NL 248 >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 = 132 bits (333), Expect = 6e-29, Method: Composition-based stats. Identities = 60/217 (27%), Positives = 113/217 (52%), Gaps = 12/217 (5%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV--LHEISS 74 I + + + N ++ PL + F+ + N LR+++ G +I ++I+G+ LH S Sbjct: 11 IIHVLKHDFNSIQVLIGPLEKNFSGSFANLLRKIIFRYTSGVSIIGLKINGIDSLHSYSL 70 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRV--TIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 I GV ED+ +++ N+K + +++ +K + TI K+GP ++ + DI ++I++LN D Sbjct: 71 IPGVKEDVLNVLNNLKHLLIQIDDYDYKPILLTIQKKGPYIIKSKDIICPSNIKILNDDL 130 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 IC L+ D+ + + L G GYV + + + ++ D + PIK VSY V S Sbjct: 131 YICTLENDSQIDLTLIGDIGCGYVLSTYF---GNRKSIVYSDTNFCPIKHVSYYVRSY-- 185 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 Y++L I T+G+ + A L+D++ Sbjct: 186 ---TTYEELIFYIKTNGTCNPLFVMKNAFSFLKDKIN 219 >gi|119662855|emb|CAJ33220.1| RNA polymerase alpha subunit [Lactobacillus vaginalis] Length = 120 Score = 132 bits (332), Expect = 9e-29, 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|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 = 132 bits (331), Expect = 1e-28, Method: Composition-based stats. Identities = 48/154 (31%), Positives = 73/154 (47%), Gaps = 2/154 (1%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + + P G T+GNA RR L+S L G IT ++IDGV HE S++ GV Sbjct: 13 IEHNRSFYSRFQLGPFDLGQGLTVGNAFRRTLLSELSGVGITLIEIDGVCHEYSTLPGVR 72 Query: 80 EDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 E + DI+LN+K + L + + GPGVVTA D++ + ++PD I L Sbjct: 73 ESVLDILLNLKQLVLTSDTTFTVPQVGYLNFTGPGVVTAKDLKLPVSVYCVDPDQPIATL 132 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI 171 DA + + V +G Y+ ++ I Sbjct: 133 SADATLNFKFLVCQGKNYIIQTPVDKFHEYQKKI 166 Score = 65.4 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 30/156 (19%), Positives = 56/156 (35%), Gaps = 41/156 (26%) Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 + +D L+ PIKKV+Y ++ + D + + + I T+GSI +V A++ L Sbjct: 318 LPVDTLFMPIKKVNYMIDI--DPAEPDRESVVLEIWTNGSIHPRQAVHEAAKQLIHLFSP 375 Query: 231 FI------------------------NFEEPKKEVKEDI---------------NVKSLP 251 F+ + E E +D N + Sbjct: 376 FLQTHLVPTTLQSTPYSKAASKTQEFSLNETSTEKVKDELGKVAFGSENNTAALNQQKNL 435 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 + L S+R+ L+ ENI + +L++ Sbjct: 436 VTAIQTLDIANLNFSLRTFTFLKKENINTVSELVEF 471 >gi|58618634|gb|AAW80815.1| RNA polymerase alpha subunit [Polytrichadelphus purpureus] Length = 165 Score = 132 bits (331), Expect = 1e-28, Method: Composition-based stats. Identities = 43/163 (26%), Positives = 79/163 (48%), Gaps = 20/163 (12%) Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 + PI+ +Y+V S E + L + I T+GSIT ++++ ASR L D F++ E+ Sbjct: 1 FMPIRNANYSVHSF-ENNNKIQEILFIEIWTNGSITPKEALYEASRSLXDLFIPFLHTEK 59 Query: 237 PKKEVKEDINVKSLPFNPALLKK----------------VEELELSVRSTNCLRGENIVY 280 + KS + +++LELS R+ NCL+ N+ Sbjct: 60 KETIDGLKTEYKSNDMSDFSSFSPLANKSTKEITFKHIFIDQLELSARAYNCLKRVNVHT 119 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 + DL+ ++ D++++ NFG+KS+ ++ L + +NLP Sbjct: 120 ISDLLNYSQDDLMKIKNFGKKSVEQV---LEALXKXFSINLPK 159 >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 = 131 bits (330), Expect = 1e-28, Method: Composition-based stats. Identities = 48/150 (32%), Positives = 70/150 (46%), Gaps = 2/150 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + P G + T+ NALRR L+S + G +T+V+I+GV HE S+I G Sbjct: 29 EEKENNQTFYGRFYIGPFEIGQSLTMANALRRSLLSEVPGLGLTSVEIEGVAHEYSTIPG 88 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVT--AGDIQTVNDIEVLNPDHVIC 135 V E + DI+LNIK I K + K + R G T A D+ I+ +NPD I Sbjct: 89 VQETVFDILLNIKNIVFKSTTYLKKAEIGYCRASGPKTLRAKDLLLPAHIQCVNPDQYIA 148 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 L D + M+L + +G Y+ Sbjct: 149 TLKSDGTLNMKLKIRQGTHYLVNTPFEQSE 178 Score = 45.0 bits (105), Expect = 0.016, Method: Composition-based stats. Identities = 15/63 (23%), Positives = 30/63 (47%) Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 + +D ++ P+ K +Y +E + + + I T+GSI+ ++ A + L LG Sbjct: 249 LLLDPVFMPVTKANYVLELDERVHNSPKELIVLEIWTNGSISPHGALQTAIKKLVRLLGN 308 Query: 231 FIN 233 N Sbjct: 309 VKN 311 >gi|119662799|emb|CAJ33191.1| RNA polymerase alpha subunit [Lactobacillus jensenii] Length = 117 Score = 130 bits (327), Expect = 3e-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|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 = 129 bits (325), Expect = 5e-28, Method: Composition-based stats. Identities = 54/218 (24%), Positives = 98/218 (44%), Gaps = 11/218 (5%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 +G A T NALRR L+S + G +T + ++G HE + + GV E + DII Sbjct: 23 YARFHLGTFIQGQALTFANALRRTLLSEIPGIIMTDILVEGASHEFAILPGVEETVLDII 82 Query: 87 LNIKGINL-----KMSGDSHKRVTIFKRG--PGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 LN+K + K+ + + T F + P ++ D++ ++ + P I + Sbjct: 83 LNLKKLVFAPSTSKLINLENFQATGFLKSCGPRKLSGADVKLPLTLKCVEPKAHIATITN 142 Query: 140 DAVV--RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 A R L + V K + + + +D + PI+KV+Y +++ Q L+ Sbjct: 143 GAEFALRFNLELRNPQQSVTNKIYYPVENKTRKLVLDNVPMPIQKVNYVIKALNGKQGLE 202 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 Y + + + TDGS+ ++SV A + L + F Sbjct: 203 Y--IVLEVWTDGSVLPQESVQFALKNLTNFFFQFAEMS 238 >gi|300431274|gb|ADK12602.1| RNA polymerase alpha subunit [Pappostipa vaginata] Length = 167 Score = 128 bits (321), Expect = 2e-27, 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 DAVSMPVRNVNYSIFSCGNG-NEKHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLH 59 Query: 234 FEEPKKEVKEDINVKSLP----------------FNPALLKKVEELELSVRSTNCLRGEN 277 EE +E+ N + P P +++LEL R+ NCL+ N Sbjct: 60 AEEEGTSFEENKNRFTPPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRAN 119 Query: 278 IVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 I + DL+ +TE D++R+ +F + + K + + L +NL Sbjct: 120 IHTLLDLLSKTEEDLMRIDSFR---MEDGKQIWDNLEKHLPINL 160 >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 = 127 bits (318), Expect = 3e-27, Method: Composition-based stats. Identities = 44/133 (33%), Positives = 66/133 (49%), Gaps = 2/133 (1%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + P G T+ ALRR L+S L+G AI+AV+I G H+ SSI GV E DI+ Sbjct: 20 YGRFLLGPFKVGQGTTVATALRRTLLSELQGIAISAVEIKGATHQYSSIAGVRESTLDIV 79 Query: 87 LNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 LN+K I L + + +GP A D++ N I ++ D I ++ + + Sbjct: 80 LNLKQIVLTGDVRNGLPAVGYLAVQGPKAARARDLKLPNGIRCVDGDQYIASVSANGSLT 139 Query: 145 MELTVSKGHGYVP 157 M+ +S G YV Sbjct: 140 MKFVISAGKNYVS 152 Score = 58.4 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 23/201 (11%), Positives = 63/201 (31%), Gaps = 58/201 (28%) Query: 165 NDPIGLITIDALYSPIKKVSYT--VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 + IDA++ P+ KV+++ ++ + +++ + I T+GS+ ++ A+ Sbjct: 427 EMDSSPLPIDAVFMPVNKVNFSLQIDDQWQEPR---ERVILEIWTNGSLHPRQAIGEAAS 483 Query: 223 ILQDQLGMFINFEEP--------------------------------------------- 237 L + + Sbjct: 484 YLVYLFSLLRQGDASPAATVQPSPQLRGLGWGTADQRGRTNLQSVEGGGREGEGSSGGMS 543 Query: 238 --KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + +K + +L+LS+++ L+ + D++ + + + Sbjct: 544 SYRATIKHPSPRALPGPGRDRSTDIADLDLSIQAYALLKRAGVHTFRDVMSLS---LNSI 600 Query: 296 ANFGRKS---LVEIKGVLGTM 313 G S L+EI ++ + Sbjct: 601 KGGGLASPAILLEIDALIKRL 621 >gi|156619301|gb|ABU88330.1| RNA polymerase alpha subunit [Chlamydomonas moewusii] Length = 633 Score = 126 bits (317), Expect = 5e-27, Method: Composition-based stats. Identities = 44/141 (31%), Positives = 73/141 (51%), Gaps = 2/141 (1%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + P + T+ N LRR L+S + G AI +V+I+G HE SS+ GVH Sbjct: 13 IENNRSFYGCFELGPFEPSQSLTIANTLRRTLLSEIYGLAIVSVEIEGASHEYSSLPGVH 72 Query: 80 EDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 E + DI+LN+K I LK + + + + RGPGVVT ++ I+ ++PD I L Sbjct: 73 ESVLDILLNLKEIVLKKSIKNFTPQIGYLRARGPGVVTGSHLRLPPFIQCVDPDQYIATL 132 Query: 138 DVDAVVRMELTVSKGHGYVPA 158 + + ++ V G+ ++ + Sbjct: 133 SHNGFLNIKFVVQYGNKWLAS 153 Score = 36.1 bits (82), Expect = 8.1, Method: Composition-based stats. Identities = 21/120 (17%), Positives = 47/120 (39%), Gaps = 9/120 (7%) Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE----VKEDINVKSLPFNPAL 256 +++ I T+GS+ D++ A + L N + + +++ +L + Sbjct: 474 ITLEIWTNGSLHPRDALNQAFKNLIKTFLQLKNVQPYGLNNLLFNSQSLSINALGETLQV 533 Query: 257 LKKVEELELSVRSTN--CLRGENIVYMGDLIQRTEADMLRMANFG--RKSLVEIKGVLGT 312 EE EL++ TN L+ + G + + + ++ G +K +E L Sbjct: 534 SNISEENELALDPTNKKNLKRGKNDFSGQQSKLEQILLKKIR-MGVFKKDFIETLSPLNE 592 >gi|2951864|gb|AAC05400.1| RNA polymerase alpha subunit [Buchnera aphidicola] gi|448401|prf||1917188B RNA polymerase:SUBUNIT=alpha Length = 113 Score = 126 bits (316), Expect = 5e-27, Method: Composition-based stats. Identities = 52/116 (44%), Positives = 75/116 (64%), Gaps = 3/116 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + +KP +E + Q T + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQNSIIGFLKPRLVE---IEQITATHTKVTLEPLERGFGHTLGNALRRILLSSMPGYAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 V+IDGVLHE S+ +GV ED+ +I+LN+K + +K+ G +++ K G G VTA Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKELAVKVHGKDEVFMSLNKSGIGSVTAS 113 >gi|225466312|ref|XP_002271159.1| PREDICTED: similar to Os04g0237300, partial [Vitis vinifera] Length = 274 Score = 126 bits (316), Expect = 6e-27, Method: Composition-based stats. Identities = 38/130 (29%), Positives = 69/130 (53%), Gaps = 4/130 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRG 57 I+++ + + +++ + +N I PL +G A T+G A+RR L+ + G Sbjct: 145 IRRSEKVTVSTRTLQWKCVESRVDNKRLCYGRFILSPLIKGQADTIGIAMRRALLGEIEG 204 Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 IT + + + HE S+I G+ E + +I++N+K I L+ + + I RGPG VTA Sbjct: 205 TCITRAKSEKIPHEYSTIVGIQESVHEILMNLKEIVLRSNLYGTRGAFICARGPGYVTAQ 264 Query: 118 DIQTVNDIEV 127 DI + +E+ Sbjct: 265 DIISPPSVEI 274 >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 = 125 bits (313), Expect = 1e-26, Method: Composition-based stats. Identities = 41/173 (23%), Positives = 75/173 (43%), Gaps = 2/173 (1%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 P G T+ N LRR L+S L G AITAV+I HE ++ G+ E Sbjct: 20 ETNRSFYGRFEIGPFAHGQGITVANMLRRTLLSELSGLAITAVEIKEASHEYMTLPGISE 79 Query: 81 DLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 + DIILN+K + + + D + + +GP ++ A + + I+ ++P+ I L Sbjct: 80 SVQDIILNLKQLIFRSNFDLKQPEFGFLSIQGPAIIKASHFRLPSFIKCVDPNQYIATLA 139 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + + +++ + +G Y G ++ + +K Y + R Sbjct: 140 FNGQLNLKVQICQGKNYKFQTPLDLNWPGSGFLSSIHNSNSKQKSFYIKNNTR 192 Score = 47.3 bits (111), Expect = 0.003, Method: Composition-based stats. Identities = 18/82 (21%), Positives = 39/82 (47%), Gaps = 1/82 (1%) Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 L + K + ++ +DA+++P+ KV+Y + E +++ + I Sbjct: 448 LNLDKKQALSIKEIENKLIKTDNILPVDAIFTPVTKVNYLI-CLDEKVKPFKEQILLEIW 506 Query: 207 TDGSITGEDSVALASRILQDQL 228 T+GSIT + ++ A+ + D L Sbjct: 507 TNGSITPKTAIYKAADCILDLL 528 >gi|61676006|gb|AAX51668.1| DNA dependent RNA polymerase alpha subunit [Waddlia chondrophila WSU 86-1044] Length = 174 Score = 125 bits (313), Expect = 1e-26, Method: Composition-based stats. Identities = 64/174 (36%), Positives = 93/174 (53%), Gaps = 17/174 (9%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS 97 G HTLGN+LRR++++SL AI V+I+GV HE +I + ED+T+IILNIKG L+ Sbjct: 1 GMGHTLGNSLRRLMLTSLEAPAIIGVRIEGVAHEYMAIDSIVEDMTNIILNIKGAKLRKL 60 Query: 98 GDSH-----------------KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 + +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|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 = 124 bits (312), Expect = 2e-26, 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-KIETVELN-EDAKYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVV 114 VLHE S+++GV ED+T IILN+K + LK+ + K + I +G G+V Sbjct: 61 VLHEFSTVEGVVEDVTTIILNLKKLALKIYSEEEKTLEIDVQGEGIV 107 >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 = 124 bits (312), Expect = 2e-26, Method: Composition-based stats. Identities = 53/272 (19%), Positives = 96/272 (35%), Gaps = 34/272 (12%) Query: 12 PNNIEYIVLGQEEEN------RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 PN+I+ + PL HT G L+ V + L G AI A++I Sbjct: 416 PNDIKVEEATDIIKYPQNGRLYQKFYIGPLNITDGHTFGTLLKYVCQTQLYGYAIVAIKI 475 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSG-DSHKRVTIFKRGPGVVTAGDIQTVND 124 ++E + I V EDL +I LN+ + + + + + +GP ++ AG I + Sbjct: 476 HN-MNEDTRIDNVQEDLLEIALNLSDVCIYSKEVNIETNIRLIFKGPLMLVAGMIPLPSH 534 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYV------------------PAKHHRTEND 166 ++V+N + IC L D + + + + G G+ K E Sbjct: 535 LQVVNKEQYICTLKEDGHLDISIKIEYGKGHWLTYEKGLYKRELGSDNECMKKRQVKEVV 594 Query: 167 PIGLITIDALYSPIKKVSYTVESA--------REGQVLDYDKLSMTIDTDGSITGEDSVA 218 + I A + + V V R L M I TD + ++ + Sbjct: 595 EKNYMPISASFGTCRMVRMAVHKIATKYWCEDRCEFTDPKQMLVMEIWTDCRMLPKNVLL 654 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 + ++ L F + D + + Sbjct: 655 YGIKNIKKILRKFREMIISDSDFPSDAEDEEM 686 >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 = 123 bits (308), Expect = 5e-26, 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|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 = 122 bits (306), Expect = 8e-26, 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|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 = 121 bits (305), Expect = 1e-25, Method: Composition-based stats. Identities = 50/200 (25%), Positives = 89/200 (44%), Gaps = 6/200 (3%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + + P G A T+ NALRR L+S L G +IT V++ G +E I GV Sbjct: 49 VENLTKFYGRFELGPFAPGQALTVANALRRSLLSQLPGTSITLVEVRGASNEYEIITGVR 108 Query: 80 EDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 E + DI+LN+K I L + S + + GPGV+ A D++ + I ++P+ I L Sbjct: 109 ESILDILLNLKQIVLTSDFEIFSPQIGFLSVEGPGVIRANDLKLPSFIYAVDPNQYIATL 168 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS-YTVESAREGQVL 196 + M+ + G Y+ + ++ +++ P+ K + + + Sbjct: 169 SNSGRLNMKFLICCGKNYITYNPN--DSQYFEWLSLLKKSKPLIKSNSPKLNKGNINSEI 226 Query: 197 DYDKLSMTIDTDGSITGEDS 216 D D S+ D I +++ Sbjct: 227 DSDI-SIDKKNDEVIFFQNA 245 Score = 112 bits (281), Expect = 6e-23, Method: Composition-based stats. Identities = 50/198 (25%), Positives = 90/198 (45%), Gaps = 33/198 (16%) Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 Y + ++ IG IDA++ PI +V+Y +ES + ++ D++ + + T+GSI Sbjct: 380 DYDSDFNLDHKSTKIGYFPIDAIFMPINRVNYLIESTEDIKLKIKDRVILEVWTNGSIHP 439 Query: 214 EDSVALASRILQDQLGMF-------------INFEEPKKEVKEDIN-------------- 246 ++ A++ L +FEE + ++K+ I+ Sbjct: 440 RHAIHKAAKALIQLFLPLQQIRTNLFLISDNSHFEEGQDKIKKRIDNFKKEALLKANPQI 499 Query: 247 ------VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 K + L + LEL+ R +CL+ NI + DLI ++ D+L + NFGR Sbjct: 500 QANPQLKKRNFDHRLLELDIANLELTARPYSCLKLANINTIEDLISYSQEDLLSIKNFGR 559 Query: 301 KSLVEIKGVLGTMGLFLG 318 +SL+E++ L M L L Sbjct: 560 RSLIEVQKALQLMKLTLK 577 >gi|213517416|gb|ACJ50122.1| RNA polymerase alpha subunit [Chlamydomonas reinhardtii] Length = 737 Score = 121 bits (304), Expect = 1e-25, Method: Composition-based stats. Identities = 41/156 (26%), Positives = 75/156 (48%), Gaps = 11/156 (7%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + P + TL N LRR L+S L G AIT+++I+GVLH+ S++ G+ Sbjct: 28 IENNTNFYGCFYLGPFDESLSQTLANDLRRTLLSELTGLAITSIEIEGVLHKFSTLTGMK 87 Query: 80 EDLTDIILNIKGINLKMSGDSHKRV-----------TIFKRGPGVVTAGDIQTVNDIEVL 128 E + D+I N++ I L+ S + + GP V+ A D++ ++ + Sbjct: 88 EPVLDLICNLQNIVLRKETISSTNMNYRATKKTYIGFLSVNGPRVIKAADLKLPAGLQCV 147 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 +P+ I L D + M+ +++G Y+ K + + Sbjct: 148 DPNQYIATLAEDGFLNMKFNINEGKNYIKQKPYNLD 183 Score = 64.2 bits (155), Expect = 3e-08, Method: Composition-based stats. Identities = 20/62 (32%), Positives = 36/62 (58%) Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 + L++S+RS L+ I + DLI+ ++ D+ + N G+KS+ EI+ L +GL L Sbjct: 676 PIGILKISLRSYTALKKAGITTLKDLIKYSKKDLFAIKNLGQKSVFEIEQNLALLGLTLV 735 Query: 319 MN 320 + Sbjct: 736 TD 737 >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 = 121 bits (304), Expect = 2e-25, Method: Composition-based stats. Identities = 41/156 (26%), Positives = 75/156 (48%), Gaps = 11/156 (7%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + P + TL N LRR L+S L G AIT+++I+GVLH+ S++ G+ Sbjct: 28 IENNTNFYGCFYLGPFDESLSQTLANDLRRTLLSELTGLAITSIEIEGVLHKFSTLTGMK 87 Query: 80 EDLTDIILNIKGINLKMSGDSHKRV-----------TIFKRGPGVVTAGDIQTVNDIEVL 128 E + D+I N++ I L+ S + + GP V+ A D++ ++ + Sbjct: 88 EPVLDLICNLQNIVLRKETISSTNMNYRATKKTYIGFLSVNGPRVIKAADLKLPAGLQCV 147 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 +P+ I L D + M+ +++G Y+ K + + Sbjct: 148 DPNQYIATLAEDGFLNMKFNINEGKNYIKQKPYNLD 183 >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 = 120 bits (302), Expect = 3e-25, 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|67968322|dbj|BAE00222.1| RNA polymerase alpha chain like [Selaginella uncinata] Length = 245 Score = 120 bits (301), Expect = 3e-25, Method: Composition-based stats. Identities = 53/221 (23%), Positives = 79/221 (35%), Gaps = 6/221 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV-QIDGVLHE 71 IE + E + I P G A TLG A+RR GA T + + HE Sbjct: 14 RCIEPK-VDNERPCHSRSIIPPPKIGQASTLGIAMRRAPPGESEGACTTPAGSPERINHE 72 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 +I GV E + + +N+K I L + + I GPG V A D + I ++ P Sbjct: 73 YPAIAGVRESVHETSMNLKEIALTAHPSAAQEAHIPIVGPGKVAARDTVPPSSIGIIYPA 132 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + V G GY G DA+ PI+ +Y++ Sbjct: 133 QHAATVTRKIRSSTGSRVEGGCGYR---RRNMVEYQKGSPPPDAVSMPIRNANYSIHRLE 189 Query: 192 -EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 + + TDGS T ++ ASR + Sbjct: 190 SHSGGIMKEMPPPEARTDGSPTPGEATYEASRDSANLFSPV 230 >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 = 119 bits (298), Expect = 7e-25, Method: Composition-based stats. Identities = 45/135 (33%), Positives = 72/135 (53%), Gaps = 2/135 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 +L P + T+ NALRR L++ L AIT ++I+GV HE S++ G Sbjct: 15 CILENPRSFYGSFSLGPFKNSQSLTVANALRRTLLAELSNIAITHLEIEGVTHEYSTLVG 74 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVT--IFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 V E + D++LN KGI LK + K + + RGPGVV A D++ I+ ++PD I Sbjct: 75 VRESVLDLLLNFKGIALKNTSPVTKPLFGYLQVRGPGVVRASDLKFPPMIQCVDPDQYIA 134 Query: 136 NLDVDAVVRMELTVS 150 L+ + + ++ +S Sbjct: 135 TLNENGKLILKFRIS 149 Score = 53.8 bits (128), Expect = 4e-05, Method: Composition-based stats. Identities = 38/228 (16%), Positives = 77/228 (33%), Gaps = 56/228 (24%) Query: 147 LTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKVSYTVESA-REGQVLDYDKLS 202 + K + + + +D L++PI KV+Y +E+ + + + + Sbjct: 244 FRIEKNQQDFNKNKNGNFDSQKNKTNSLWVDPLFNPILKVNYIIETIEPMQKNIPNEIVF 303 Query: 203 MTIDTDGSITGEDSVALASRILQDQLG-------------------------MFINFE-- 235 + + T+GSI + A L+ F FE Sbjct: 304 IELWTNGSIHPRKAFYTALLYLKTMFDKLDCMRLLNYEFSNTMLESEKTSTKFFKTFEYD 363 Query: 236 -----------------------EPKKEVKEDI--NVKSLPFNPALLKKVEELELSVRST 270 E ++V++D N+K+ N + L L R T Sbjct: 364 FRFYNSREDKTMKSFTPEKFFLPEEIEDVEKDYLLNLKNQADNTWNDLPLTNLNLPYRIT 423 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 L N +GDL++ + ++ +++ G + ++ +GL LG Sbjct: 424 KILAKNNFFVVGDLLKISPNELKKLSGIGNYCVFILQKRFEKLGLKLG 471 >gi|55274199|gb|AAV48981.1| DNA-directed RNA polymerase [Leuconostoc pseudomesenteroides] Length = 101 Score = 119 bits (298), Expect = 7e-25, Method: Composition-based stats. Identities = 47/103 (45%), Positives = 65/103 (63%), Gaps = 4/103 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E+ + EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDG Sbjct: 3 EFEKPN----IHNIEEDARYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRG 110 V+HE S++ GV ED+T IILN+K + L + D + + I + Sbjct: 59 VVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDERSLEIDVQE 101 >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 = 118 bits (296), Expect = 1e-24, 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|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 = 118 bits (295), Expect = 2e-24, Method: Composition-based stats. Identities = 52/271 (19%), Positives = 96/271 (35%), Gaps = 34/271 (12%) Query: 12 PNNIEYIVLGQEEEN------RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 PN+I+ + PL HT G L+ V + + G AI A+++ Sbjct: 393 PNDIKVEEATDIIKYPQNGRLYQKFYIGPLNITDGHTFGTLLKYVCQTQVYGYAIVAIKV 452 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSG-DSHKRVTIFKRGPGVVTAGDIQTVND 124 ++E + I V EDL +I LN+ + + + V + +GP +V AG I + Sbjct: 453 HN-MNEDTRIDNVQEDLLEIALNLSDVCIYSKEINIETNVRLIFKGPLMVVAGMIPLPSH 511 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYV------------------PAKHHRTEND 166 ++V+N + IC L D + + + + G G+ K E Sbjct: 512 LQVVNKEQYICTLKEDGYLDISIKIEYGKGHWLTYEKGLYKREVGSDNECMKKRQVKEVV 571 Query: 167 PIGLITIDALYSPIKKVSYTVESA--------REGQVLDYDKLSMTIDTDGSITGEDSVA 218 + I A + + V V R L M I +D + ++ + Sbjct: 572 EKNYMPISASFGSCRMVRMAVHKIATKYWCEDRCEFTDPKQMLVMEIWSDCRMLPKNVLL 631 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + ++ L F + D+ + Sbjct: 632 YGIKNIKKILRKFREMIISDTDFPSDVEDEE 662 >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 = 117 bits (294), Expect = 2e-24, Method: Composition-based stats. Identities = 41/156 (26%), Positives = 78/156 (50%), Gaps = 11/156 (7%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + P + T+ N +RR L+S L AIT+++I+G+LH+ SS+ G+ Sbjct: 28 IENNTSFYGCFYLGPFDDSLSQTIANDIRRTLLSELTSLAITSIEIEGILHKYSSLPGMK 87 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIF-----------KRGPGVVTAGDIQTVNDIEVL 128 E + D+I N++ I LK S +T+ GP V+ A D++ + ++ + Sbjct: 88 ETVLDLICNLQSIVLKKQEISFTNITLRSTKKTYRGFLNVSGPRVIKAMDLKLPSGLQCV 147 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 +P+ I L D ++ M+L +++G ++ K H + Sbjct: 148 DPNQYIATLAEDGLLNMKLNINEGKNFIKQKPHNLD 183 Score = 60.7 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 23/73 (31%), Positives = 41/73 (56%) Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 N AL + L++S+R+ L+ I+ + DL++ ++ D+L++ N G+KSLV Sbjct: 693 NQMKFYSQAALKAPIGILKISLRAYTALKKAGILTINDLVKCSKNDLLKINNLGKKSLVL 752 Query: 306 IKGVLGTMGLFLG 318 I+ L +GL L Sbjct: 753 IETSLSYLGLTLK 765 >gi|119662813|emb|CAJ33198.1| RNA polymerase alpha subunit [Lactobacillus vaccinostercus] Length = 114 Score = 116 bits (291), Expect = 4e-24, Method: Composition-based stats. Identities = 49/114 (42%), Positives = 77/114 (67%), 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 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSP 179 LNP+ I + A + +++T + G GYV A ++ ++ PIG++ ID++Y+P Sbjct: 61 LNPELHIATVADGAELHIQMTANTGRGYVSADDNKARMDDLPIGVLPIDSIYTP 114 >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 = 116 bits (290), Expect = 6e-24, Method: Composition-based stats. Identities = 54/171 (31%), Positives = 92/171 (53%), Gaps = 6/171 (3%) Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 IE++N D I L + + TVS G TE + +G I +DA ++PIK+V Sbjct: 3 GIEIINKDQPIATLTNEREFSLVATVSVGRNVGILSALPTELEKVGDIAVDADFNPIKRV 62 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 ++ + + L + + T+G+I +V A +Q+ +F++ P Sbjct: 63 AFEIFDNGAS-----ETLEVFVKTNGTIEPLAAVTKALEYFCEQISVFVSLRVPSNGKTG 117 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 D + S +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ +++ Sbjct: 118 DALLDSN-IDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMK 167 >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 = 115 bits (289), Expect = 7e-24, Method: Composition-based stats. Identities = 53/171 (30%), Positives = 92/171 (53%), Gaps = 6/171 (3%) Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 IE++N D I L + + TVS G TE + +G I +D+ ++PIK+V Sbjct: 3 GIEIINKDQPIATLTNEREFSLTATVSVGRNVGILSALPTELEKVGDIAVDSDFNPIKRV 62 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 ++ + + L + + T+G+I +V A +Q+ +F++ P Sbjct: 63 AFEIFDNGTN-----ETLEVFVKTNGTIEPLVAVTKALEYFCEQISVFVSLRVPSNGKTG 117 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 D + S +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ +++ Sbjct: 118 DALLDSN-IDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMK 167 >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 = 115 bits (288), Expect = 9e-24, Method: Composition-based stats. Identities = 50/244 (20%), Positives = 96/244 (39%), Gaps = 9/244 (3%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 T + NA RRV M L+G +TA++I + HE I GV E+ D+ Sbjct: 304 YTYFFMHSHEVELSPIFLNAFRRVAMKHLKGGRVTALRIPNMKHEFYCIVGVRENFFDLA 363 Query: 87 LNIKGINLK-----MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 N++ I K + D++ +GP +V AG +Q IE++N + IC++ + Sbjct: 364 QNLRQITFKNVPENIDMDNYITGKFRIKGPMIVVAGHMQLPKGIEIVNKNQYICSVSAGS 423 Query: 142 VVRMELTVSKGHGYVPAK----HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + M++ + YV + + I + +P++ + + Sbjct: 424 YLEMDVKIESIEEYVMPEYGSQSRNRDICKDNFIHFSSSCTPVEYFGFMGQRRGINLDTL 483 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 + + + TDGSIT + ++ + + N +D +V+ NP Sbjct: 484 GEINIVEMHTDGSITPKSALLKTIDYISENFQYMENALYNNCHTCDDGSVEEEFRNPEFY 543 Query: 258 KKVE 261 + Sbjct: 544 MDKD 547 >gi|152218448|gb|ABS31658.1| RpoA [Francisella philomiragia subsp. philomiragia ATCC 25015] Length = 167 Score = 115 bits (287), Expect = 1e-23, Method: Composition-based stats. Identities = 53/170 (31%), Positives = 92/170 (54%), 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 D Sbjct: 64 FEIFDNGTN-----ETLEVFVKTNGTIEPLVAVTKALEYFCEQISVFVSLRVPSNGKTGD 118 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + S +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ +++ Sbjct: 119 ALLDSN-IDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMK 167 >gi|246880788|gb|ACS95100.1| alpha subunit of RNA polymerase [Dunaliella salina] Length = 547 Score = 115 bits (287), Expect = 1e-23, Method: Composition-based stats. Identities = 43/165 (26%), Positives = 71/165 (43%), Gaps = 25/165 (15%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + + G + T+ NALRR L+S G AI +V+ID V HE S++ GV Sbjct: 6 IENNKSFYGCFYLGSFDSGQSITVANALRRSLLSDCTGLAIISVKIDAVQHEYSTLPGVR 65 Query: 80 EDLTDIILNIKGINLK-------------------------MSGDSHKRVTIFKRGPGVV 114 + + DI+LN K I LK + + +GPG++ Sbjct: 66 DSVLDILLNFKEIVLKKVKNPFGGPNGYKNKGLSSVYDKVGSTFFKPVVGYLKVKGPGII 125 Query: 115 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 A D++ I+ ++P+ I L D V+ ++ + +G Y K Sbjct: 126 RAKDLRLPPFIQCVDPNQYIATLAEDGVLNVKFVIMEGKSYYVQK 170 >gi|228311784|pdb|2JZB|A Chain A, Solution Structure Of The Complex Between E.Coli Nusa-Ar2 And Rnap-Actd Length = 99 Score = 114 bits (286), Expect = 2e-23, 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|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 = 113 bits (284), Expect = 3e-23, Method: Composition-based stats. Identities = 52/244 (21%), Positives = 97/244 (39%), Gaps = 9/244 (3%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 T + NA RRV + L+G TA++I G+ HE I GV E+ D+ Sbjct: 237 YTYFFMHSHEVELSPIFLNAFRRVAIKHLKGGRATALRIPGMKHEYYCIVGVRENFFDLS 296 Query: 87 LNIKGINLKM---SGDSHKRVTIFKRGPGVVT--AGDIQTVNDIEVLNPDHVICNLDVDA 141 N++ I K + D + +T R G + AG +Q +IE++N + IC + + Sbjct: 297 QNLRQITFKNVPENADMNNYITGKFRIKGPMIVVAGHMQLPKNIEIINKNQYICYVAAGS 356 Query: 142 VVRMELTVSKGHGYVPAK----HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + M++ + YV + + I + +P++ +T + + Sbjct: 357 YLEMDVKIESIEEYVMPEYGSQSRNRDICKDNFIHFCSSCTPVEHFGFTGQRRGINLDVL 416 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 + + + TDGSIT + ++ + + N ED +++ NP Sbjct: 417 GEINIVEMHTDGSITPKTALLKTIDYMSENFQYMENALHNNCHSCEDGSLEEEFRNPEFY 476 Query: 258 KKVE 261 E Sbjct: 477 MDKE 480 >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 = 113 bits (283), Expect = 4e-23, Method: Composition-based stats. Identities = 54/245 (22%), Positives = 100/245 (40%), Gaps = 9/245 (3%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 + T + NA RRV + L+G +TA++I G+ HE I GV E+ D+ Sbjct: 285 SYTYFFMHSHEVELSPIFLNAFRRVAIKHLKGGRVTALRIPGMKHEYYCIVGVRENFFDL 344 Query: 86 ILNIKGINLK-MSGDSHKRVTI----FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 N++ I K + D+ I +GP +V AG +Q +IE++N + IC + Sbjct: 345 SQNLRQITFKNVPEDADMNNYIIGKFRIKGPMIVVAGHMQLPKNIEIINKNQYICYVAAG 404 Query: 141 AVVRMELTVSKGHGYVPAK----HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + + M++ + YV + + I + +P++ +T + + Sbjct: 405 SYLEMDVKIESIEEYVMPEYGSQSRNRDICKDNFIHFCSSCTPVEYFGFTGQRRGINLDI 464 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 + + + TDGSIT + ++ + + N ED +V+ NP Sbjct: 465 LGEINIVEMHTDGSITPKTALLKTIDYMSENFQYIENALHNNCHSCEDGSVEEEFRNPEF 524 Query: 257 LKKVE 261 E Sbjct: 525 YMDKE 529 >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 = 113 bits (282), Expect = 5e-23, Method: Composition-based stats. Identities = 46/81 (56%), Positives = 61/81 (75%) Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL Sbjct: 3 HFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVL 62 Query: 311 GTMGLFLGMNLPDWPPESIEE 331 + GL LGM L +WPP SI + Sbjct: 63 ASRGLSLGMRLENWPPASIAD 83 >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 = 112 bits (281), Expect = 6e-23, Method: Composition-based stats. Identities = 49/244 (20%), Positives = 94/244 (38%), Gaps = 9/244 (3%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 T + NA RRV + L+G +TA++I + HE I GV E+ D+ Sbjct: 298 YTYFFMHSHEVELSPIFLNAFRRVAIKHLKGGRVTALRIPNMKHEFYCIVGVRENFFDLA 357 Query: 87 LNIKGINLKM-----SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 N++ I K D++ +GP +V AG +Q IE++N + IC++ + Sbjct: 358 QNLRHITFKNVPEEADIDNYITGKFRIKGPMIVVAGHMQLPKGIEIVNKNQYICSVSAGS 417 Query: 142 VVRMELTVSKGHGYVPAK----HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + M++ + YV + + I + +P++ + + Sbjct: 418 YLEMDVKIESIEEYVMPEYGSQSRNRDICKDNFIHFSSSCTPVEYFGFMGQRRGINLDTL 477 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 + + + TDGSIT + ++ + + N +D V+ NP Sbjct: 478 GEINIVEMHTDGSITPKSALLKTIDYISENFQYMENALYNNCHTCDDGTVQEEFRNPEFY 537 Query: 258 KKVE 261 + Sbjct: 538 MDKD 541 >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 = 112 bits (280), Expect = 1e-22, Method: Composition-based stats. Identities = 52/244 (21%), Positives = 98/244 (40%), Gaps = 8/244 (3%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 + T + NA RRV + L+G +TA++I G+ HE I GV E+ D+ Sbjct: 203 SYTYFFMHSHEVELSPIFLNAFRRVAIKHLKGGRVTALRIPGMKHEYYCIVGVRENFFDL 262 Query: 86 ILNIKGINLKM---SGDSHKRVTIFKRGPGVVT--AGDIQTVNDIEVLNPDHVICNLDVD 140 N++ I K + D + + R G + AG +Q +IE++N + IC + Sbjct: 263 SQNLRQITFKNVPENADMNNYIIGKFRIKGPMIVVAGHMQLPKNIEIINKNQYICYVAAG 322 Query: 141 AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + + M++ + YV + R + + +P++ +T + + Sbjct: 323 SYLEMDVKIESIEEYVMPEYGSQSRNRDICKDNFIFCSSCTPVEYFGFTGQRRGINLDIL 382 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 + + + TDGSIT + ++ + + N ED +V+ NP Sbjct: 383 GEINIVEMHTDGSITPKTALLKTIDYMSENFQYIENALHNNCHSCEDGSVEEEFRNPEFY 442 Query: 258 KKVE 261 E Sbjct: 443 MDKE 446 >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 = 111 bits (279), Expect = 1e-22, Method: Composition-based stats. Identities = 45/235 (19%), Positives = 88/235 (37%), Gaps = 28/235 (11%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 PL HT G+ ++ V S + G AI ++I ++E + I+ EDL +I Sbjct: 336 YQKFYIGPLNITDGHTFGSLIKYVCQSQIYGYAIVGIKIHN-MNEDTKIENTQEDLLEIA 394 Query: 87 LNIKGINLKMSG-DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 LN+ + + + + + +GP ++ AG I + ++V+N + IC + + + + Sbjct: 395 LNLSDVCIYSKEINIETNIRLIFKGPLMLVAGMIPLPSHLKVVNKEQYICTIKENGYIDI 454 Query: 146 ELTVSKGHGYVPAKHHRTENDPIG------------------LITIDALYSPIKKVSYTV 187 + + G G+ IG + A +SP + V TV Sbjct: 455 SIKIEYGKGHWITYDKGLYKREIGSDNECMKKRQIKEVVNNNYTPLTASFSPCRMVRITV 514 Query: 188 ESA--------REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 R L + I TD + ++ + + ++ L F Sbjct: 515 HKIATKYWCEDRCEFTDPKQMLVVEIWTDPRMLPKNVLLYGIKNIKKILNKFREM 569 >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 = 111 bits (277), Expect = 2e-22, Method: Composition-based stats. Identities = 46/83 (55%), Positives = 61/83 (73%) Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK Sbjct: 1 KPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKD 60 Query: 309 VLGTMGLFLGMNLPDWPPESIEE 331 VL + GL LGM L +WPP SI + Sbjct: 61 VLASRGLSLGMRLENWPPASIAD 83 >gi|157830665|pdb|1COO|A Chain A, The Cooh-Terminal Domain Of Rna Polymerase Alpha Subunit Length = 98 Score = 111 bits (277), Expect = 2e-22, 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|254701950|ref|ZP_05163778.1| DNA-directed RNA polymerase subunit alpha [Brucella suis bv. 5 str. 513] Length = 70 Score = 110 bits (274), Expect = 4e-22, 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 MIQKNWQELIKPNKVDFITHGSRTH--ATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 58 Query: 61 TAVQIDGVLHEI 72 TAVQIDGVLHE Sbjct: 59 TAVQIDGVLHEF 70 >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 = 110 bits (274), Expect = 4e-22, Method: Composition-based stats. Identities = 47/226 (20%), Positives = 96/226 (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 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 ++ +GP +V AG +Q ++E++N + IC++ + + M++ + YV + Sbjct: 327 NYMIGKFRIKGPMIVVAGHMQLPKNVEIVNRNQYICSVAAGSYLSMDVKIESIEEYVMPE 386 Query: 160 ----HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 + I + +P++ +T + + + + TDGSIT + Sbjct: 387 YGSQSRNRDICKDNFIHFSSSCTPVEHFVFTGQRRGINLDTLGEINIVEMHTDGSITPKS 446 Query: 216 SVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 ++ + + N + +D ++ NP + Sbjct: 447 ALLKTIDYISENFQYIENALYNNCHICDDGSLDEEFRNPEFYMDKD 492 >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 = 109 bits (272), Expect = 7e-22, Method: Composition-based stats. Identities = 55/296 (18%), Positives = 111/296 (37%), Gaps = 42/296 (14%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 P P TLG+ L+ + +S G + AV++ ++E ++I GV +DL +I Sbjct: 257 YQKFYMGPYPITMGWTLGSLLKVLALSRSPGHGVVAVKVHN-MNEDTTIDGVTDDLMNIA 315 Query: 87 LNIKGINL-KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 LN+ + L + RV +GP V AG I+ + +++ PD I N++ + + Sbjct: 316 LNLNEVALETLEPGGEARVRTVIKGPAQVCAGSIEWPSFVKIATPDAYITNVEEGGTLDI 375 Query: 146 ELTVSKGHGYVPAK------------------HHRTENDPIGLITIDALYSPIKKVSYTV 187 E+ + G G A E D I + + V V Sbjct: 376 EIKIEWGRGLWLADYKGLYRHEDAADAVCMRRRRIKEVDEEDFHPITTFFGGCRMVRLAV 435 Query: 188 ESAREGQVLD---------YDKLSMTIDTDGSITGEDS----VALASRILQDQLGMFINF 234 G+ D ++L + + TD S T + + ++ + +++ I Sbjct: 436 HKL-IGERWDLITSSCPDPREQLVVEVWTDRSTTPKAALEFGLSESIAWIRELKRQLIQD 494 Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTN--------CLRGENIVYMG 282 + E ++ + L++ +++ + N L+ + Y+G Sbjct: 495 ADFDGEDEQLRDTWEKIDKYKSLQQRQQMMGGPPTYNLHDTNAIPGLKESDCQYVG 550 >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 = 108 bits (271), Expect = 9e-22, 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|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 = 106 bits (265), Expect = 5e-21, Method: Composition-based stats. Identities = 45/235 (19%), Positives = 88/235 (37%), Gaps = 28/235 (11%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 PL HT G+ ++ V S + G AI ++I ++E + I+ EDL +I Sbjct: 412 YQKFYIGPLNITDGHTFGSLIKYVCQSQIYGYAIVGIKIHN-MNEDTKIENTQEDLLEIA 470 Query: 87 LNIKGINLKMSG-DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 LN+ + + + + + +GP ++ AG I + ++V+N + IC + + + + Sbjct: 471 LNLSDVCIYSKEINIETNIRLIFKGPLMLVAGMIPLPSHLKVVNKEQYICTIKENGYIDI 530 Query: 146 ELTVSKGHGYVPAKHHRTENDPIG------------------LITIDALYSPIKKVSYTV 187 + + G G+ IG + A +SP + V TV Sbjct: 531 SIKIEYGKGHWITYDKGLYKREIGSDNECMKKRQIKEVVNNNYTPLTASFSPCRMVRTTV 590 Query: 188 ESA--------REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 R L + I TD + ++ + + ++ L F Sbjct: 591 HKIATKYWCEDRCEFTDPKQMLVVEIWTDPRMLPKNVLLYGIKNIKKILKKFREM 645 >gi|150187027|emb|CAK30154.1| RNA polymerase alpha subunit [Streptococcus uberis] Length = 101 Score = 106 bits (264), Expect = 6e-21, Method: Composition-based stats. Identities = 41/101 (40%), Positives = 65/101 (64%) Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 +I GV ED+ IILNIKG+ +K + K + + GP VTAGDI T +DIE++NPDH Sbjct: 1 TIPGVREDVMQIILNIKGLAVKSYVEDEKMIELDVEGPAEVTAGDILTDSDIELVNPDHY 60 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITID 174 + + ++ +TV+K GYVPA+ ++ ++ P+G + +D Sbjct: 61 LFTIAEGHSLKATMTVAKKRGYVPAEGNKKDDAPVGTLAVD 101 >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 = 106 bits (264), Expect = 6e-21, Method: Composition-based stats. Identities = 38/69 (55%), Positives = 54/69 (78%) Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 L++V++LELSVRS NCL+ + I ++G+L+Q++E +MLR NFGR+SL EIK +L GL Sbjct: 241 LERVDDLELSVRSANCLKKDGINHVGELVQKSEDEMLRTPNFGRRSLNEIKDLLAASGLH 300 Query: 317 LGMNLPDWP 325 LGM+L WP Sbjct: 301 LGMDLSGWP 309 Score = 104 bits (259), Expect = 2e-20, Method: Composition-based stats. Identities = 36/78 (46%), Positives = 62/78 (79%) Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + ++ELELSVR++ CL+ +++ +GD + +EA++LR+ NFGRKSL E+K +LG +GL L Sbjct: 159 RSIDELELSVRTSLCLKNDDVRLVGDFARNSEAELLRIPNFGRKSLNELKEILGQVGLQL 218 Query: 318 GMNLPDWPPESIEELAKK 335 G+ LP+WPP +++ L+++ Sbjct: 219 GLALPEWPPPNVDFLSQQ 236 >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 = 105 bits (263), Expect = 8e-21, Method: Composition-based stats. Identities = 62/351 (17%), Positives = 124/351 (35%), Gaps = 52/351 (14%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE + G+ + P + A N LRRVL+S ITAV I G HE Sbjct: 7 SCIESRLRGKRN-YYSRFYIGPFLKNQAFLYSNVLRRVLLSDSSNIVITAVNIVGAKHEY 65 Query: 73 SSIKGVHEDLTDIILN------IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 S + GV E D++LN +K I K + + GP ++ DI N I Sbjct: 66 SLLPGVRESSLDLLLNLKELVFVKDIYTKFNKSYF--AYLKSNGPKIIRCSDIILPNTIY 123 Query: 127 VLNPDHVICNLDVDAVVRMELT-----VSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 ++ I + + + +++ ++ + + + + + I +S I Sbjct: 124 AVDSTQYIATISNNKSLILKMKLTANLLNNFYSNLNYELNSLLSYYTNDILEKTNFSLII 183 Query: 182 KVSYTVESAREGQVLDYDKLS-------MTIDTDGSITGEDSVALASRILQDQLGMFINF 234 +++ + ++ D L + + T+ S + + + + + + + Sbjct: 184 DPNFSCVNKVNSSLISLDNLENYNDSISLEVWTNSSYSPRIIIQNSIKSMVNLFLSIYDT 243 Query: 235 EEPKKEVKEDINVKSLP-------------------------------FNPALLKKVEEL 263 +++ N L ++EL Sbjct: 244 SFIDIKLENSDNFLENHLVSLSNRATFFKKSFFNICTEFNTVKYKTSFDKNLTLISIDEL 303 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +LS+ S L+ NI+ + DL + + + R N K+L I+ + G Sbjct: 304 DLSIYSKFLLKRHNILTLYDLFKIDKRVLERFYNISYKTLQSIERKMVKYG 354 >gi|119662857|emb|CAJ33221.1| RNA polymerase alpha subunit [Lactobacillus coryniformis subsp. coryniformis KCTC 3167] Length = 98 Score = 105 bits (262), Expect = 1e-20, Method: Composition-based stats. Identities = 36/97 (37%), Positives = 64/97 (65%) Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 + ID++Y+PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA++IL + L + Sbjct: 2 LPIDSIYTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLAAKILTEHLDI 61 Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 F+N + K + + + P L +EEL+LSV Sbjct: 62 FVNLTDEAKNAEIMVEKEETPKEKMLEMTIEELDLSV 98 >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 = 104 bits (260), Expect = 2e-20, Method: Composition-based stats. Identities = 45/261 (17%), Positives = 97/261 (37%), Gaps = 28/261 (10%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 + I Q + PL HT G+ ++ V + + G AI +++ ++E + I Sbjct: 468 DIIKYPQNGKLYQKFYIGPLNITDGHTFGSLIKYVCQTQIYGYAIVGIKVHN-MNEDTKI 526 Query: 76 KGVHEDLTDIILNIKGINLKMSG-DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 V EDL +I LNI + + + + + +GP ++ AG I + ++++N +H I Sbjct: 527 NNVQEDLLEIALNISDVCIYSKEINLESNIRLIFKGPLMLVAGMIPLPSHLKIINKEHYI 586 Query: 135 CNLDVDAVVRMELTVSKGHGYVP-------AKHHRTEND-----------PIGLITIDAL 176 C + D + + + + G G+ + ++ND + I + Sbjct: 587 CTIKEDGFIDISIKIEYGKGHWLTYDKGLYKRERGSDNDCMKKREIKEVVHKNYMPISSS 646 Query: 177 YSPIKKVSYTVESA--------REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 + + + TV R L + I TD + ++ + + ++ L Sbjct: 647 FGACRMIRLTVHKIATKFWCEDRCEFTDPKQMLVVEIWTDCRMLPKNVLLYGIKNIKKIL 706 Query: 229 GMFINFEEPKKEVKEDINVKS 249 F + + Sbjct: 707 RKFREMIVKDTDFTFQEEEQE 727 >gi|169835538|ref|ZP_02868726.1| hypothetical protein cdivTM_00193 [candidate division TM7 single-cell isolate TM7a] Length = 96 Score = 103 bits (257), Expect = 4e-20, Method: Composition-based stats. Identities = 35/90 (38%), Positives = 54/90 (60%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + EPL G+ +TLGN+LRRVLMSS+ GAA+ + +I+G HE +++ G+ Sbjct: 6 IEDYSSTSAAFTVEPLRGGYGNTLGNSLRRVLMSSIHGAAVISFKIEGATHEFTTVPGIK 65 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKR 109 ED+ DI LN+K + +KM D + + K Sbjct: 66 EDVVDISLNLKSVKIKMHTDDPIELRLEKH 95 >gi|81301|pir||S05342 DNA-directed RNA polymerase (EC 2.7.7.6) alpha chain - green alga KS3/2 chloroplast (fragment) Length = 129 Score = 103 bits (257), Expect = 4e-20, Method: Composition-based stats. Identities = 41/115 (35%), Positives = 62/115 (53%), Gaps = 2/115 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 +L P + T+ NALRR L++ L AIT ++I+GV HE S++ G Sbjct: 15 CILENPRSFYGSFSLGPFKNSQSLTVANALRRTLLAELSNIAITHLEIEGVTHEYSTLVG 74 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVT--IFKRGPGVVTAGDIQTVNDIEVLNP 130 V E + D++LN KGI LK + K + + RGPGVV A D++ I+ ++P Sbjct: 75 VRESVLDLLLNFKGIALKNTSPVTKPLFGYLQVRGPGVVRASDLKFPPMIQCVDP 129 >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 = 102 bits (255), Expect = 7e-20, Method: Composition-based stats. Identities = 53/256 (20%), Positives = 99/256 (38%), Gaps = 37/256 (14%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 P P T+G+ L+ + S G A+ AV+I +++ +++ GV +DL +I Sbjct: 262 YQKFYMGPYPVTMGWTIGSLLKVMTQSRCPGHAVVAVKIHN-MNKDTTVDGVADDLLNIA 320 Query: 87 LNIKGINL-KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 LN K + L + RV +GP +V AG ++ +++ NP+ I L+ A + + Sbjct: 321 LNFKMVALQTLEPGKEARVRTKIKGPAMVCAGALEWPPFVKICNPESYITKLEEGAELDL 380 Query: 146 ELTVSKGHGYVPAKHHR------------------TENDPIGLITIDALYSPIKKVSYTV 187 E+ + G G+ A E G ++ + + V Sbjct: 381 EIKIEWGRGFWMADSKGLYRVEEGANSLCQKRRDIKEVKEEGFYPTSCVFGGCRMIRLAV 440 Query: 188 ESAREGQVL---------DYDKLSMTIDTDGSITGEDSVALA-------SRILQDQLGMF 231 GQ D+L + I TD S T + + L+ Q+ Sbjct: 441 HKL-MGQRWCSLTYTCPDPMDQLVVEIWTDVSTTPKHVLEFGLCEVIAWLTELKRQVSHD 499 Query: 232 INFEEPKKEVKEDINV 247 ++FE +++K+ Sbjct: 500 VDFENEDEQLKDIWEK 515 >gi|62361814|gb|AAX81443.1| RNA polymerase alpha subunit [Simkania negevensis] Length = 159 Score = 102 bits (255), Expect = 8e-20, Method: Composition-based stats. Identities = 51/159 (32%), Positives = 82/159 (51%), Gaps = 17/159 (10%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-----------------S 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|119662819|emb|CAJ33202.1| RNA polymerase alpha subunit [Lactobacillus diolivorans] Length = 98 Score = 102 bits (254), Expect = 1e-19, Method: Composition-based stats. Identities = 49/96 (51%), Positives = 61/96 (63%), Gaps = 2/96 (2%) Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE S+IKGV ED+T IILN+K I+LK+ G D + + I GP VTAGDIQ +D+ Sbjct: 3 VLHEFSTIKGVVEDVTQIILNVKKISLKLDGPEDEEENLEIDVIGPADVTAGDIQGDSDV 62 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 VLNPD I + A M LT +KG GYV A + Sbjct: 63 TVLNPDLHIATVAEGATFHMRLTANKGRGYVSAVEN 98 >gi|289804411|ref|ZP_06535040.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 74 Score = 102 bits (254), Expect = 1e-19, Method: Composition-based stats. Identities = 37/77 (48%), Positives = 51/77 (66%), Gaps = 3/77 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGV 78 V+IDGVLHE S+ +GV Sbjct: 58 EVEIDGVLHEYSTKEGV 74 >gi|183397279|gb|ACC62186.1| RpoA1 [Francisella noatunensis] Length = 154 Score = 101 bits (253), Expect = 1e-19, Method: Composition-based stats. Identities = 50/160 (31%), 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 D + S Sbjct: 61 S-----ETLEVFVKTNGTIEPLAAVTKALEYFCEQISVFVSLRVPSNGKTGDALLDSN-I 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 = 101 bits (252), Expect = 2e-19, 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 +D+ ++PIK+V++ + Sbjct: 1 PIATLTNEREFSLTATVSVGRNVGILSALPTELEKVGDIAVDSDFNPIKRVAFEIFDNGT 60 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 + L + + T+G+I +V A +Q+ +F++ P D + S Sbjct: 61 N-----ETLEVFVKTNGTIEPLVAVTKALEYFCEQISVFVSLRVPSNGKTGDALLDSN-I 114 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ + Sbjct: 115 DPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQL 154 >gi|183397281|gb|ACC62187.1| RpoA1 [Francisella noatunensis] Length = 154 Score = 100 bits (250), Expect = 2e-19, Method: Composition-based stats. Identities = 49/160 (30%), Positives = 84/160 (52%), Gaps = 6/160 (3%) Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L + + TVS G E + +G I +DA ++PIK+V++ + Sbjct: 1 PIATLTNEREFSLVATVSVGRNVGILSALPIELEKVGDIAVDADFNPIKRVAFEIFD--- 57 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 + L + + T+G+I +V A +Q+ +F++ + P D + S Sbjct: 58 --NSASETLEVFVKTNGTIEPLAAVTKALEYFCEQISVFVSLKVPSNGKTGDALLDSN-I 114 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ + Sbjct: 115 DPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQL 154 >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 = 100 bits (249), Expect = 3e-19, 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|156089709|ref|XP_001612261.1| hypothetical protein [Babesia bovis T2Bo] gi|154799515|gb|EDO08693.1| hypothetical protein BBOV_III011410 [Babesia bovis] Length = 610 Score = 100 bits (248), Expect = 4e-19, Method: Composition-based stats. Identities = 49/232 (21%), Positives = 91/232 (39%), Gaps = 26/232 (11%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ++ T L L N+LRRV L ITA++I G+ +E SI G+ ED D Sbjct: 219 KSFTFYYVHSLHTNVIPVLLNSLRRVAKRHLGAGRITALRIPGMKNEFYSIVGLREDFFD 278 Query: 85 IILNIKGINLKM-----SGDSHKRVTIFKRGPGVVTAGDIQTVND--------------- 124 + N+ + + + + +GP + AG I+ Sbjct: 279 LSRNLTKVIFRNVPMTATFHRPLIGRLRLKGPIIAVAGHIELDQTFQKEGVGSSSGSKDD 338 Query: 125 --IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH----RTENDPIGLITIDALYS 178 IE++N + IC L DA + ME+ + YV + + P G I + + Sbjct: 339 RRIEIVNKNQYICALSRDAYLDMEVKIEYIANYVMPEKGPESLNRDITPDGFIHFSSSCT 398 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 PI+ ++ + + + +++ + TDGS T ++ + ++ Sbjct: 399 PIEVFAFDGDRRGIDEESTSEIVTLELHTDGSTTPRLALLNCATFIETWFER 450 >gi|119662805|emb|CAJ33194.1| RNA polymerase alpha subunit [Lactobacillus manihotivorans] Length = 89 Score = 99.7 bits (247), Expect = 7e-19, Method: Composition-based stats. Identities = 36/89 (40%), Positives = 55/89 (61%) Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 K V I GP VTA DI + +D+EVLNP+ IC + + +TV G GYV A Sbjct: 1 EDKTVEIDVAGPATVTAADIVSDSDVEVLNPEQYICTVAEGGRFHVRMTVKTGRGYVAAD 60 Query: 160 HHRTENDPIGLITIDALYSPIKKVSYTVE 188 ++ ++ PIG++ ID++++PI +V+Y VE Sbjct: 61 QNKVDDMPIGVLPIDSIFTPISRVNYQVE 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 = 98.5 bits (244), Expect = 1e-18, Method: Composition-based stats. Identities = 30/87 (34%), Positives = 47/87 (54%) Query: 234 FEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 + + + + + L +EEL+LSVRS NCL+ I + +L +TE DM+ Sbjct: 1 MTDEAQHAEIMVEKEEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMM 60 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMN 320 ++ N GRKSL E+K L +GL L + Sbjct: 61 KVRNLGRKSLEEVKAKLEELGLGLRKD 87 >gi|183397277|gb|ACC62185.1| RpoA1 [Francisella sp. PQ1104] gi|183397283|gb|ACC62188.1| RpoA1 [Francisella sp. PQ1105] Length = 154 Score = 98.5 bits (244), Expect = 1e-18, Method: Composition-based stats. Identities = 50/160 (31%), Positives = 85/160 (53%), 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 D + S Sbjct: 61 S-----ETLEVFVKTNGTIESLAAVTKALKYFCEQISVFVSLRVPSNGKTGDALLDSN-I 114 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ + Sbjct: 115 DPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQL 154 >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 = 97.3 bits (241), Expect = 3e-18, 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|221487600|gb|EEE25832.1| hypothetical protein TGGT1_089410 [Toxoplasma gondii GT1] Length = 1082 Score = 97.0 bits (240), Expect = 4e-18, Method: Composition-based stats. Identities = 55/291 (18%), Positives = 107/291 (36%), Gaps = 60/291 (20%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH------ 70 ++ + + P+P T+G+ ++ G AI A+++ Sbjct: 602 VTIIPETGHLYQKLYIGPVPVTTGWTMGSLIKAFAAQRCPGHAIVALKLHAPRKPNAGGR 661 Query: 71 ---------------------EISSIKGVHEDLTDIILNIKGINL-KMSGDSHKRVTIFK 108 ++ + V EDL +I LN+KG+ + V + Sbjct: 662 RGRKKTGEGEPQSAGGEAEAPMVTQLPNVREDLLEIALNLKGVAFETLRPRESACVRVKA 721 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTEN 165 GP ++ AG I + + V NP+H I ++ V+ +E+ + G G A H R E Sbjct: 722 VGPQLLVAGMIDWPSFVRVGNPEHFIAKVEEGGVLDLEMKLEWGRGAWLADLHGLYREEE 781 Query: 166 ---------------DPIGLITIDALYSPIKKVSYTVESA--------REGQVLDYDKLS 202 D G ++ + V R+ ++L Sbjct: 782 GVDTRCYKRRRIWEVDHRGFYPTSCIFGACTMMRLAVHKLMGTRFCQDRQASTNPTEQLV 841 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 + I TD S + ++ +A A LQD L F++ ++++ ED++ K+ + Sbjct: 842 LEIWTDASKSPKEVLAFA---LQDMLAWFVDL---RRQLVEDVDWKTEDED 886 >gi|71904766|gb|AAZ52664.1| DNA-dependent RNA polymerase alpha chain [Mycoplasma hominis ATCC 23114] Length = 180 Score = 97.0 bits (240), Expect = 4e-18, Method: Composition-based stats. Identities = 29/139 (20%), Positives = 70/139 (50%) Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + +D+ +SPIKKV+ E + ++L + ++TDG++ ++ + A++I+ Sbjct: 16 FLAMDSDFSPIKKVAILFEELNSTSNIIEERLKIKVETDGTVEAKNVMEEAAKIIVAHFQ 75 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 + N + D + P + +++L L++RS N LR + ++++ ++ Sbjct: 76 IIGNIDALGTIDLFDDQKEKHEKTPKVSVSIDKLNLTIRSLNALRRAGFNNVDEIMKLSD 135 Query: 290 ADMLRMANFGRKSLVEIKG 308 ++ + N G+KS+ +I Sbjct: 136 EELSNIKNLGKKSVQDIID 154 >gi|166714638|gb|ABY88044.1| RpoA [Pseudoxanthomonas dokdonensis] Length = 122 Score = 95.8 bits (237), Expect = 8e-18, Method: Composition-based stats. Identities = 43/124 (34%), Positives = 72/124 (58%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R +D G + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 LNMRLKIERGFGYQPAAARRHPDDETRTIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + I+T+G+I E++V A+ IL DQL +F +F ++ + +P LL+ Sbjct: 62 KLVLDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRQRG---EAKPSPTGVDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >gi|166714704|gb|ABY88077.1| RpoA [Stenotrophomonas sp. ICB220] Length = 122 Score = 95.8 bits (237), Expect = 8e-18, Method: Composition-based stats. Identities = 43/124 (34%), Positives = 72/124 (58%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R +D G + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 LNMRLKIERGFGYQPAAARRHPDDETRTIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + I+T+G+I E++V A+ IL DQL +F +F ++ + +P LL+ Sbjct: 62 KLVLDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRQRG---EAKPSKTGVDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >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 = 95.4 bits (236), Expect = 1e-17, 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|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 = 95.0 bits (235), Expect = 1e-17, 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|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 = 95.0 bits (235), Expect = 1e-17, Method: Composition-based stats. Identities = 63/193 (32%), Positives = 95/193 (49%), Gaps = 6/193 (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 KHHRTENDP--IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 R G +DA +SP+K+VSY V SA D+ + I+T+G + G + Sbjct: 145 AQARARWSRVLAGYTVVDAHFSPVKRVSYKVSSA--EDDRSCDRAQLVIETNG-VDGAHA 201 Query: 217 VALASRILQDQLG 229 V A R L Sbjct: 202 VVDACRELSRCFQ 214 >gi|166714644|gb|ABY88047.1| RpoA [Stenotrophomonas sp. LMG 10857] Length = 122 Score = 95.0 bits (235), Expect = 1e-17, Method: Composition-based stats. Identities = 44/124 (35%), Positives = 73/124 (58%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R ++ G + +DA +SP+++V+Y+VE+AR Q D D Sbjct: 2 INMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYSVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL M I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 62 KLVMDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPAN---NGVDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >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 = 95.0 bits (235), Expect = 1e-17, Method: Composition-based stats. Identities = 51/255 (20%), Positives = 95/255 (37%), Gaps = 52/255 (20%) Query: 28 TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIIL 87 T L L N+LRRV L ITA++I G+ +E S+ G+ ED +++ Sbjct: 166 TFFYIHSLHTDVIPVLLNSLRRVAKRHLGSGRITALRIPGMENEFYSVVGLREDFFELVR 225 Query: 88 NIKGINLKM-----SGDSHKRVTIFKRGPGVVTAGDIQTV-------------------- 122 N++G+ K + T+ +GP + AG ++ Sbjct: 226 NLRGVIFKNVPKTATFHRPVIATLRLKGPIIAVAGHLKFDNKRSTKTASDIDNKTENKND 285 Query: 123 -----------------------NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 +IEV+N +H IC+L + M++ + YV + Sbjct: 286 NTDTKADNEEGVINDYVYDKKYTGEIEVINKNHYICSLSQGCYLTMDVKIEYISNYVIPE 345 Query: 160 ----HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 + P G I + +P++ +T E + + +S+ + TDGS T Sbjct: 346 FGPESLNRDITPDGFIHFCSSCNPVEIFGFTGERRGLDEQSTSEIVSLELHTDGSATPRV 405 Query: 216 SVALASRILQDQLGM 230 ++ ++ L + Sbjct: 406 ALLRSATFLLNWFDR 420 >gi|166714628|gb|ABY88039.1| RpoA [Stenotrophomonas maltophilia] Length = 122 Score = 95.0 bits (235), Expect = 2e-17, Method: Composition-based stats. Identities = 42/124 (33%), Positives = 74/124 (59%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M + + +G+GY PA R+ ++ G + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMAVKIERGYGYQPAAARRSPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFNHRDRGAAKPAN---NGVDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >gi|221507397|gb|EEE33001.1| RNA polymerase Rpb3/Rpb11 dimerisation domain-containing protein, putative [Toxoplasma gondii VEG] Length = 1084 Score = 95.0 bits (235), Expect = 2e-17, Method: Composition-based stats. Identities = 53/291 (18%), Positives = 106/291 (36%), Gaps = 60/291 (20%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH------ 70 ++ + + P+P T+G+ ++ G A+ A+++ Sbjct: 604 VTIIPETGHLYQKLYIGPVPVTTGWTMGSLIKAFAAQRCPGHAVVALKLHAPRKPNAGGR 663 Query: 71 ---------------------EISSIKGVHEDLTDIILNIKGINL-KMSGDSHKRVTIFK 108 ++ + V EDL +I LN+KG+ + V + Sbjct: 664 RGRKKTGEGEPQSAGGEAEAPMVTQLPNVREDLLEIALNLKGVAFETLRPRESACVRVKA 723 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTEN 165 GP ++ AG I + + V NP+H I ++ V+ +E+ + G G A H R E Sbjct: 724 VGPQLLVAGMIDWPSFVRVGNPEHFIAKVEEGGVLDLEMKLEWGRGAWLADLHGLYREEE 783 Query: 166 ---------------DPIGLITIDALYSPIKKVSYTVESA--------REGQVLDYDKLS 202 D G ++ + V R+ ++L Sbjct: 784 GVDTRCYKRRRIWEVDHRGFYPTSCIFGACTMMRLAVHKLMGTRFCQDRQASTNPTEQLV 843 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 + I TD S + ++ +A A LQD L ++ ++++ ED++ K+ + Sbjct: 844 LEIWTDASKSPKEVLAFA---LQDMLAWLVDL---RRQLVEDVDWKTEDED 888 >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 = 95.0 bits (235), Expect = 2e-17, Method: Composition-based stats. Identities = 53/291 (18%), Positives = 106/291 (36%), Gaps = 60/291 (20%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH------ 70 ++ + + P+P T+G+ ++ G A+ A+++ Sbjct: 143 VTIIPETGHLYQKLYIGPVPVTTGWTMGSLIKAFAAQRCPGHAVVALKLHAPRKPNAGGR 202 Query: 71 ---------------------EISSIKGVHEDLTDIILNIKGINL-KMSGDSHKRVTIFK 108 ++ + V EDL +I LN+KG+ + V + Sbjct: 203 RGRKKTGEGEPQSAGGEAEAPMVTQLPNVREDLLEIALNLKGVAFETLRPRESACVRVKA 262 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTEN 165 GP ++ AG I + + V NP+H I ++ V+ +E+ + G G A H R E Sbjct: 263 VGPQLLVAGMIDWPSFVRVGNPEHFIAKVEEGGVLDLEMKLEWGRGAWLADLHGLYREEE 322 Query: 166 ---------------DPIGLITIDALYSPIKKVSYTVESA--------REGQVLDYDKLS 202 D G ++ + V R+ ++L Sbjct: 323 GVDTRCYKRRRIWEVDHRGFYPTSCIFGACTMMRLAVHKLMGTRFCQDRQASTNPTEQLV 382 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 + I TD S + ++ +A A LQD L ++ ++++ ED++ K+ + Sbjct: 383 LEIWTDASKSPKEVLAFA---LQDMLAWLVDL---RRQLVEDVDWKTEDED 427 >gi|166714682|gb|ABY88066.1| RpoA [Stenotrophomonas sp. LMG 981] Length = 122 Score = 94.6 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 43/125 (34%), Positives = 73/125 (58%), Gaps = 6/125 (4%) Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M L + +G GY PA R ++ G + +DA +SP+++V+Y+VE+AR Q D Sbjct: 1 SINMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYSVEAARVEQRTDL 60 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 61 DKLVIEIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPAN---NGVDPVLLR 117 Query: 259 KVEEL 263 +++L Sbjct: 118 PIDDL 122 >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 = 94.6 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 43/124 (34%), Positives = 72/124 (58%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R ++ G + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRARGAAKPAN---NGVDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >gi|166714634|gb|ABY88042.1| RpoA [Stenotrophomonas nitritireducens] Length = 122 Score = 94.6 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 44/124 (35%), Positives = 72/124 (58%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L V +G GY PA R ++ G + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKVERGFGYQPAASRRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPAN---NGVDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >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 = 93.9 bits (232), Expect = 3e-17, Method: Composition-based stats. Identities = 43/124 (34%), Positives = 72/124 (58%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R ++ G + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPAN---NGVDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >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 = 93.9 bits (232), Expect = 3e-17, Method: Composition-based stats. Identities = 44/124 (35%), Positives = 72/124 (58%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L V +G GY PA R ++ G + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKVERGFGYQPAAARRRPDEESRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPAN---NGVDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >gi|166714636|gb|ABY88043.1| RpoA [Stenotrophomonas koreensis] Length = 122 Score = 93.9 bits (232), Expect = 3e-17, Method: Composition-based stats. Identities = 45/124 (36%), Positives = 72/124 (58%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L V +G GY PA R ++ G + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 LNMRLKVERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + IDT+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 62 KLVLDIDTNGTIDAEEAVRTAADILTDQLSVFGDFTHRDRGAAKPTN---NGVDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >gi|166714656|gb|ABY88053.1| RpoA [Stenotrophomonas sp. LMG 11114] Length = 122 Score = 93.9 bits (232), Expect = 3e-17, Method: Composition-based stats. Identities = 43/124 (34%), Positives = 71/124 (57%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R ++ G + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + I+T+G+I ED+V + IL DQL +F +F + + N +P LL+ Sbjct: 62 KLVIDIETNGTIDAEDAVRTGADILSDQLSVFGDFTHRDRGAAKPAN---NGVDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >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 = 93.5 bits (231), Expect = 4e-17, Method: Composition-based stats. Identities = 44/124 (35%), Positives = 72/124 (58%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 V M L + +G GY PA R ++ G + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 VNMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPAN---NGVDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >gi|166714650|gb|ABY88050.1| RpoA [Stenotrophomonas sp. LMG 10890] Length = 122 Score = 93.5 bits (231), Expect = 4e-17, Method: Composition-based stats. Identities = 44/124 (35%), Positives = 72/124 (58%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 V M L + +G GY PA R ++ G + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 VNMRLKIDRGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 62 KLVIDIETNGTIDAEEAVQTAADILSDQLSVFGDFTHRDRGAAKPAN---NGVDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >gi|166714692|gb|ABY88071.1| RpoA [Stenotrophomonas sp. LMG 11000] Length = 122 Score = 93.5 bits (231), Expect = 4e-17, Method: Composition-based stats. Identities = 42/124 (33%), Positives = 71/124 (57%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G Y PA R ++ G + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGFAYQPAALRRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPAN---NGVDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >gi|166714680|gb|ABY88065.1| RpoA [Stenotrophomonas sp. ICB207] Length = 122 Score = 93.5 bits (231), Expect = 4e-17, Method: Composition-based stats. Identities = 42/124 (33%), Positives = 71/124 (57%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R ++ G + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 LNMRLKIERGFGYQPAAARRRPDEETRTIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + I+T+G+I E++V A+ IL DQL +F +F + + +P LL+ Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGA---PKPATGGVDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >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 = 93.5 bits (231), Expect = 4e-17, Method: Composition-based stats. Identities = 31/72 (43%), Positives = 43/72 (59%) Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 S L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K Sbjct: 2 SHMKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKA 61 Query: 309 VLGTMGLFLGMN 320 L +GL L + Sbjct: 62 KLEELGLGLRKD 73 >gi|166714648|gb|ABY88049.1| RpoA [Stenotrophomonas sp. LMG 10887] Length = 122 Score = 93.1 bits (230), Expect = 6e-17, Method: Composition-based stats. Identities = 42/124 (33%), Positives = 71/124 (57%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY P R ++ G + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGFGYQPVAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPAN---NGVDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >gi|166714642|gb|ABY88046.1| RpoA [Stenotrophomonas sp. LMG 10992] Length = 122 Score = 93.1 bits (230), Expect = 6e-17, Method: Composition-based stats. Identities = 42/124 (33%), Positives = 73/124 (58%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M + + +G GY PA R+ ++ G + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMAVKIERGFGYQPAAARRSPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFNHRDRGAAKPAN---NGVDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >gi|166714646|gb|ABY88048.1| RpoA [Stenotrophomonas sp. LMG 10881] Length = 122 Score = 93.1 bits (230), Expect = 6e-17, Method: Composition-based stats. Identities = 44/125 (35%), Positives = 71/125 (56%), Gaps = 6/125 (4%) Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M L V +G GY PA R ++ G + +DA +SP+++V+Y VE+AR Q D Sbjct: 1 DINMRLKVERGFGYQPAASRRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDL 60 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + I+T+G+I E++V A IL DQL +F +F + + N +P LL+ Sbjct: 61 DKLVIDIETNGTIDAEEAVRTAGDILSDQLSVFGDFTHRDRGAAKPAN---NGVDPVLLR 117 Query: 259 KVEEL 263 +++L Sbjct: 118 PIDDL 122 >gi|166714632|gb|ABY88041.1| RpoA [Stenotrophomonas acidaminiphila] Length = 119 Score = 92.7 bits (229), Expect = 7e-17, Method: Composition-based stats. Identities = 44/122 (36%), Positives = 71/122 (58%), Gaps = 6/122 (4%) Query: 145 MELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 M L V +G GY PA R ++ G + +DA +SP+++V+Y VE+AR Q D DKL Sbjct: 1 MRLKVERGFGYQPAASRRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLDKL 60 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ ++ Sbjct: 61 VIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPAN---NGVDPVLLRPID 117 Query: 262 EL 263 +L Sbjct: 118 DL 119 >gi|224983719|pdb|3GFK|B Chain B, Crystal Structure Of Bacillus Subtilis SpxRNA POLYMERASE Alpha Subunit C-Terminal Domain Complex Length = 79 Score = 92.7 bits (229), Expect = 7e-17, Method: Composition-based stats. Identities = 30/74 (40%), Positives = 43/74 (58%) Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+ Sbjct: 5 KEEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEV 64 Query: 307 KGVLGTMGLFLGMN 320 K L +GL L + Sbjct: 65 KAKLEELGLGLRKD 78 >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 = 92.7 bits (229), Expect = 7e-17, Method: Composition-based stats. Identities = 30/77 (38%), Positives = 44/77 (57%) Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL Sbjct: 1 MVEKEEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSL 60 Query: 304 VEIKGVLGTMGLFLGMN 320 E+K L +GL L + Sbjct: 61 EEVKHKLEELGLGLRKD 77 >gi|166714678|gb|ABY88064.1| RpoA [Stenotrophomonas sp. ICB128] Length = 122 Score = 92.3 bits (228), Expect = 9e-17, Method: Composition-based stats. Identities = 42/124 (33%), Positives = 72/124 (58%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 ++M L + +G GY P R ++ G + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 IKMRLKIERGFGYQPGAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPAN---NGVDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >gi|166714630|gb|ABY88040.1| RpoA [Stenotrophomonas maltophilia] Length = 107 Score = 91.6 bits (226), Expect = 1e-16, Method: Composition-based stats. Identities = 38/106 (35%), Positives = 63/106 (59%), Gaps = 3/106 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G+GY PA R ++ G + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGYGYQPAAARRCPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 KL + I+T+G+I E++V A+ IL DQL +F +F + + Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPA 107 >gi|166714706|gb|ABY88078.1| RpoA [Stenotrophomonas sp. LMG 11108] Length = 122 Score = 90.8 bits (224), Expect = 3e-16, Method: Composition-based stats. Identities = 44/124 (35%), Positives = 69/124 (55%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L +G GY PA R ++ G + +DA +SP+++V+Y+VE+AR Q D D Sbjct: 2 INMRLKSERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYSVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL M I+T+G+I +++V A IL DQL F +F + N +P LL+ Sbjct: 62 KLVMDIETNGTIDAQEAVRTAPDILNDQLSAFGDFPHRHRGAPIPAN---NGMDPVLLRP 118 Query: 260 VEEL 263 +E+L Sbjct: 119 IEDL 122 >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 = 90.8 bits (224), Expect = 3e-16, Method: Composition-based stats. Identities = 30/71 (42%), Positives = 43/71 (60%) Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K Sbjct: 1 MEKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAK 60 Query: 310 LGTMGLFLGMN 320 L +GL L + Sbjct: 61 LEELGLGLRKD 71 >gi|166714664|gb|ABY88057.1| RpoA [Stenotrophomonas sp. LMG 10853] Length = 122 Score = 90.4 bits (223), Expect = 4e-16, Method: Composition-based stats. Identities = 42/124 (33%), Positives = 71/124 (57%), Gaps = 6/124 (4%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R ++ G + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + I+T+G+I E++V A+ I DQL +F +F + + N +P LL+ Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADIPSDQLSVFGDFTHRDRGAAKPAN---NGVDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >gi|166714666|gb|ABY88058.1| RpoA [Stenotrophomonas sp. LMG 10991] Length = 122 Score = 89.6 bits (221), Expect = 5e-16, Method: Composition-based stats. Identities = 42/124 (33%), Positives = 70/124 (56%), Gaps = 6/124 (4%) 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 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPAN---NGVDPVLLRP 118 Query: 260 VEEL 263 +++L Sbjct: 119 IDDL 122 >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 = 88.9 bits (219), Expect = 9e-16, Method: Composition-based stats. Identities = 33/122 (27%), Positives = 60/122 (49%), Gaps = 11/122 (9%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + P + T+ N +RR L+S L AIT+++I+G+LH+ SS+ G+ Sbjct: 15 IENNTSFYGCFYLGPFDDSLSQTIANDIRRTLLSELTSLAITSIEIEGILHKYSSLPGMK 74 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIF-----------KRGPGVVTAGDIQTVNDIEVL 128 E + D+I N++ I LK S +T+ GP V+ A D++ + ++ + Sbjct: 75 ETVLDLICNLQSIVLKKQEISFTNITLRSTKKTYRGFLNVSGPRVIKAMDLKLPSGLQCV 134 Query: 129 NP 130 +P Sbjct: 135 DP 136 >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|166714708|gb|ABY88079.1| RpoA [Stenotrophomonas sp. LMG 10878] Length = 116 Score = 88.5 bits (218), Expect = 1e-15, Method: Composition-based stats. Identities = 41/119 (34%), Positives = 69/119 (57%), Gaps = 6/119 (5%) Query: 148 TVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 + +G GY PA R ++ G + +DA +SP+++V+Y VE+AR Q D DKL + Sbjct: 1 KIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLDKLVID 60 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 I+T+G+I E++V A+ IL DQL +F +F + + N +P LL+ +++L Sbjct: 61 IETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPAN---NGVDPVLLRPIDDL 116 >gi|166714652|gb|ABY88051.1| RpoA [Stenotrophomonas sp. LMG 11004] Length = 98 Score = 88.1 bits (217), Expect = 2e-15, Method: Composition-based stats. Identities = 39/97 (40%), Positives = 59/97 (60%), Gaps = 3/97 (3%) Query: 143 VRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA E IG + +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|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 = 87.7 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 31/98 (31%), Positives = 46/98 (46%) Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + L + + ELS RS NCL I + DL + +E +L NFG Sbjct: 271 DEEAARRDKQLEQILSIPMSDFELSARSRNCLERAGIDRLEDLTKMSEEQLLAGKNFGET 330 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 SL EIK +L GL LG N+ PE + + + ++ Sbjct: 331 SLKEIKAILEMHGLKLGQNVHKKQPEPLYKPEELTPEE 368 Score = 81.2 bits (199), Expect = 2e-13, Method: Composition-based stats. Identities = 31/105 (29%), Positives = 48/105 (45%), Gaps = 1/105 (0%) Query: 214 EDSVALASRILQDQ-LGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 E S+ IL+ L + N + + E + V +LELSVR+ C Sbjct: 329 ETSLKEIKAILEMHGLKLGQNVHKKQPEPLYKPEELTPEERMIHEMTVSDLELSVRARKC 388 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L I +G+L+ R+ ++L + NFG SL EI+ LG + L Sbjct: 389 LARLGINTVGELVSRSADELLSVRNFGVTSLNEIREKLGEKNIRL 433 >gi|20451756|emb|CAD30546.1| DNA-directed RNA polymerase alpha subunit [Listonella anguillarum] Length = 61 Score = 87.7 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 28/64 (43%), Positives = 39/64 (60%), Gaps = 3/64 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQI 65 V I Sbjct: 58 EVVI 61 >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 = 87.3 bits (215), Expect = 3e-15, Method: Composition-based stats. Identities = 30/77 (38%), Positives = 47/77 (61%), Gaps = 4/77 (5%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGV 78 V+I+ V + +++K Sbjct: 58 EVEIE-VCYTNTALKKA 73 >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 = 87.3 bits (215), Expect = 3e-15, Method: Composition-based stats. Identities = 48/305 (15%), Positives = 98/305 (32%), Gaps = 75/305 (24%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 P P T+G+ L+ + S G A+ AV+I +++ +++ GV +DL +I Sbjct: 284 YQKFYMGPYPVTMGWTIGSLLKVMTQSRCPGHAVVAVKIHN-MNKDTTVNGVADDLLNIA 342 Query: 87 LNIKGINL---------------------------KMSGDS------------------- 100 LN+K ++ + + Sbjct: 343 LNLKMVSYTHFYTIYTHFTHLHIYTFTHLHIYTFTHLHTYTFLQIFTQFIVSLQTLEYGK 402 Query: 101 HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 RV +GP ++ AG ++ + +++ NP+ I L+ A + +E+ + G G+ A Sbjct: 403 EARVRTVIKGPAMLCAGALEWPSFVKLCNPECYITKLEEGAELDLEIKIEWGRGFWMADS 462 Query: 161 --------------HRTEN----DPIGLITIDALYSPIKKVSYTVESAREGQVL------ 196 H+ + G ++ + + V GQ Sbjct: 463 KGLYRLEEGANSLCHKRRDIKEVKEEGFYPTSCVFGGCRMIRLAVHKL-MGQRWCSLTYT 521 Query: 197 ---DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 D+L + I TD S T + + + L F + + + + Sbjct: 522 CPDPMDQLVVEIWTDVSTTPKHVLEFGLSEVIAWLTEFKRQVSHDVDFEHEDEQLKDIWE 581 Query: 254 PALLK 258 Sbjct: 582 KIDKY 586 Score = 36.1 bits (82), Expect = 8.1, Method: Composition-based stats. Identities = 16/84 (19%), Positives = 28/84 (33%), Gaps = 5/84 (5%) Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELE---LSVRS--TNCLRGENIVYMGDLIQRTE 289 EE ++ + + + E + L V S + LR M DL+ + Sbjct: 659 EEYNEKSEINAKNFEKFIPKPVEDTFENKDIDLLPVNSDIISSLRMSGFNVMADLMDYSV 718 Query: 290 ADMLRMANFGRKSLVEIKGVLGTM 313 ++ N +S IK L Sbjct: 719 EELSHFPNLSIESAKIIKNFLTEH 742 >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 = 87.3 bits (215), Expect = 3e-15, 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 = 76.2 bits (186), Expect = 7e-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|218672329|ref|ZP_03521998.1| DNA-directed RNA polymerase subunit alpha [Rhizobium etli GR56] Length = 57 Score = 86.9 bits (214), Expect = 4e-15, 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|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 = 85.8 bits (211), Expect = 8e-15, Method: Composition-based stats. Identities = 38/99 (38%), Positives = 51/99 (51%), Gaps = 1/99 (1%) Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ K L V + ELSVRS NCL+ I +GDL + +E ++L NFG Sbjct: 289 DEEAQKKRDRIAQVLSIPVTDFELSVRSRNCLQKMGIQTLGDLSRCSEQELLSSKNFGET 348 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW-PPESIEELAKKYEDK 339 SLVEI+ +L + GL LG D PE E+A D+ Sbjct: 349 SLVEIREMLNSKGLELGQFSSDKGQPEPTIEVAGLSPDE 387 Score = 69.2 bits (168), Expect = 7e-10, Method: Composition-based stats. Identities = 25/80 (31%), Positives = 40/80 (50%) Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + E ++ S L + + EL LSVR+ C+ I +G+L++RT ++L N Sbjct: 373 QPEPTIEVAGLSPDEQALLDRPISELNLSVRARKCMVRLGISTIGELVRRTGDELLECKN 432 Query: 298 FGRKSLVEIKGVLGTMGLFL 317 FG SL E++ L L L Sbjct: 433 FGVTSLNEVREKLTASNLKL 452 >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 = 9e-15, Method: Composition-based stats. Identities = 32/82 (39%), Positives = 46/82 (56%) Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ L + V + ELSVRS NCL +I +GDL + +E D+L NFG+ Sbjct: 249 DEETARNEARMKQLLDRPVTDFELSVRSRNCLHAMDIHTLGDLTRVSENDLLAGKNFGQT 308 Query: 302 SLVEIKGVLGTMGLFLGMNLPD 323 SL EI+ +L + GL +G NL + Sbjct: 309 SLDEIREMLSSFGLHIGQNLHE 330 Score = 74.6 bits (182), Expect = 2e-11, 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|166714660|gb|ABY88055.1| RpoA [Stenotrophomonas sp. LMG 957] Length = 97 Score = 85.4 bits (210), Expect = 1e-14, Method: Composition-based stats. Identities = 38/96 (39%), Positives = 59/96 (61%), Gaps = 3/96 (3%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R ++ G + +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGFGYQPAAWRRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 KL + I+T+G+I E++V A IL DQL +F +F Sbjct: 62 KLVIDIETNGTIDAEEAVRTADDILSDQLSVFGDFT 97 >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 = 85.4 bits (210), Expect = 1e-14, Method: Composition-based stats. Identities = 26/60 (43%), Positives = 37/60 (61%), Gaps = 3/60 (5%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 >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 = 85.0 bits (209), Expect = 1e-14, Method: Composition-based stats. Identities = 27/65 (41%), Positives = 40/65 (61%), Gaps = 3/65 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF +TL NALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQISTTHAKVTLEPLERGFGYTLRNALRRILLSSMPGCAVT 57 Query: 62 AVQID 66 V+ID Sbjct: 58 EVEID 62 >gi|325119669|emb|CBZ55222.1| putative RNA polymerase Rpb3/Rpb11 dimerisation domain-containing protein [Neospora caninum Liverpool] Length = 980 Score = 85.0 bits (209), Expect = 2e-14, Method: Composition-based stats. Identities = 41/194 (21%), Positives = 76/194 (39%), Gaps = 30/194 (15%) Query: 68 VLHEISSIKGVHEDLTDIILNIKGINL-KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 ++ + V ED+ +I LN+KG+ ++ + + GP ++ AG I + + Sbjct: 548 TQPMVTKLPSVREDILEIALNLKGVAFETLAPRESACIRVKVVGPQLLVAGMIGWPSFVR 607 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTEN---------------DPI 168 V NP+H I ++ V+ +E+ + G G A H R E D Sbjct: 608 VANPEHFIAKVEEGGVLDLEIKLEWGRGAWLADLHGLYREEEGVDTRCYKRRRIWEVDNR 667 Query: 169 GLITIDALYSPIKKVSYTVESA--------REGQVLDYDKLSMTIDTDGSITGEDSVALA 220 G ++ + V R+ ++L + I TD S + ++ +A A Sbjct: 668 GFYPTSCVFGACTMMRLAVHKLMGTRFCQDRQVSTNPTEQLVVEIWTDASKSPKEVLAFA 727 Query: 221 SRILQDQLGMFINF 234 LQD L ++ Sbjct: 728 ---LQDMLAWLLDL 738 >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 = 84.2 bits (207), Expect = 2e-14, Method: Composition-based stats. Identities = 46/235 (19%), Positives = 78/235 (33%), Gaps = 23/235 (9%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 +E L PL A L L L++ + T +I Sbjct: 10 WQQVEADQLDSG-LYYGRFALSPLTAKQASLLKKGLPEALLTEILCLRFTHAKIQNECVN 68 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHK-----RVTIFKRGPGVVTAGDIQTVNDIE 126 + +I G+ E L +I+ N I L + + RGP A DI+ I+ Sbjct: 69 LMNIVGIQESLDEILKNFGKIILTGKLEEFVGKGPFVAILDVRGPLNAMAVDIELPPGIK 128 Query: 127 VLNPDHVICNLDVDAVVRMELTVS------KGHGYVPAKHHRTENDPIGLITIDALYSPI 180 V I + +EL + KG + + + + I + + I Sbjct: 129 VEIETQHIATITEPIPFVVELKIELVSSTSKGETGITDEEGFSID---PNPPIQKVDTSI 185 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 + Y E + L + I TD +I +++A ASR + L + E Sbjct: 186 QCYDYQGEP--------FQTLFLDIWTDRTIHPHEALAQASRKIFGLLSLVFQAE 232 >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 = 83.9 bits (206), Expect = 3e-14, Method: Composition-based stats. Identities = 51/202 (25%), Positives = 101/202 (50%), 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 YIKGIKEDIIDIVLNIKNVIFKIKNNKT-TFFLKNYFLGPIYAYNIKTLNKNIKILNPSH 120 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRT-----ENDPIGLITIDALYSPIKKVSYTV 187 +I N + + + + V KG GY+ + + +I +D Y+P+KK Sbjct: 121 LIANAIIKTKLNILIKVKKGKGYINNNEKKKFKYYNKEKKKIVIYLDTNYTPVKKF--FF 178 Query: 188 ESAREGQVLDYDKLSMTIDTDG 209 + ++ Y+ L + I T+G Sbjct: 179 KIKKKIIKKKYEDLKIYIKTNG 200 >gi|91203075|emb|CAJ72714.1| hypothetical protein kustd1969 [Candidatus Kuenenia stuttgartiensis] Length = 380 Score = 83.5 bits (205), Expect = 5e-14, Method: Composition-based stats. Identities = 34/90 (37%), Positives = 47/90 (52%), Gaps = 3/90 (3%) Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + K L + + ELSVRS NCL NI + DL + +E D+L NFG Sbjct: 280 DEEASKKQGHEGDVLNIPISDFELSVRSRNCLEKMNIHTLRDLTRISEPDLLTFKNFGET 339 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 SL EIK +L GL LG + + +IE+ Sbjct: 340 SLNEIKAILIQKGLQLGQS---YDGHNIEK 366 >gi|168704678|ref|ZP_02736955.1| probable DNA-directed RNA polymerase alpha chain [Gemmata obscuriglobus UQM 2246] Length = 458 Score = 82.3 bits (202), Expect = 1e-13, Method: Composition-based stats. Identities = 30/78 (38%), Positives = 43/78 (55%) Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L + + ELSVRS NCL+ NI +GDL + TE +L NFG SL Sbjct: 293 EDEQLTQANRVVLEIPITDFELSVRSRNCLKRMNIRTLGDLTRVTEPQLLASKNFGETSL 352 Query: 304 VEIKGVLGTMGLFLGMNL 321 EI+ ++ T GL +G +L Sbjct: 353 DEIRAIMVTKGLRIGQSL 370 Score = 71.5 bits (174), Expect = 2e-10, Method: Composition-based stats. Identities = 27/69 (39%), Positives = 38/69 (55%) Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 S L K V +L LSVR+ C+ NI +G+L+QRT ++L NFG+ SL E++ Sbjct: 387 SPEEQATLGKPVSDLNLSVRARKCMNRLNIGTLGELVQRTADELLEAKNFGQTSLTEVRE 446 Query: 309 VLGTMGLFL 317 L L L Sbjct: 447 RLQQFNLKL 455 >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 = 81.5 bits (200), Expect = 2e-13, Method: Composition-based stats. Identities = 28/122 (22%), Positives = 58/122 (47%), Gaps = 2/122 (1%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 PL HT G+ ++ V S + G AI ++I ++E + I+ EDL +I Sbjct: 92 YQKFYIGPLNITDGHTFGSLIKYVCQSQIYGYAIVGIKIHN-MNEDTKIENTQEDLLEIA 150 Query: 87 LNIKGINLKMSG-DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 LN+ + + + + + +GP ++ AG I + ++V+N + IC + + + + Sbjct: 151 LNLSDVCIYSKEINIETNIRLIFKGPLMLVAGMIPLPSHLKVVNKEQYICTIKENGYIDI 210 Query: 146 EL 147 + Sbjct: 211 SI 212 >gi|213420797|ref|ZP_03353863.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] Length = 56 Score = 81.5 bits (200), Expect = 2e-13, 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|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 = 81.5 bits (200), Expect = 2e-13, Method: Composition-based stats. Identities = 32/80 (40%), Positives = 47/80 (58%) Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +D+ L + V + ELSVRS NCL +I +GDL + +E+D+L+ NFG Sbjct: 275 DDDMARNEARMAQLLSRPVTDFELSVRSRNCLASMDIHTLGDLTRVSESDLLQGKNFGET 334 Query: 302 SLVEIKGVLGTMGLFLGMNL 321 SLVEI+ ++ GL +G NL Sbjct: 335 SLVEIRDLMQQHGLKVGQNL 354 Score = 68.5 bits (166), Expect = 1e-09, 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|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 = 81.2 bits (199), Expect = 2e-13, Method: Composition-based stats. Identities = 31/78 (39%), Positives = 42/78 (53%) Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ ++ L V ELSVRS NCL+ I +GDL + +E ++L NFG Sbjct: 334 DEEAQRRNDRLAQTLNMPVANFELSVRSRNCLQKMGIETIGDLTRHSEQELLSSKNFGET 393 Query: 302 SLVEIKGVLGTMGLFLGM 319 SLVEI+ +L GL LG Sbjct: 394 SLVEIREMLSQKGLSLGQ 411 Score = 70.4 bits (171), Expect = 3e-10, Method: Composition-based stats. Identities = 31/104 (29%), Positives = 50/104 (48%), Gaps = 2/104 (1%) Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL--KKVEELELSVRSTN 271 E S+ +L + F KK ++ + + L + + +L LSVR+ Sbjct: 392 ETSLVEIREMLSQKGLSLGQFAGEKKSNDPPVDTSHMSPDEQALLERPIADLNLSVRARK 451 Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 C+ I +G+LI++T DML NFG SL E++ LG +GL Sbjct: 452 CMTRLQINSIGELIRKTGDDMLECKNFGVTSLNEVREKLGDLGL 495 >gi|143452|gb|AAA22708.1| RNA polymerase alpha subunit [Bacillus subtilis] Length = 65 Score = 81.2 bits (199), Expect = 2e-13, 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|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 = 81.2 bits (199), Expect = 2e-13, Method: Composition-based stats. Identities = 30/78 (38%), Positives = 44/78 (56%) Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ ++ L V + ELSVRS NCL+ + +GDL + +E ++L NFG Sbjct: 274 DEEAQRRNDRLAQVLSIPVTDFELSVRSRNCLQKMGVRTLGDLTRTSEQELLASKNFGET 333 Query: 302 SLVEIKGVLGTMGLFLGM 319 SLVEI+ +L + GL LG Sbjct: 334 SLVEIRDMLHSKGLELGQ 351 Score = 72.7 bits (177), Expect = 7e-11, Method: Composition-based stats. Identities = 29/106 (27%), Positives = 53/106 (50%), Gaps = 2/106 (1%) Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL--KKVEELELSVRSTN 271 E S+ +L + F K + +++ S+ + L + + EL LSVR+ Sbjct: 332 ETSLVEIRDMLHSKGLELGQFAAEKAVAEPVLDLASMSPDEQALLERPISELNLSVRARK 391 Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 C+ + +G+L+++T D+L NFG SL E++ L T+G+ L Sbjct: 392 CMARLGLTLIGELVRKTGDDLLECKNFGVTSLNEVREKLTTLGIKL 437 >gi|213585431|ref|ZP_03367257.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] Length = 54 Score = 81.2 bits (199), Expect = 2e-13, 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|166714710|gb|ABY88080.1| RpoA [Stenotrophomonas sp. LMG 10851] gi|166714712|gb|ABY88081.1| RpoA [Stenotrophomonas sp. LMG 10877] Length = 93 Score = 80.8 bits (198), Expect = 3e-13, Method: Composition-based stats. Identities = 35/95 (36%), Positives = 59/95 (62%), Gaps = 3/95 (3%) Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 G + +DA +SP+++V+Y VE+AR Q D DKL + I+T+G+I E++V A+ IL DQL Sbjct: 2 GRLVLDASFSPVRRVAYAVEAARVEQRTDLDKLVIDIETNGTIDAEEAVRTAADILSDQL 61 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 +F +F + + N +P LL+ +++L Sbjct: 62 SVFGDFTHRDRGAAKPAN---NGVDPVLLRPIDDL 93 >gi|291533600|emb|CBL06713.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Megamonas hypermegale ART12/1] Length = 85 Score = 80.4 bits (197), Expect = 3e-13, Method: Composition-based stats. Identities = 25/62 (40%), Positives = 40/62 (64%) Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + + + +E+L+LSVRS NCL+ I + DL+Q++E DM+++ N GRKSL E+ Sbjct: 18 PEEDNTSKVMEMTIEDLDLSVRSYNCLKRAEINTVADLMQKSEDDMIKVRNLGRKSLEEV 77 Query: 307 KG 308 K Sbjct: 78 KK 79 >gi|207092544|ref|ZP_03240331.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori HPKX_438_AG0C1] Length = 126 Score = 78.5 bits (192), Expect = 1e-12, Method: Composition-based stats. Identities = 30/85 (35%), Positives = 51/85 (60%), Gaps = 3/85 (3%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 + P+ I+ + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV Sbjct: 9 LIPSEIKVL---EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPIGLKIEGVH 65 Query: 70 HEISSIKGVHEDLTDIILNIKGINL 94 HE S++GV ED++ I+N+K I Sbjct: 66 HEFDSLRGVTEDVSLFIMNLKNIRF 90 >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 = 78.5 bits (192), Expect = 1e-12, 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|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 = 78.5 bits (192), Expect = 2e-12, Method: Composition-based stats. Identities = 53/292 (18%), Positives = 93/292 (31%), Gaps = 83/292 (28%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG---------VL 69 + L +G T+ NALRRVL+ + G IT V+ + L Sbjct: 34 TFENSSLHYGKFYLSGLKKGQGITVANALRRVLLYDIMGLGITKVKFNSKNNENLSSQKL 93 Query: 70 HEISSIKGVHEDLTDIILNIKGINL---------KMSGDS-------HKRVTIFKRGPGV 113 HE S+I G+ E + ++++N++ + K+SGDS H+ + I Sbjct: 94 HEFSTISGIRESILELLMNLRLLVWTTSPLDSNQKVSGDSSSDPLLVHEELDISSSPSLT 153 Query: 114 VTAGDIQTVNDIEVLN---------------------------------------PDHVI 134 G + + P+ + Sbjct: 154 SYLGQFSLPEYFKSKDWLSEKNKNNQSSVFVLRGKHLISADQRTNQNPNFAQLINPEQYL 213 Query: 135 CN----------LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 L +E + KG+ + + + + P+KKV+ Sbjct: 214 ATILPIQKTATGLSKFPEFEIEYKIGKGNLFENLDLQSNNEE---FLLNSGPFFPVKKVN 270 Query: 185 YTVESAREGQVLDY------DKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 YTVE + + + I TDGS+ E +++ A IL D Sbjct: 271 YTVEDIKNSTNNFLWERGFSECVFFEIWTDGSLHPEKALSQAFDILLDFFQQ 322 >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 = 78.1 bits (191), Expect = 2e-12, Method: Composition-based stats. Identities = 30/159 (18%), Positives = 62/159 (38%), Gaps = 4/159 (2%) Query: 107 FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK----HHR 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|207108315|ref|ZP_03242477.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori HPKX_438_CA4C1] Length = 130 Score = 77.7 bits (190), Expect = 2e-12, Method: Composition-based stats. Identities = 35/123 (28%), Positives = 62/123 (50%), Gaps = 12/123 (9%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 + P+ I+ + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV Sbjct: 9 LIPSEIKVL---EKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPIGLKIEGVH 65 Query: 70 HEISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQ 120 HE S++GV ED++ I+N+K I + V +GP + A D+ Sbjct: 66 HEFDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLN 125 Query: 121 TVN 123 + + Sbjct: 126 SEH 128 >gi|239933877|ref|ZP_04690830.1| DNA-directed RNA polymerase subunit alpha [Streptomyces ghanaensis ATCC 14672] Length = 88 Score = 74.2 bits (181), Expect = 3e-11, Method: Composition-based stats. Identities = 24/76 (31%), Positives = 43/76 (56%) Query: 160 HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 ++ IG I +D++YSP+ KV+Y VE+ R Q D+DKL + ++T ++ D++A Sbjct: 2 QNKQVGQEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDKLIVDVETKQAMRPRDAMAS 61 Query: 220 ASRILQDQLGMFINFE 235 A + L + G+ Sbjct: 62 AGKTLVELFGLARELN 77 >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 = 74.2 bits (181), Expect = 3e-11, Method: Composition-based stats. Identities = 48/270 (17%), Positives = 94/270 (34%), Gaps = 63/270 (23%) 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--------LSV--RSTNCLR 274 + L EL LS R N L+ Sbjct: 241 SPLMLNHELNRNLPWNPYLSPEQRVANKLK 270 >gi|166714662|gb|ABY88056.1| RpoA [Stenotrophomonas sp. LMG 978] Length = 81 Score = 73.5 bits (179), Expect = 4e-11, Method: Composition-based stats. Identities = 29/79 (36%), Positives = 48/79 (60%), Gaps = 3/79 (3%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R ++ G + +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|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 = 73.1 bits (178), Expect = 6e-11, Method: Composition-based stats. Identities = 38/216 (17%), Positives = 77/216 (35%), Gaps = 10/216 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++ PL + L L L++ + T +I + +I G+ E Sbjct: 28 HKDFAYGRFALSPLTAKESRLLKKGLFEALLTEILCLRFTHAKIQNECVNLMNIVGIQES 87 Query: 82 LTDIILNIKGINLKMSGDSHK-----RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 L +I+ N I L + + RGP A DI+ I+V I Sbjct: 88 LDEILKNFGKIILTGKLEEFVGKGPFVAILDVRGPLNAMAVDIELPPGIKVEIETQHIAT 147 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + +EL + ++ I + PI+KV+ +++ G Sbjct: 148 ITEPIPFVVELRIEL-VSSTSKGETGITDEEGFSIDPNP---PIRKVNSSIQGYEYGGQT 203 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 +++LS+ + T I +++ L S + + + + Sbjct: 204 -FERLSIEMLTSLPIIPNEALLLGSMKIMNLFQIVL 238 Score = 44.6 bits (104), Expect = 0.023, Method: Composition-based stats. Identities = 17/106 (16%), Positives = 42/106 (39%), Gaps = 12/106 (11%) Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 I + DA L + G + ++ ID+ ++P++ + +ES E Sbjct: 270 IKTILEDA-----LYMVGGRKHQGPLTDEEDDS------IDSNFTPVQNLDCRIESYEEE 318 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + +L + I T ++++ AS + + +F+ + + Sbjct: 319 GQT-FQRLFLEIWTKSPTEPQEALWEASAKILELFSLFLQTSKENE 363 >gi|110004169|emb|CAK98507.1| hypothetical protein with alpha rna polymerase domain pd001179 [Spiroplasma citri] Length = 111 Score = 71.5 bits (174), Expect = 2e-10, Method: Composition-based stats. Identities = 24/85 (28%), Positives = 44/85 (51%) Query: 233 NFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 N E ++++ + + N L +++LE++ R+ CL I + DL+ +TE ++ Sbjct: 25 NSNEIQEQITIWLEMDETERNQLLNHSIDDLEITQRTQICLEKAKIYRLSDLVSKTENEI 84 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFL 317 + N G KSL EIK + +GL Sbjct: 85 KNIKNLGEKSLTEIKEKMHELGLHF 109 >gi|255027531|ref|ZP_05299517.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes FSL J2-003] Length = 55 Score = 71.5 bits (174), Expect = 2e-10, 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-KIETIEIS-DDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTS 55 >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 = 70.8 bits (172), Expect = 3e-10, Method: Composition-based stats. Identities = 29/79 (36%), Positives = 47/79 (59%) Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GYVP++ ++ G I +D++++PIK V Y +++ + +Y+ L + I TDGSI Sbjct: 2 GYVPSEENKENLIGSGSIPMDSIFTPIKNVKYKIDNCSINKNSNYESLLLEIKTDGSINP 61 Query: 214 EDSVALASRILQDQLGMFI 232 D++ AS IL L MFI Sbjct: 62 RDALTNASNILIQHLKMFI 80 >gi|166714640|gb|ABY88045.1| RpoA [Stenotrophomonas rhizophila] Length = 79 Score = 68.1 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 30/82 (36%), Positives = 49/82 (59%), Gaps = 3/82 (3%) 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 KEDINVKSLPFNPALLKKVEEL 263 + N +P LL+ +++L Sbjct: 61 AKPAN---NGVDPVLLRPIDDL 79 >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 = 67.7 bits (164), Expect = 3e-09, Method: Composition-based stats. Identities = 37/213 (17%), Positives = 71/213 (33%), Gaps = 12/213 (5%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI--SSIKGVHEDLTD 84 PL + L LR L++ + T +I + +I G+ E L + Sbjct: 24 YGRFALSPLTAKESRLLKKGLREALLTGILCLRFTHAKIQNACKNLNLMNIVGIQESLDE 83 Query: 85 IILNIKGINLKMSGDSHK-----RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 I+ N I L + + RGP A DI+ I+V I + Sbjct: 84 ILKNFGKIILTGKLEEFVGKGPFVAILDVRGPLNAMAVDIELPPGIKVEIETQHIATITE 143 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 +EL + ++ I + PI+KV+ +++ G + Sbjct: 144 PIPFVVELRIEL-VSSTSKGETGITDEEGFSIDPNP---PIQKVNSSIQGYEYGGQT-FQ 198 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 L + I + ++ L S + + + + Sbjct: 199 TLFIEILSTSPTVPNKALLLVSMKIMNLFQIVL 231 Score = 43.8 bits (102), Expect = 0.041, Method: Composition-based stats. Identities = 17/106 (16%), Positives = 42/106 (39%), Gaps = 12/106 (11%) Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 I + DA L + G + ++ ID+ ++P++ + +ES E Sbjct: 263 IKTILEDA-----LYMVGGRKHQGPLTDEEDDS------IDSNFTPVQNLDCRIESYEEE 311 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + +L + I T ++++ AS + + +F+ + + Sbjct: 312 GQT-FQRLFLEIWTKSPTEPQEALWEASAKILELFSLFLQTSKENE 356 >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 = 66.5 bits (161), Expect = 5e-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|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 = 66.5 bits (161), Expect = 5e-09, Method: Composition-based stats. Identities = 21/62 (33%), Positives = 33/62 (53%) Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 ++ + LS RSTN L E I +GD++ TE +L++ N G+KS+ EI + Sbjct: 2 NIEALSIDTIGLSARSTNALHREEIHTVGDMLGFTEESLLQVKNLGKKSVEEIVEKIKKY 61 Query: 314 GL 315 L Sbjct: 62 KL 63 >gi|213580698|ref|ZP_03362524.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] Length = 46 Score = 65.8 bits (159), Expect = 9e-09, Method: Composition-based stats. Identities = 20/49 (40%), Positives = 28/49 (57%), Gaps = 3/49 (6%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRV 50 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+ Sbjct: 1 MQGSVTEFLKPRLVD---IEQVSSTHAKVTLEPLERGFGHTLGNALRRI 46 >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 = 64.6 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 44/240 (18%), Positives = 92/240 (38%), Gaps = 31/240 (12%) Query: 21 GQEEENRT-LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + N + PLP G A +LG +R VL+ A+ ++ + + + G Sbjct: 11 NEYNNNYAASFLIGPLPEGIAQSLGFNIRSVLLKEFPYFAVKNIRFNPENNNYKTHIGTK 70 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGP----------------------GVVTAG 117 E + II I GI+ S D +K + ++K P G++ A Sbjct: 71 ESIETIINTILGIDFNYSFDFYKAMGLYKSKPKALFQENLSKAKFLCSAKQVGEGILYAK 130 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 D+ I+ P +I ++ + T G + + + EN Sbjct: 131 DLMLPVGIKCTTPYKIIAHVTKQNFL--GFTFELGFLFGLNNNIKFENKLY-----SIKT 183 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA-LASRILQDQLGMFINFEE 236 PI+ ++ + ++++ L+ + + ++ T S+ D + L+ +L L + F++ Sbjct: 184 YPIQNINIEIINSKKSFNLNSESIILSFTTKSSLQPIDVIKILSYLLLNKHLILIKAFQQ 243 >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 = 64.6 bits (156), Expect = 2e-08, Method: Composition-based stats. Identities = 26/70 (37%), Positives = 39/70 (55%) Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 +S L E+ L+VR+TNCL I + DL+ T AD+L ++NFG K+L E+ Sbjct: 11 QESESLMSKLEMSTAEIGLTVRTTNCLEERGIFTVRDLLNCTRADLLSISNFGEKTLDEV 70 Query: 307 KGVLGTMGLF 316 L ++G F Sbjct: 71 YSSLESIGFF 80 >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 = 63.4 bits (153), Expect = 5e-08, 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|1491730|emb|CAA67855.1| orf [Musa balbisiana] Length = 67 Score = 62.3 bits (150), Expect = 1e-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|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 = 61.9 bits (149), Expect = 2e-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|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 = 61.1 bits (147), Expect = 2e-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 = 50.3 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 18/50 (36%), Positives = 33/50 (66%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 +E L LSVR+ NCL+ ++ Y LI + +++ + N GRK+L+E++ + Sbjct: 98 IENLNLSVRAFNCLKSTSVDYYSQLIDVLDEELIAIPNMGRKTLLELEHI 147 >gi|224088404|ref|XP_002335097.1| predicted protein [Populus trichocarpa] gi|222832850|gb|EEE71327.1| predicted protein [Populus trichocarpa] Length = 54 Score = 61.1 bits (147), Expect = 2e-07, 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|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 = 3e-07, Method: Composition-based stats. Identities = 25/115 (21%), Positives = 50/115 (43%), Gaps = 3/115 (2%) Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN---PALLK 258 + G ++ E+ I+Q ++ EE K + E S Sbjct: 136 IFELRNVGVLSREEITKAIESIVQSGKIVYHEREEESKTIIETAPESSRLSELLPEIESI 195 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++++ SVR+ N L+ NI +L+Q +E D++ + N G ++ EI V+ + Sbjct: 196 RLDDVPFSVRARNALKRANIQTADELVQMSEKDIMGLRNVGAQTRDEILAVINAI 250 Score = 53.8 bits (128), Expect = 4e-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|31580946|dbj|BAC77576.1| RNA polymerase alpha subunit [Nicotiana tomentosiformis] Length = 77 Score = 60.4 bits (145), Expect = 4e-07, Method: Composition-based stats. Identities = 14/48 (29%), Positives = 30/48 (62%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 +++LEL R NCL+ NI + DL+ ++ D++++ +F + + +I Sbjct: 29 IDQLELPSRIYNCLKMSNIYTLLDLLNNSQEDLMKIEHFRSEDVKQIL 76 >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 = 60.0 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 22/64 (34%), Positives = 37/64 (57%) Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 L ++E+L LSVR+ NCL+ + I Y L+ + +++ + N G+KSLVEI+ + Sbjct: 92 KYLDVEIEKLCLSVRAYNCLKSDGIEYYSQLVDKLVEELITIPNMGQKSLVEIEEKRASF 151 Query: 314 GLFL 317 L Sbjct: 152 QPEL 155 Score = 53.8 bits (128), Expect = 3e-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|31580902|dbj|BAC77553.1| RNA polymerase alpha subunit [Nicotiana sylvestris] Length = 79 Score = 59.6 bits (143), Expect = 7e-07, Method: Composition-based stats. Identities = 14/48 (29%), Positives = 29/48 (60%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 +++LEL R NCL+ NI + DL+ ++ D++++ +F + + I Sbjct: 31 IDQLELPSRIYNCLKMSNIYTLLDLLNNSQEDLMKIEHFRSEDVKRIL 78 >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 = 59.6 bits (143), Expect = 7e-07, Method: Composition-based stats. Identities = 25/70 (35%), Positives = 41/70 (58%), Gaps = 1/70 (1%) Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGEN-IVYMGDLIQRTEADMLRMANFGRKSL 303 I K L + K+E++ LS R+ + L + + +GD++ T D+L + NFGRKSL Sbjct: 128 ITAKDLHPDFQGAVKLEDIRLSHRTFHTLLNQGQMETIGDVMLTTCTDLLSLKNFGRKSL 187 Query: 304 VEIKGVLGTM 313 EIK V+ ++ Sbjct: 188 NEIKEVIRSL 197 Score = 38.8 bits (89), Expect = 1.2, Method: Composition-based stats. Identities = 27/73 (36%), Positives = 36/73 (49%), Gaps = 5/73 (6%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 V E SVR+TN L +N+ Q T D+ N GRK+++EI L +GL + Sbjct: 37 VMESGFSVRATNVLI-DNVKSFRAFEQLTAEDLAVFPNCGRKTVLEIMNFLNRIGLQREI 95 Query: 320 NLPDWPPESIEEL 332 P SIEEL Sbjct: 96 E----APVSIEEL 104 >gi|224126651|ref|XP_002319890.1| predicted protein [Populus trichocarpa] gi|222858266|gb|EEE95813.1| predicted protein [Populus trichocarpa] Length = 62 Score = 59.6 bits (143), Expect = 7e-07, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 31/53 (58%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +++LEL+ + NCL+ I + D ++ ++ D+++ +F + + I G+L Sbjct: 10 IDQLELAPKIYNCLKRSVIHTLWDFLKNSQEDLMKTEHFRIEDVKHIFGILKI 62 >gi|325120592|emb|CBZ56146.1| putative DNA-directed RNA polymerase alpha chain [Neospora caninum Liverpool] Length = 941 Score = 58.1 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 23/103 (22%), Positives = 39/103 (37%), Gaps = 4/103 (3%) Query: 101 HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP--- 157 R + RGP V AG IQ +EV+N + + ++ V M+ + + YV Sbjct: 388 PLRAKLRVRGPLVAVAGHIQLPEGVEVVNKNQYLFTVNSGYYVNMDFKIERIREYVMPEF 447 Query: 158 -AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + D G + +P+ +Y E E +D Sbjct: 448 GYDSLERDRDEEGFMYFTNHVAPVPIFAYAAERRGEAVHTKWD 490 Score = 57.7 bits (138), Expect = 3e-06, Method: Composition-based stats. Identities = 22/69 (31%), Positives = 32/69 (46%), Gaps = 1/69 (1%) Query: 28 TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT-DII 86 A NALRR +S + A+ AV+I+G HE S+ G+ ED+ DI Sbjct: 166 AFFYFHTCFSSLAPAFLNALRRTSLSRIESLAVAAVKIEGAKHEFYSLPGIREDIVDDIF 225 Query: 87 LNIKGINLK 95 N+ I + Sbjct: 226 NNLGKIVFR 234 >gi|221484912|gb|EEE23202.1| DNA-directed RNA polymerase alpha chain, putative [Toxoplasma gondii GT1] Length = 837 Score = 58.1 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 23/103 (22%), Positives = 39/103 (37%), Gaps = 4/103 (3%) Query: 101 HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP--- 157 R + RGP V AG IQ +EV+N + + ++ V M+ + + YV Sbjct: 281 PLRAKLRVRGPLVAVAGHIQLPEGVEVVNKNQYLFTVNAGYYVNMDFKIERIREYVMPEF 340 Query: 158 -AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + D G + +P+ +Y E E +D Sbjct: 341 GYDSLERDRDKEGFMYFTNYVAPVPIFAYAAERRGEAVHTKWD 383 Score = 57.7 bits (138), Expect = 3e-06, Method: Composition-based stats. Identities = 23/52 (44%), Positives = 32/52 (61%), Gaps = 1/52 (1%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT-DIILNIKGINLK 95 NALRR +S L AI+AV+I+G HE S+ G+ ED+ DI N+ I + Sbjct: 74 NALRRTSLSRLESLAISAVKIEGAKHEFYSLPGIREDIVDDIFNNLGKIVFR 125 >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 = 58.1 bits (139), Expect = 2e-06, Method: Composition-based stats. Identities = 23/103 (22%), Positives = 39/103 (37%), Gaps = 4/103 (3%) Query: 101 HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP--- 157 R + RGP V AG IQ +EV+N + + ++ V M+ + + YV Sbjct: 281 PLRAKLRVRGPLVAVAGHIQLPEGVEVVNKNQYLFTVNAGYYVNMDFKIERIREYVMPEF 340 Query: 158 -AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + D G + +P+ +Y E E +D Sbjct: 341 GYDSLERDRDKEGFMYFTNYVAPVPIFAYAAERRGEAVHTKWD 383 Score = 57.7 bits (138), Expect = 3e-06, Method: Composition-based stats. Identities = 23/52 (44%), Positives = 32/52 (61%), Gaps = 1/52 (1%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT-DIILNIKGINLK 95 NALRR +S L AI+AV+I+G HE S+ G+ ED+ DI N+ I + Sbjct: 74 NALRRTSLSRLESLAISAVKIEGAKHEFYSLPGIREDIVDDIFNNLGKIVFR 125 Score = 36.1 bits (82), Expect = 7.7, Method: Composition-based stats. Identities = 17/119 (14%), Positives = 37/119 (31%), Gaps = 16/119 (13%) Query: 152 GHGYVPAKHHRTEN-DPIGLITIDALYSPIKKVSYTV----ESAREGQVLDY-------- 198 G + + + + + +Y + E RE DY Sbjct: 485 GKDAKVNEEGSPDRPASHSSLPFASKKPEDRYNAYRLLEPSEEMREAYRRDYLENDLPYQ 544 Query: 199 ---DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 + +++ + TDGS+T ++V L Q+ + + D + +P Sbjct: 545 NLGEVVTLEVQTDGSLTPREAVLHCCDDLIKQVLDIQHALYHNCHIGVDGTEEEEFNDP 603 >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 = 28/129 (21%), Positives = 55/129 (42%), Gaps = 5/129 (3%) Query: 215 DSVALASRILQDQLGMFINFEEPKKEVKEDINVK---SLPFNPALLKKVEELELSVRSTN 271 + + + + EE ++ + I K N ++ L LSVR+ N Sbjct: 116 ECYSELLTKTEKEFESIKYSEEIIQKEIKSIRKKPNIETAINLEKDIPIDFLGLSVRAKN 175 Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 CL+ NI Y LI +TE +++ + + G +L E++ + + + G P E+ E Sbjct: 176 CLKSANIEYYSQLISKTEEELMTIKHMGVTTLKELQRLKFLIFFYFG--FPVVDTENKES 233 Query: 332 LAKKYEDKC 340 +K ++ Sbjct: 234 KEEKISNES 242 Score = 54.2 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 17/59 (28%), Positives = 29/59 (49%) Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 ++ L LS RS N L+ NI+ + DL+ ++ D+ G KS+ EI + + Sbjct: 2 KKDTSIQILHLSKRSYNVLKKFNIITIQDLLTISKEDIKNFRGIGEKSIQEILSKIEIL 60 >gi|295106723|emb|CBL04266.1| DNA-directed RNA polymerase subunit beta' [Gordonibacter pamelaeae 7-10-1-b] Length = 1473 Score = 57.7 bits (138), Expect = 3e-06, Method: Composition-based stats. Identities = 22/69 (31%), Positives = 32/69 (46%) Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 L A L ++L +S R N I + DL+ TE D+LR+ G K++ E+K Sbjct: 1309 PQLTDEDARLYIYDDLGVSQRWANKFSEAGIETVADLVGHTEEDLLRIEGIGVKAIEELK 1368 Query: 308 GVLGTMGLF 316 L GL Sbjct: 1369 EGLAERGLS 1377 >gi|166714718|gb|ABY88084.1| RpoA [Stenotrophomonas sp. LMG 11002] Length = 65 Score = 57.3 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 28/65 (43%), Positives = 45/65 (69%) Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 G + +DA +SP+++V+Y VE+A Q D DKL + I+T+G+I E++V A+ IL DQL Sbjct: 1 GRLVLDASFSPVRRVAYAVEAAAVEQRTDLDKLVIDIETNGTIDAEEAVRTAADILSDQL 60 Query: 229 GMFIN 233 +F + Sbjct: 61 SVFGD 65 >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 = 56.9 bits (136), Expect = 4e-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|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 = 56.9 bits (136), Expect = 5e-06, 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